Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_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: 2490255
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:239225 original size:16 final size:16
Alignment explanation
Indices: 239204--239237 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
239194 TAGTAACCCG
239204 TTTATTA-ATATTATAT
1 TTTATTATA-ATTATAT
239220 TTTATTATAATTATAT
1 TTTATTATAATTATAT
239236 TT
1 TT
239238 GAAGTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.94
17 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTATAATTATAT
Found at i:239415 original size:19 final size:19
Alignment explanation
Indices: 239393--239455 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
239383 CTTATTTCCA
239393 TTTGAAAGTTCAATTTTCT
1 TTTGAAAGTTCAATTTTCT
* * * *
239412 TTTGACA-TCTCTTATTTCCA
1 TTTGAAAGT-TC-AATTTTCT
239432 TTTGAAAGTTCAATTTTCT
1 TTTGAAAGTTCAATTTTCT
239451 TTTGA
1 TTTGA
239456 CCAGATGGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 13 0.39
21 1 0.03
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (19 bp):
TTTGAAAGTTCAATTTTCT
Found at i:239449 original size:20 final size:20
Alignment explanation
Indices: 239387--239449 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
239377 TTTTTCCTTA
239387 TTTCCATTTGAAAGTTCAAT
1 TTTCCATTTGAAAGTTCAAT
* * *
239407 TTT-CTTTTGACA-TCTC-TT
1 TTTCCATTTGAAAGT-TCAAT
239425 ATTTCCATTTGAAAGTTCAAT
1 -TTTCCATTTGAAAGTTCAAT
239446 TTTC
1 TTTC
239450 TTTTGACCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 16 0.50
21 2 0.06
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTCCATTTGAAAGTTCAAT
Found at i:241468 original size:20 final size:20
Alignment explanation
Indices: 241443--241480 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
241433 AAATTTTATG
241443 CAGGATATGCTTATGATATA
1 CAGGATATGCTTATGATATA
*
241463 CAGGATATGTTTATGATA
1 CAGGATATGCTTATGATA
241481 GTTTATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (20 bp):
CAGGATATGCTTATGATATA
Found at i:241758 original size:16 final size:16
Alignment explanation
Indices: 241734--241767 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
241724 TGAAATTTAA
*
241734 ATTTTTTTTATTAGTT
1 ATTTATTTTATTAGTT
*
241750 ATTTATTTTATTATTT
1 ATTTATTTTATTAGTT
241766 AT
1 AT
241768 GTCTATTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTATTTTATTAGTT
Found at i:241806 original size:26 final size:23
Alignment explanation
Indices: 241760--241810 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
241750 ATTTATTTTA
*
241760 TTATTTATGTCTATTCTAAAATT
1 TTATTTATGTCTATTATAAAATT
241783 TTATTTATGTCTACTCTATAAAAATT
1 TTATTTATGTCTA-T-TAT-AAAATT
241809 TT
1 TT
241811 GTATGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 13 0.54
24 1 0.04
25 2 0.08
26 8 0.33
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (23 bp):
TTATTTATGTCTATTATAAAATT
Found at i:241948 original size:46 final size:46
Alignment explanation
Indices: 241861--241953 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
241851 AATCTGTTAA
241861 TGTTTAAAGCATAAAAATAAGGATGACGTGTTAAACTTTGAAGTGG
1 TGTTTAAAGCATAAAAATAAGGATGACGTGTTAAACTTTGAAGTGG
* *
241907 TGTTTTAAGCATAAAAAATACGGATGACGTGTTAAAC-TTGAAGTGG
1 TGTTTAAAGCAT-AAAAATAAGGATGACGTGTTAAACTTTGAAGTGG
241953 T
1 T
241954 CAAAAATGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 21 0.48
47 23 0.52
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (46 bp):
TGTTTAAAGCATAAAAATAAGGATGACGTGTTAAACTTTGAAGTGG
Found at i:241991 original size:24 final size:24
Alignment explanation
Indices: 241959--242004 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
241949 GTGGTCAAAA
*
241959 ATGATTTTTTAATTTTAAATACGT
1 ATGATTTTTTAATTTGAAATACGT
241983 ATGATTTTTTAATTTGAAATAC
1 ATGATTTTTTAATTTGAAATAC
242005 CTATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
ATGATTTTTTAATTTGAAATACGT
Found at i:242544 original size:40 final size:40
Alignment explanation
Indices: 242488--242570 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
242478 ATTGATGTTA
* * *
242488 TTTTAGATTGCGACATGGAATGTTACTAAACATATAACAT
1 TTTTAGATTGCAACATGAAATGTTACCAAACATATAACAT
*
242528 TTTTAGTTTGCAACATGAAATGTTACCAAACATATAACAT
1 TTTTAGATTGCAACATGAAATGTTACCAAACATATAACAT
242568 TTT
1 TTT
242571 AGGTTGATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (40 bp):
TTTTAGATTGCAACATGAAATGTTACCAAACATATAACAT
Found at i:246899 original size:20 final size:21
Alignment explanation
Indices: 246854--246899 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
246844 TAACATAATT
*
246854 TCTTTTATTGGTATTTTTTCA
1 TCTTTTAATGGTATTTTTTCA
246875 T-TTTTAATGGT-TTTTTT-A
1 TCTTTTAATGGTATTTTTTCA
246893 CTCTTTT
1 -TCTTTT
246900 TTATCTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 1 0.05
19 7 0.32
20 13 0.59
21 1 0.05
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (21 bp):
TCTTTTAATGGTATTTTTTCA
Found at i:258544 original size:20 final size:20
Alignment explanation
Indices: 258521--258559 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
258511 TAAATTTATT
*
258521 ATATATATTATAAATATTAA
1 ATATATATAATAAATATTAA
* *
258541 ATATTTATAATTAATATTA
1 ATATATATAATAAATATTA
258560 TAAACATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATATATAATAAATATTAA
Found at i:259116 original size:15 final size:16
Alignment explanation
Indices: 259096--259128 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
259086 TTATATGCAT
259096 AATAAAAA-AGTATAA
1 AATAAAAATAGTATAA
*
259111 AATAAAAATATTATAA
1 AATAAAAATAGTATAA
259127 AA
1 AA
259129 AAAGTTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAAAAATAGTATAA
Found at i:259948 original size:16 final size:17
Alignment explanation
Indices: 259924--259964 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
259914 GATGTACAAA
259924 TTCGGGTACCCGG-ATT
1 TTCGGGTACCCGGAATT
*
259940 TTTGGGTACCCGGAATT
1 TTCGGGTACCCGGAATT
259957 TTCGGGTA
1 TTCGGGTA
259965 GACGATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.34
Consensus pattern (17 bp):
TTCGGGTACCCGGAATT
Found at i:272095 original size:30 final size:30
Alignment explanation
Indices: 272011--272095 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 30
272001 CATACATTTT
* * *
272011 GGTACCTGAACTTGGCTTCAAGTTCAATTT
1 GGTACTTGAACTTGACTTCAAGTTCAATTA
** ***
272041 GGTACTTG-A--TGTTTTTTTGTTCAATTA
1 GGTACTTGAACTTGACTTCAAGTTCAATTA
272068 GGTACTTGAACTTGACTTCAAGTTCAAT
1 GGTACTTGAACTTGACTTCAAGTTCAAT
272096 GTGGTGCCTT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
27 20 0.50
28 1 0.03
29 1 0.03
30 18 0.45
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (30 bp):
GGTACTTGAACTTGACTTCAAGTTCAATTA
Found at i:275155 original size:21 final size:20
Alignment explanation
Indices: 275069--275226 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
275059 AAATGACCAA
**
275069 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
275088 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
275108 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
275128 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
275149 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
275170 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
275190 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
275211 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
275227 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:275242 original size:40 final size:40
Alignment explanation
Indices: 275193--275347 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
275183 CGATTTTCCA
* ** *
275193 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
275233 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
275273 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
275313 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
275348 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:275255 original size:20 final size:20
Alignment explanation
Indices: 275193--275346 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
275183 CGATTTTCCA
* ** *
275193 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
275213 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
275233 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
275253 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
275273 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
275293 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
275313 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
275334 AAATCGCAACGCG
1 AAATCGCAACGCG
275347 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:275768 original size:33 final size:33
Alignment explanation
Indices: 275729--275799 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
275719 TTCACTTAGA
*
275729 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
275762 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
275795 TTTCA
1 TTTCA
275800 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:275923 original size:20 final size:20
Alignment explanation
Indices: 275879--275988 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
275869 TGCAGAAGAG
*
275879 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
275900 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
275920 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
275941 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
275955 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
275974 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
275989 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:275936 original size:41 final size:38
Alignment explanation
Indices: 275872--275988 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
275862 TTCAATTTGC
* *
275872 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
275910 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
275951 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
275984 AGAAT
1 AGAAT
275989 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:275958 original size:14 final size:14
Alignment explanation
Indices: 275939--275995 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
275929 GAGAAATGAA
275939 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
275953 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
275972 AATCGCAACGAGAG
1 AATCGCAACGAGAG
275986 AATCGCAACG
1 AATCGCAACG
275996 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:275971 original size:33 final size:33
Alignment explanation
Indices: 275931--276011 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
275921 CGCAACGAGA
275931 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
275964 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
275997 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
276012 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:276029 original size:19 final size:19
Alignment explanation
Indices: 276007--276104 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
275997 GAAACCAAAA
*
276007 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
276026 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
276040 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
276059 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
276073 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
276092 TCGCGTTGCGATT
1 TCGCGTTGCGATT
276105 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
16 6 0.10
17 6 0.10
19 31 0.50
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:276048 original size:14 final size:14
Alignment explanation
Indices: 276029--276118 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
276019 TTTCATTTCG
276029 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
276043 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
276062 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
276076 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
276095 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
276109 CGTTGCGATT
1 CGTTGCGATT
276119 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
16 6 0.10
17 6 0.10
19 19 0.32
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:276054 original size:33 final size:33
Alignment explanation
Indices: 276012--276126 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
276002 CAAAATCGCA
276012 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
276045 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
276078 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
276111 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
276127 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:277981 original size:93 final size:93
Alignment explanation
Indices: 277822--278569 Score: 1462
Period size: 93 Copynumber: 8.1 Consensus size: 93
277812 TAGATTGCTT
*
277822 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277887 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
277915 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277980 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278008 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
278073 TTTGTCTTTGTTTTGTCTTTTAGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278101 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
278166 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
278194 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
278259 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278287 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
278352 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278380 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
278445 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278473 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
278538 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
278565 AGTAA
1 AGTAA
278570 TGCAATCCAT
Statistics
Matches: 650, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.01
93 644 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:278657 original size:19 final size:19
Alignment explanation
Indices: 278617--278745 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
278607 TAGTTTACTT
* *
278617 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
278637 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
278656 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
278675 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
278689 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
278708 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
278722 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
278741 TCGCA
1 TCGCA
278746 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:278696 original size:33 final size:32
Alignment explanation
Indices: 278653--278745 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
278643 CGCGAAACCA
**
278653 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
278685 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
278718 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
278746 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:278743 original size:52 final size:52
Alignment explanation
Indices: 278617--278745 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
278607 TAGTTTACTT
**
278617 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
278669 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
278722 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
278746 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:278763 original size:19 final size:19
Alignment explanation
Indices: 278741--278875 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
278731 GAAACCAAAA
*
278741 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
278760 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
278776 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
278793 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
278809 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
278826 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
278845 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
278865 TCGTGTTGCGA
1 TCGCGTTGCGA
278876 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:278782 original size:14 final size:14
Alignment explanation
Indices: 278763--278819 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
278753 TTTCATTTCG
278763 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
278777 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
278794 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
278810 CGTTGCGATT
1 CGTTGCGATT
278820 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:278788 original size:33 final size:33
Alignment explanation
Indices: 278746--278838 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
278736 CAAAATCGCA
*
278746 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
278779 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
278812 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
278839 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:280817 original size:14 final size:14
Alignment explanation
Indices: 280798--280833 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
280788 ATTGTTTAAT
280798 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
280812 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
280826 TGATTTGT
1 TGATTTGT
280834 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:280964 original size:19 final size:19
Alignment explanation
Indices: 280940--281037 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
280930 AAAATTGACT
280940 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
280959 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
280978 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
280992 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
281011 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
281031 ATCGCAA
1 ATCGCAA
281038 CTGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:281069 original size:53 final size:53
Alignment explanation
Indices: 280940--281056 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 53
280930 AAAATTGACT
280940 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
280992 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACTG-GAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAAC-GAGAGA
281045 ATCGCAATGCGA
1 ATCGCAATGCGA
281057 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
52 29 0.46
53 33 0.52
54 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:281109 original size:52 final size:55
Alignment explanation
Indices: 281046--281170 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 55
281036 AACTGGAGAA
*
281046 TCGCAATGCGATTTTAATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATT
* *
281098 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGA-TTTCATCTCG-ATTGCGATTTTCATT
281155 TCCGCATTGCGATTTT
1 T-CGCATTGCGATTTT
281171 CATGTTGGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
52 28 0.44
54 3 0.05
55 4 0.06
57 15 0.23
58 14 0.22
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.46
Consensus pattern (55 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTTCATCTCGATTGCGATTTTCATT
Found at i:281162 original size:20 final size:19
Alignment explanation
Indices: 281046--281201 Score: 197
Period size: 19 Copynumber: 8.7 Consensus size: 19
281036 AACTGGAGAA
* *
281046 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
281065 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
281081 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
281098 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
281117 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
281136 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
281155 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
281173 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
281189 TCGCATTGCGATT
1 TCGCATTGCGATT
281202 CTCTCGTTGC
Statistics
Matches: 120, Mismatches: 6, Indels: 22
0.81 0.04 0.15
Matches are distributed among these distances:
14 17 0.14
16 9 0.08
17 7 0.06
18 1 0.01
19 70 0.58
20 16 0.13
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:283677 original size:24 final size:24
Alignment explanation
Indices: 283643--283689 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
283633 CTGAAACATC
283643 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
283667 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
283690 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:284399 original size:20 final size:20
Alignment explanation
Indices: 284371--284640 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
284361 AAATTTCAGT
* * *
284371 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
284391 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
284411 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
284431 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
284451 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
284471 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
284491 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
284511 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
284531 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
284551 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
284571 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
284591 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
284611 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
284631 GTTGCGATTT
1 GTTGCGATTT
284641 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:284657 original size:21 final size:21
Alignment explanation
Indices: 284627--284709 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
284617 ATTTTCATAT
*
284627 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
284648 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
284669 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
284690 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
284710 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:284700 original size:42 final size:43
Alignment explanation
Indices: 284607--284705 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
284597 ATTTATGTGT
* *
284607 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
284648 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
284690 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
284706 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:287850 original size:45 final size:45
Alignment explanation
Indices: 287791--287886 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
287781 CTTTTTGGAG
* * * *
287791 GGTAAAGTCTCCATCCTATATATCGTTTTAAGTTCCTCTTCAGAA
1 GGTAAGGTCCCCATCATATATATCGTTTTAAGTTCCGCTTCAGAA
* * * * *
287836 GGTAAGGTCCCCATCATGTTTATCTTTTTGAGTTCCGCTTCAGAG
1 GGTAAGGTCCCCATCATATATATCGTTTTAAGTTCCGCTTCAGAA
287881 GGTAAG
1 GGTAAG
287887 ATCCTTATCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (45 bp):
GGTAAGGTCCCCATCATATATATCGTTTTAAGTTCCGCTTCAGAA
Found at i:290376 original size:16 final size:16
Alignment explanation
Indices: 290355--290385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
290345 TCTAGTTTTT
290355 CCGAGTACCCAGTTAC
1 CCGAGTACCCAGTTAC
*
290371 CCGAGTACCCGGTTA
1 CCGAGTACCCAGTTA
290386 GTTTTTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (16 bp):
CCGAGTACCCAGTTAC
Found at i:290671 original size:15 final size:16
Alignment explanation
Indices: 290651--290691 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
290641 CGGAAGTTCT
290651 GGGTACCCGGAAAT-C
1 GGGTACCCGGAAATCC
**
290666 GGGTA-CCAAAAATCC
1 GGGTACCCGGAAATCC
290681 GGGTACCCGGA
1 GGGTACCCGGA
290692 TTTGCACACC
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 6 0.30
15 11 0.55
16 3 0.15
ACGTcount: A:0.29, C:0.27, G:0.32, T:0.12
Consensus pattern (16 bp):
GGGTACCCGGAAATCC
Found at i:296644 original size:24 final size:24
Alignment explanation
Indices: 296617--296683 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
296607 GGGTACGAAG
* *
296617 GGAGGAAGGAGAGGAGGAAAGGGC
1 GGAGGAAAGAGAGGAGGAAAGGGA
* * *
296641 GGAGGAAATAGCGGCGGAAAGGGA
1 GGAGGAAAGAGAGGAGGAAAGGGA
* *
296665 AGATGAAAGAGAGGAGGAA
1 GGAGGAAAGAGAGGAGGAA
296684 GACACAGAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.42, C:0.04, G:0.51, T:0.03
Consensus pattern (24 bp):
GGAGGAAAGAGAGGAGGAAAGGGA
Found at i:297051 original size:24 final size:24
Alignment explanation
Indices: 297024--297074 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
297014 TCGAGTCCGG
297024 GGATAGGGGCGGCGGAGCTGAGGA
1 GGATAGGGGCGGCGGAGCTGAGGA
* * *
297048 GGATTGTGGTGGCGGAGCTGAGGA
1 GGATAGGGGCGGCGGAGCTGAGGA
297072 GGA
1 GGA
297075 AGAGGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.57, T:0.14
Consensus pattern (24 bp):
GGATAGGGGCGGCGGAGCTGAGGA
Found at i:301190 original size:17 final size:15
Alignment explanation
Indices: 301163--301211 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
301153 AATTTTTCTA
301163 ATTTAT-TTTATTTT
1 ATTTATATTTATTTT
* *
301177 ATTTATA-ATATTAT
1 ATTTATATTTATTTT
301191 ATTATATATTTATTTT
1 ATT-TATATTTATTTT
301207 ATTTA
1 ATTTA
301212 AGAATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 14 0.50
15 6 0.21
16 8 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTATATTTATTTT
Found at i:304275 original size:19 final size:19
Alignment explanation
Indices: 304251--304298 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
304241 ACACAGACAT
*
304251 AAACACTTAATCTTTAACA
1 AAACACCTAATCTTTAACA
304270 AAACACCTAATCTTTAACA
1 AAACACCTAATCTTTAACA
304289 AAACACCTAA
1 AAACACCTAA
304299 AGTGCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (19 bp):
AAACACCTAATCTTTAACA
Found at i:313006 original size:17 final size:17
Alignment explanation
Indices: 312983--313017 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
312973 TTTTATCCGA
*
312983 AAAAAAATCTGGTTTTTT
1 AAAAAAA-CCGGTTTTTT
313001 AAAAAAACCGGTTTTTT
1 AAAAAAACCGGTTTTTT
313018 TGCAAACCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (17 bp):
AAAAAAACCGGTTTTTT
Found at i:321330 original size:21 final size:21
Alignment explanation
Indices: 321304--321343 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
321294 CAGAACCCCA
*
321304 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
321325 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
321344 TCAAAGGGGG
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:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:324163 original size:32 final size:33
Alignment explanation
Indices: 324127--324188 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
324117 AAATGAAAAT
324127 GGATTT-GAA-AATCAAAATGAAATCTTGAAGAA
1 GGATTTAGAACAATCAAAATGAAAT-TTGAAGAA
**
324159 GGATTTAGAACTCTCAAAATGAAATTTGAA
1 GGATTTAGAACAATCAAAATGAAATTTGAA
324189 AGTATTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 6 0.23
33 8 0.31
34 12 0.46
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (33 bp):
GGATTTAGAACAATCAAAATGAAATTTGAAGAA
Found at i:338112 original size:20 final size:20
Alignment explanation
Indices: 338089--338139 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
338079 CACAGAATGT
*
338089 AAGATTATCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
338109 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
338129 AAGATTACCAG
1 AAGATTACCAG
338140 AGAATAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:338371 original size:39 final size:38
Alignment explanation
Indices: 338288--338376 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 38
338278 TAACAAGTTG
338288 AAAAATATTTATATATTTTCTTTAAAAAATTAAAATTC
1 AAAAATATTTATATATTTTCTTTAAAAAATTAAAATTC
*
338326 ATAAAAT-TTATATATATATTT-TTTACAAAATTGAAAATAT-
1 A-AAAATATT-TATATAT-TTTCTTTAAAAAATT-AAAAT-TC
*
338366 AAAAATGTTTA
1 AAAAATATTTA
338377 ATGAAAGGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
38 3 0.07
39 29 0.66
40 11 0.25
41 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (38 bp):
AAAAATATTTATATATTTTCTTTAAAAAATTAAAATTC
Found at i:342851 original size:31 final size:29
Alignment explanation
Indices: 342786--342845 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
342776 ATAATAAAAG
* *
342786 GATTAATTTGAACCAATGTCCATAATAGA
1 GATTAATTTAAACCAATCTCCATAATAGA
*
342815 GATTAATTTAAACCAATCTCTATAATAGA
1 GATTAATTTAAACCAATCTCCATAATAGA
342844 GA
1 GA
342846 GATTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (29 bp):
GATTAATTTAAACCAATCTCCATAATAGA
Found at i:356574 original size:21 final size:21
Alignment explanation
Indices: 356548--356595 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
356538 AACACTCGAA
356548 TCGAATGAACTCGACTCGAGC
1 TCGAATGAACTCGACTCGAGC
*
356569 TCGAATGAACTCGACTCGAGT
1 TCGAATGAACTCGACTCGAGC
356590 TCGAAT
1 TCGAAT
356596 TCGACTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGAATGAACTCGACTCGAGC
Found at i:356821 original size:17 final size:17
Alignment explanation
Indices: 356799--356841 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
356789 ATCCGAGTTT
356799 GAGTTCAAACTTGAATC
1 GAGTTCAAACTTGAATC
* *
356816 GAGTTCGAGCTTGAATC
1 GAGTTCAAACTTGAATC
356833 GAGTTCAAA
1 GAGTTCAAA
356842 ATCGAGCTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (17 bp):
GAGTTCAAACTTGAATC
Found at i:370675 original size:225 final size:224
Alignment explanation
Indices: 370243--370694 Score: 845
Period size: 225 Copynumber: 2.0 Consensus size: 224
370233 GTGGTTTAGG
370243 TGGTGTTCTGAAAGACATGTCTGGTTCGATTCTTGGCTTCTTCAAAGAGCCTGCTGGTCCGGGGC
1 TGGTGTTCTGAAAGACATGTCTGGTTCGATTCTTGGCTTCTTCAAAGAGCCTGCTGGTCCGGGGC
*
370308 CTCCAACTTTGATGGGATTGAAAGCTATCCTAAAGGGTTTAGATTTTTATGATCTATTCGCCATA
66 CTCCAACTTTGATGGAATTGAAAGCTATCCTAAAGGGTTTAGATTTTTATGATCTATTCGCCATA
370373 GGTTGTTTAAAGATACATTGATTATCGATAGTGATAGTAAGGTGGCAATTGGCTGGTTAAGGATA
131 GG-TGTTTAAAGATACATTGATTATCGATAGTGATAGTAAGGTGGCAATTGGCTGGTTAAGGATA
370438 TTGTTTATGTCCTGTCGTTTATGTTCAAAT
195 TTGTTTATGTCCTGTCGTTTATGTTCAAAT
370468 TGGTGTTCTGAAAGACATGTCTGGTTCGATTCTTGGCTTCTTCAAAGAGCCTGCTGGTCCGGGGC
1 TGGTGTTCTGAAAGACATGTCTGGTTCGATTCTTGGCTTCTTCAAAGAGCCTGCTGGTCCGGGGC
370533 CTCCAACTTTGATGGAATTGAAAGCTATCCTAAAGGGTTTAGATTTTTATGAATCTATTCGCCAT
66 CTCCAACTTTGATGGAATTGAAAGCTATCCTAAAGGGTTTAGATTTTTATG-ATCTATTCGCCAT
370598 A-G-GTTTAAAGATACATTGATTATCGATAGTGATAGTAAGGTGGCAATTGGCTGGGTTAAGGAT
130 AGGTGTTTAAAGATACATTGATTATCGATAGTGATAGTAAGGTGGCAATTGGCT-GGTTAAGGAT
370661 ATTGTTTCATGTCCTGTCGTTTATGTTCAAAT
194 ATTGTTT-ATGTCCTGTCGTTTATGTTCAAAT
370693 TG
1 TG
370695 TTAAAGACAT
Statistics
Matches: 223, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
223 50 0.22
224 17 0.08
225 142 0.64
226 14 0.06
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (224 bp):
TGGTGTTCTGAAAGACATGTCTGGTTCGATTCTTGGCTTCTTCAAAGAGCCTGCTGGTCCGGGGC
CTCCAACTTTGATGGAATTGAAAGCTATCCTAAAGGGTTTAGATTTTTATGATCTATTCGCCATA
GGTGTTTAAAGATACATTGATTATCGATAGTGATAGTAAGGTGGCAATTGGCTGGTTAAGGATAT
TGTTTATGTCCTGTCGTTTATGTTCAAAT
Found at i:375771 original size:22 final size:20
Alignment explanation
Indices: 375733--375772 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
375723 GCGATTCAGC
375733 TTAGAAAAAAAATAAATATT
1 TTAGAAAAAAAATAAATATT
*
375753 TTAGAGAAGAAAATGAAATA
1 TTAGA-AAAAAAAT-AAATA
375773 GGAGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (20 bp):
TTAGAAAAAAAATAAATATT
Found at i:377078 original size:2 final size:2
Alignment explanation
Indices: 377071--377113 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
377061 AATATAAAAT
377071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
377113 T
1 T
377114 GAGTGTCCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:380425 original size:23 final size:23
Alignment explanation
Indices: 380347--380410 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
380337 TATTTGCCCT
* * *
380347 TATTTGTTTAACATTTGTAAACA
1 TATTTGTTTAACGTTCGTGAACA
380370 TATTTGTTTAACGTTCGTGAACA
1 TATTTGTTTAACGTTCGTGAACA
380393 TATTTGTTTAACGTTCGT
1 TATTTGTTTAACGTTCGT
380411 TTAATATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (23 bp):
TATTTGTTTAACGTTCGTGAACA
Found at i:385648 original size:23 final size:26
Alignment explanation
Indices: 385589--385648 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 26
385579 CGTCTTTTAT
*
385589 TAATATTATTATATTATATAATCATA
1 TAATATTATTATATCATATAATCATA
** *
385615 TCGTATAATTATA-CATAT-AT-ATA
1 TAATATTATTATATCATATAATCATA
385638 TAATATTATTA
1 TAATATTATTA
385649 ATTTTATTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 11 0.41
24 2 0.07
25 4 0.15
26 10 0.37
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (26 bp):
TAATATTATTATATCATATAATCATA
Found at i:386731 original size:12 final size:13
Alignment explanation
Indices: 386713--386748 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
386703 ATTACGTTTC
386713 ATTATTATATATT
1 ATTATTATATATT
386726 -TTATTAT-TATT
1 ATTATTATATATT
386737 ATTATTATATAT
1 ATTATTATATAT
386749 ATATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.19
12 14 0.67
13 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATTATATATT
Found at i:387150 original size:29 final size:27
Alignment explanation
Indices: 387113--387203 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 27
387103 TATATATGTT
*
387113 TTTTTATTTCATTTATTTATTTATTTT
1 TTTTTATTTCATTTATTTATTTATTTA
*
387140 TCCTTTTATTTTATTTATTT-TTCTATTTA
1 T--TTTTATTTCATTTATTTATT-TATTTA
* *
387169 TTTTTATTCTACATTTTTTTATTTATATA
1 TTTTTATT-T-CATTTATTTATTTATTTA
387198 GTTTTT
1 -TTTTT
387204 CCCTCTAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
27 8 0.15
28 3 0.06
29 34 0.65
30 7 0.13
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTTATTTCATTTATTTATTTATTTA
Found at i:387154 original size:21 final size:21
Alignment explanation
Indices: 387119--387172 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
387109 TGTTTTTTTA
387119 TTTC-ATTTA-TTTATTTATT
1 TTTCTATTTATTTTATTTATT
387138 TTTCCT-TTTATTTTATTTATT
1 TTT-CTATTTATTTTATTTATT
387159 TTTCTATTTATTTT
1 TTTCTATTTATTTT
387173 TATTCTACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.10
20 7 0.23
21 21 0.68
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTATTTATTTTATTTATT
Found at i:387166 original size:12 final size:11
Alignment explanation
Indices: 387112--387173 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
387102 ATATATATGT
387112 TTTTTTATTTCA
1 TTTTTTATTT-A
387124 TTTATTTATTTA
1 TTT-TTTATTTA
**
387136 TTTTTCCTTT-
1 TTTTTTATTTA
*
387146 TATTTTATTTA
1 TTTTTTATTTA
387157 TTTTTCTATTTA
1 TTTTT-TATTTA
387169 TTTTT
1 TTTTT
387174 ATTCTACATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.17
11 9 0.22
12 18 0.44
13 7 0.17
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:399240 original size:105 final size:105
Alignment explanation
Indices: 398414--399221 Score: 1393
Period size: 105 Copynumber: 7.7 Consensus size: 105
398404 AGGTTTTACC
*
398414 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
398479 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * * *
398519 TACAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAGCACAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
398584 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCGATTC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
398624 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGATCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
398689 ATGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
398729 CAGAGCCAGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
398794 ACGAAGGGACCGCTGGTTGTCAACAACCATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
398834 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
398899 ATGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
398939 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
399004 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
399044 CAGAGCCAATTTCAACTTCAAAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
399109 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * * * *
399149 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCAC-
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
399213 AGCGAAGGG
66 A-CGAAGGG
399222 GCGGCTGACT
Statistics
Matches: 665, Mismatches: 37, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
104 1 0.00
105 664 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:401053 original size:12 final size:11
Alignment explanation
Indices: 401036--401087 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
401026 TTACGTTTCA
401036 TTATTATATATT
1 TTATTATATA-T
401048 TTATTAT-TA-
1 TTATTATATAT
401057 TTATTATATAT
1 TTATTATATAT
*
401068 ATA-TATATAT
1 TTATTATATAT
401078 TTGATTATAT
1 TT-ATTATAT
401088 TTTCTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 7 0.21
10 10 0.29
11 5 0.15
12 12 0.35
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TTATTATATAT
Found at i:401061 original size:21 final size:21
Alignment explanation
Indices: 401035--401109 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
401025 ATTACGTTTC
401035 ATTATTATATATTTTATTATT
1 ATTATTATATATTTTATTATT
*
401056 ATTATTATATATATATATATATT
1 ATTATTATATAT-TTTAT-TATT
*
401079 -TGATTATAT-TTTCTATT-TT
1 ATTATTATATATTT-TATTATT
*
401098 ATT-TTCTATATT
1 ATTATTATATATT
401110 CCTTTATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
19 7 0.16
20 5 0.11
21 16 0.36
22 12 0.27
23 4 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
ATTATTATATATTTTATTATT
Found at i:401187 original size:2 final size:2
Alignment explanation
Indices: 401182--401206 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
401172 TCTACTCATT
401182 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
401207 GTATTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:410305 original size:31 final size:34
Alignment explanation
Indices: 410239--410323 Score: 122
Period size: 31 Copynumber: 2.6 Consensus size: 34
410229 AATGGTAATA
* *
410239 AACAAAATTAACCAAATATATTAACAAAAAGTCC
1 AACAAAATTAACAAAATAAATTAACAAAAAGTCC
410273 AACAAAATTAACAAAATAAATT-A-AAAAA-TCC
1 AACAAAATTAACAAAATAAATTAACAAAAAGTCC
*
410304 AACCAAATTAACAAAATAAA
1 AACAAAATTAACAAAATAAA
410324 GTAAGTATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
31 22 0.46
32 5 0.10
33 1 0.02
34 20 0.42
ACGTcount: A:0.65, C:0.15, G:0.01, T:0.19
Consensus pattern (34 bp):
AACAAAATTAACAAAATAAATTAACAAAAAGTCC
Found at i:410376 original size:23 final size:23
Alignment explanation
Indices: 410316--410369 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
410306 CCAAATTAAC
410316 AAAATAAAGTAAGTATTAAATGG
1 AAAATAAAGTAAGTATTAAATGG
410339 AAAATAAAGTAAGTATTAAATGG
1 AAAATAAAGTAAGTATTAAATGG
*
410362 TAAATAAA
1 AAAATAAA
410370 AAAAGTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (23 bp):
AAAATAAAGTAAGTATTAAATGG
Found at i:410381 original size:14 final size:14
Alignment explanation
Indices: 410364--410396 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
410354 TTAAATGGTA
410364 AATAAAAAAAGTAC
1 AATAAAAAAAGTAC
410378 AAT-AAAAAAGTAC
1 AATAAAAAAAGTAC
410391 AATAAA
1 AATAAA
410397 CAACTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAAAAAAGTAC
Found at i:412618 original size:25 final size:24
Alignment explanation
Indices: 412585--412657 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
412575 TTATAACTGC
*
412585 AAAAAAATTAATTAAATAAAATATT
1 AAAAAAATTAAAT-AATAAAATATT
* *
412610 AAAATAATTAAATAATAAAATACT
1 AAAAAAATTAAATAATAAAATATT
* * *
412634 AATAAAATAAAATAAAATAAATAT
1 AAAAAAATTAAATAATA-AAATAT
412658 ACCTTAAGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAAATTAAATAATAAAATATT
Found at i:417328 original size:18 final size:20
Alignment explanation
Indices: 417305--417351 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
417295 AATATATAAC
*
417305 TAATATT-TCTGT-ATATAT
1 TAATATTATCTATAATATAT
*
417323 TAATATTATTTATAATATAT
1 TAATATTATCTATAATATAT
417343 TAATATTAT
1 TAATATTAT
417352 TTAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.28
19 3 0.12
20 15 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TAATATTATCTATAATATAT
Found at i:417342 original size:20 final size:19
Alignment explanation
Indices: 417317--417363 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
417307 ATATTTCTGT
417317 ATATATTAATATTATTTATA
1 ATATATTAATATTATTTA-A
417337 ATATATTAATATTATTTAA
1 ATATATTAATATTATTTAA
417356 ATAATATT
1 AT-ATATT
417364 TTATTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTAATATTATTTAA
Found at i:418595 original size:26 final size:26
Alignment explanation
Indices: 418543--418595 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
418533 CTTATTGTAA
*
418543 TTTTATTTATTAATAAAATTAGTTAC
1 TTTTATTTATTAATAAAATTAGATAC
418569 TTTTATTTATGTCAA-AAAATTA-ATAC
1 TTTTATTTAT-T-AATAAAATTAGATAC
418595 T
1 T
418596 CGATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 14 0.58
27 8 0.33
28 2 0.08
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTATTTATTAATAAAATTAGATAC
Found at i:422272 original size:42 final size:42
Alignment explanation
Indices: 422213--422324 Score: 197
Period size: 42 Copynumber: 2.7 Consensus size: 42
422203 CCCAAATTAT
*
422213 CGTGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTTC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCC
*
422255 CGTGTTTGTTTCACGTAATTCGTTTTGCGTAAAATGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCC
*
422297 CGTGTTTGTTTCACGTAATTGGTTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCC
422325 AGAATGTAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGTAAAATGTTTTCC
Found at i:422552 original size:20 final size:22
Alignment explanation
Indices: 422507--422553 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
422497 AAAATATTAT
*
422507 TTATTTATTAATATTTATAATA
1 TTATATATTAATATTTATAATA
422529 --ATATATT-ATATTT-TAATA
1 TTATATATTAATATTTATAATA
422547 TTATATA
1 TTATATA
422554 AAATAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.23
19 6 0.27
20 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATTAATATTTATAATA
Found at i:422567 original size:30 final size:30
Alignment explanation
Indices: 422514--422635 Score: 96
Period size: 30 Copynumber: 4.2 Consensus size: 30
422504 TATTTATTTA
*
422514 TTAATATT-TATAATAAT-AT-ATTATATT
1 TTAATATTATATAAGAATAATAATTATATT
422541 TTAATATTATATAA-AATAATCAATTATATT
1 TTAATATTATATAAGAATAAT-AATTATATT
* * * *
422571 ATAATA--ATATAAGATATTATATTTTTATT
1 TTAATATTATATAAGA-ATAATAATTATATT
* * *
422600 TTAATAATATATAATAA-AAAAATTATATAT
1 TTAATATTATATAAGAATAATAATTATAT-T
422630 TTAATA
1 TTAATA
422636 ATGAATAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
27 11 0.14
28 13 0.17
29 20 0.26
30 25 0.33
31 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAATATTATATAAGAATAATAATTATATT
Found at i:422647 original size:59 final size:57
Alignment explanation
Indices: 422522--422677 Score: 149
Period size: 59 Copynumber: 2.7 Consensus size: 57
422512 TATTAATATT
* * *
422522 TATAATAATATA-TTATATTTTAATATTATATAA-AATAATCAATTATATTATAATAA
1 TATAATATTATATTTATATTTTAATAATATATAATAA-AATAAATTATATTATAATAA
* *
422578 TATAAGATATTATATTTTTATTTTAATAATATATAATAAAA-AAATTATATATTTAATAA
1 TAT-A-ATATTATATTTATATTTTAATAATATATAATAAAATAAATTATAT-TATAATAA
* *
422637 TGAATAATATTAT-TTATATATTTAAATAATATTTTAATAAA
1 T--ATAATATTATATT-TATATTTTAATAATA-TATAATAAA
422678 TATATTTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
56 3 0.04
57 1 0.01
58 17 0.20
59 49 0.59
60 11 0.13
61 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (57 bp):
TATAATATTATATTTATATTTTAATAATATATAATAAAATAAATTATATTATAATAA
Found at i:422679 original size:12 final size:11
Alignment explanation
Indices: 422639--422706 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
422629 TTTAATAATG
422639 AATAATATTATT
1 AATAATATT-TT
* *
422651 TAT-ATATTTA
1 AATAATATTTT
422661 AATAATATTTT
1 AATAATATTTT
422672 AATAAATATATTT
1 AAT-AATAT-TTT
**
422685 AA-AATATACT
1 AATAATATTTT
422695 AATTAATATTTT
1 AA-TAATATTTT
422707 TAAAATATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
10 6 0.14
11 19 0.44
12 13 0.30
13 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (11 bp):
AATAATATTTT
Found at i:422690 original size:15 final size:14
Alignment explanation
Indices: 422652--422687 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
422642 AATATTATTT
422652 ATATATTTAAAT-A
1 ATATATTTAAATAA
422665 ATAT-TTT-AATAA
1 ATATATTTAAATAA
422677 ATATATTTAAA
1 ATATATTTAAA
422688 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:422690 original size:23 final size:23
Alignment explanation
Indices: 422652--422715 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
422642 AATATTATTT
**
422652 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
422677 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
422700 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
422716 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:423026 original size:15 final size:15
Alignment explanation
Indices: 423006--423057 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
422996 TCATTTTCAA
423006 TAATTCAAATTCCAG
1 TAATTCAAATTCCAG
**
423021 TAATTCATTTTCCAG
1 TAATTCAAATTCCAG
*
423036 TAATTCAAATTTCAG
1 TAATTCAAATTCCAG
423051 TAATTCA
1 TAATTCA
423058 TTTCCCGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (15 bp):
TAATTCAAATTCCAG
Found at i:423042 original size:30 final size:29
Alignment explanation
Indices: 422991--423060 Score: 113
Period size: 30 Copynumber: 2.4 Consensus size: 29
422981 TTCTAGTAAT
422991 GTAATTCATTTTCAATAATTCAAATTCCA
1 GTAATTCATTTTCAATAATTCAAATTCCA
* *
423020 GTAATTCATTTTCCAGTAATTCAAATTTCA
1 GTAATTCATTTT-CAATAATTCAAATTCCA
423050 GTAATTCATTT
1 GTAATTCATTT
423061 CCCGAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 12 0.32
30 26 0.68
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.44
Consensus pattern (29 bp):
GTAATTCATTTTCAATAATTCAAATTCCA
Found at i:426537 original size:60 final size:60
Alignment explanation
Indices: 426409--426525 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
426399 TTAGAAAGAG
* * * *
426409 GTCATAGTTTGGGGATGAAAATAAAATGTGTAAAAGTTTAAATACTAATTTAAAATGGGA
1 GTCATAATTTAGGGATGAAAATAAAATATGTAAAAGTTTAAAAACTAATTTAAAATGGGA
* * *
426469 GTCATAATTTAGGGATGAAATTAAAGTATTTAAAAGTTTAAAAACTAATTTAAAATG
1 GTCATAATTTAGGGATGAAAATAAAATATGTAAAAGTTTAAAAACTAATTTAAAATG
426526 AGGGTTATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (60 bp):
GTCATAATTTAGGGATGAAAATAAAATATGTAAAAGTTTAAAAACTAATTTAAAATGGGA
Found at i:426958 original size:19 final size:19
Alignment explanation
Indices: 426930--426974 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
426920 TTAATCTCGA
* * *
426930 AAATTAAAAATTTTAATTG
1 AAATTAAAAAATTCAATTC
*
426949 AAATTTAAAAATTCAATTC
1 AAATTAAAAAATTCAATTC
426968 AAATTAA
1 AAATTAA
426975 TTACATTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATTAAAAAATTCAATTC
Found at i:427090 original size:2 final size:2
Alignment explanation
Indices: 427083--427109 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
427073 AAATCAAGAA
427083 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
427110 ACAATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:429002 original size:38 final size:37
Alignment explanation
Indices: 428785--429142 Score: 311
Period size: 36 Copynumber: 9.4 Consensus size: 37
428775 TTCGAAAATA
* *
428785 TATATAATATAT-TAATTTCTAAAATGTTATTTTAAAAAC
1 TATATAATATATATATTTTCAAAAATG---TTTTAAAAAC
* **
428824 TATATATTATATGCATTTTCCAAAAA-GATTTTTCAAAAAC
1 TATATAATATATATATTTT-CAAAAATG--TTTT-AAAAAC
428864 TATATAATATTATATATATATTTTC-AAAATGTTTTAAAAAC
1 --TAT-ATA--ATATATATATTTTCAAAAATGTTTTAAAAAC
428905 TATAT-A-ATATATATTTTCAAAAATGTTTTAAAAAC
1 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
* * *
428940 TATATATTATATTTATTTTC-AAAATGTTTTAAAAAT
1 TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
*
428976 TATATAATATATATATTTTCAAAAAATGTTTTAAAAAT
1 TATATAATATATATATTTTC-AAAAATGTTTTAAAAAC
**
429014 TATATTTTATAT-TAGTTTTC-AAAATGTTTTAAAAAC
1 TATATAATATATATA-TTTTCAAAAATGTTTTAAAAAC
* * * * *
429050 TATATAATATATAAATGTTCTTAAACATGCTTGTCAAAAC
1 TATATAATATATATAT-TT-TCAAAAATG-TTTTAAAAAC
* * *
429090 TATATATTATATATATTTTTTAAAAATGTTTTCAAAA-
1 TATATAATATATATA-TTTTCAAAAATGTTTTAAAAAC
*
429127 TATATAATTTATATAT
1 TATATAATATATATAT
429143 ATATATAATA
Statistics
Matches: 268, Mismatches: 30, Indels: 45
0.78 0.09 0.13
Matches are distributed among these distances:
34 12 0.04
35 22 0.08
36 60 0.22
37 29 0.11
38 42 0.16
39 31 0.12
40 34 0.13
41 12 0.04
42 7 0.03
43 7 0.03
44 2 0.01
45 10 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TATATAATATATATATTTTCAAAAATGTTTTAAAAAC
Found at i:430368 original size:164 final size:164
Alignment explanation
Indices: 429732--431042 Score: 1115
Period size: 164 Copynumber: 7.9 Consensus size: 164
429722 GTTTTCCTCT
* * * * * * *
429732 GAGCTGAGCGTAATCGAACTCGAAGGTCTTCGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * * * *
429797 CTGTAAATGATGTG-CCTTGGAGCTAAGCGTAGTCGAACTCAAAGGTCTTTAGTGACAGATAACC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G-G-CAGATAACC
* * * * * * * * *
429861 TTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTC
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * ** *
429899 GATGCTGAGTGTAATCGAACTCGGGGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTAT
1 GA-GCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTAT
* * * * * *
429961 GCTGCAAATGATGTG-CCTTGGAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAA
64 GCTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC--T--TTGGCAGATAA
* *
430025 CCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGTCCTCG
125 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTG
* * * ** * *
430066 AAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * * *
430128 TGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTCTTGGCAGACAACC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC---T-TTGGCAGATAACC
* * *
430192 CTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * * *
430230 GAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTACGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * * * *
430295 TGTAAATGATATACCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCTTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
*
430360 TCGACTTAAGCTATGCTGCAAATGATATGCCTTG
131 TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * * *
430394 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * *
430459 TTGCAAATGATATG-CCTTGGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTT-G-G-CAGATAACC
* * * * * * *
430523 CTTCTAGCCTTGAGTTACGATGTAAATGATATGCCCTCG
127 CTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTG
* * * * * ** * *
430562 AAGCTGAGTGTAATCGAACTC-AAGGGTCTAT-G-G-CAGATAGCATTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
* * * * * *
430623 CTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGCCTTTTGTTAGCAGACAAC
65 CTGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTTG---GCAGATAAC
* * *
430687 CCTTCTAGACTTAAGTTGA-GCTTCAAATGATATGCGTTG
126 CCTTCTCGACTTAAGTT-ATGCTGCAAATGATATGCCTTG
* * * * *
430726 GAGCTGAGCGTAGTCGAACTAGAAGGTCTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * * ** *
430791 TGTAAATGATATGCCCTCAAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGCATATAACCCTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
* **
430856 TCGACTTAAGCTATGCTGCAAATGACGTGCCTTG
131 TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* * * *
430890 GAGCTGAGCGTAGTCGAACTCGAAGGGCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
** * * * * * *
430955 TATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGGTAGCCTTTC
66 TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
* *
431020 TCGACTTAAGCTATGCTACAAAT
131 TCGACTTAAGTTATGCTGCAAAT
431043 AGTTTGTTTA
Statistics
Matches: 950, Mismatches: 165, Indels: 61
0.81 0.14 0.05
Matches are distributed among these distances:
163 1 0.00
164 395 0.42
165 268 0.28
166 68 0.07
167 118 0.12
168 91 0.10
169 9 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (164 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTC
TCGACTTAAGTTATGCTGCAAATGATATGCCTTG
Found at i:430369 original size:248 final size:248
Alignment explanation
Indices: 429732--431006 Score: 1574
Period size: 248 Copynumber: 5.1 Consensus size: 248
429722 GTTTTCCTCT
* * * * * * * *
429732 GAGCTGAGCGTAATCGAACTCGAAGGTCTTCGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAAATAACCCTTCTAGCCTTGAGTTATG
* * * * * * * *
429797 CTGTAAATGATGTG-CCTTGGAGCTAAGCGTAGTCGAACTCAAAGGTCTTTAGTGACAGATAACC
65 CTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAACC
* * * * * * * * * * ***
429861 TTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGATGCTGAGTGTAATCGAACTCGGGGG
127 TTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGA-GCTGAGCGTAGTCGAACTC-AAAG
* * * * *
429926 GTC---T-TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTG
190 GTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
* * * * * * *
429981 GAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAAATAACCCTTCTAGCCTTGAGTTATG
* * * * *
430046 CTGCAAATGATGTGTCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAACCCTT
65 CTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCTTT
430111 CTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCT
130 CTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCT
*
430175 TTTCTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
194 TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
* *
430230 GAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTACGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGC
* * *
430295 TGTAAATGATATACCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCTTTC
66 TGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCTTTC
*
430360 TCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
131 TCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
* *
430425 TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATGCCTTG
196 TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
* * * *
430478 GAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGC
* * * *
430543 TGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCAAGGGTCTATGGCAGATAGCATTTC
66 TGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCTTTC
* *
430608 TCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGCCTTT
131 TCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
* * * *
430673 TGTTAGCAGACAACCCTTCTAGACTTAAGTTGAGCTTCAAATGATATGCGTTG
196 TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
* * *
430726 GAGCTGAGCGTAGTCGAACTAGAAGGTCTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGC
* * * * *
430791 TGTAAATGATATGCCCTCAAAGCTGAGTGTAATCAAACTCGGGGGTCTTTGGCATATAACCCTTC
66 TGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCTTTC
* * *
430856 TCGACTTAAGCTATGCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGGC-TT
131 TCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
* * * * * * * * * *
430920 TGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATATAAATGATGTGCCCTCG
196 TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATG-CCTTG
* * * *
430974 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
431007 CAGGTAGCCT
Statistics
Matches: 909, Mismatches: 109, Indels: 17
0.88 0.11 0.02
Matches are distributed among these distances:
245 4 0.00
246 17 0.02
247 79 0.09
248 633 0.70
249 148 0.16
250 28 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (248 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGC
TGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCTTTC
TCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT
TGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTACAAATGATATGCCTTG
Found at i:431006 original size:84 final size:83
Alignment explanation
Indices: 429732--431006 Score: 1173
Period size: 84 Copynumber: 15.4 Consensus size: 83
429722 GTTTTCCTCT
* * * * * * *
429732 GAGCTGAGCGTAATCGAACTCGAAGGTCTTCGGTTGGCAAATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATG
* *
429797 CTGTAAATGATGTGCCTTG
65 CTGCAAATGATATGCCTTG
* * * * * * *
429816 GAGCTAAGCGTAGTCGAACTCAAAGGTCTTTAGTGACAGATAACCTTTCTAGCCTTGAGTTATAC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * * *
429881 TGTAAATGATGTGCCCTC
66 TGCAAATGATATGCCTTG
* * ** *
429899 GATGCTGAGTGTAATCGAACTCGGGGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGTTAT
1 GA-GCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTAT
*
429961 GCTGCAAATGATGTGCCTTG
64 GCTGCAAATGATATGCCTTG
* * * *
429981 GAGCTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTAAGTTATG
* *
430046 CTGCAAATGATGTGTCCTCG
65 CTGCAAATGATATG-CCTTG
* * * ** * *
430066 AAGCTGAGTGTAATCGAACTCGGGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
*
430128 TGCAAATGATGTGCCGTT-
66 TGCAAATGATATGCC-TTG
* ** * * *
430146 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTCTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
*
430211 CTACAAATGATATGCCTTG
65 CTGCAAATGATATGCCTTG
* * * * *
430230 GAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTACGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* * *
430295 TGTAAATGATATACCCTCG
66 TGCAAATGATAT-GCCTTG
* * * * * * * * *
430314 AAGCTGAGTGTAATCAAACTCGAGGGTCTTT-G-G-CAGATAGCCTTTCTCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
430376 TGCAAATGATATGCCTTG
66 TGCAAATGATATGCCTTG
* * * * *
430394 GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
*
430459 TTGCAAATGATATGCCTTG
65 CTGCAAATGATATGCCTTG
* * * * *
430478 GAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTACGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* *
430543 TGTAAATGATATGCCCTCG
66 TGCAAATGATATG-CCTTG
* * * * * ** * *
430562 AAGCTGAGTGTAATCGAACTC-AAGGGTCTAT-G-G-CAGATAGCATTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATG
430623 CTGCAAATGATATGCCTTG
65 CTGCAAATGATATGCCTTG
* * * * *
430642 GAGCTGAGCGTAGTCGAACTCAAAGGCCTTTTGTTAGCAGACAACCCTTCTAGACTTAAGTTGA-
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGA-CAGATAACCCTTCTAGACTTAAGTT-AT
* *
430706 GCTTCAAATGATATGCGTTG
64 GCTGCAAATGATATGCCTTG
* * * * *
430726 GAGCTGAGCGTAGTCGAACTAGAAGGTCTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
* **
430791 TGTAAATGATATGCCCTCA
66 TGCAAATGATATG-CCTTG
* * * * ** * * *
430810 AAGCTGAGTGTAATCAAACTCGGGGGTCTTT-G-G-CATATAACCCTTCTCGACTTAAGCTATGC
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
**
430872 TGCAAATGACGTGCCTTG
66 TGCAAATGATATGCCTTG
* * * *
430890 GAGCTGAGCGTAGTCGAACTCGAAGGGCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
** * *
430955 TATAAATGATGTGCCCTCG
66 TGCAAATGATATG-CCTTG
* * * *
430974 AAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
431007 CAGGTAGCCT
Statistics
Matches: 960, Mismatches: 199, Indels: 64
0.78 0.16 0.05
Matches are distributed among these distances:
80 112 0.12
81 167 0.17
82 47 0.05
83 198 0.21
84 400 0.42
85 36 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (83 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATGC
TGCAAATGATATGCCTTG
Found at i:436322 original size:2 final size:2
Alignment explanation
Indices: 436315--436349 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
436305 AAATCAAGAA
436315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
436350 CAATGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:436557 original size:7 final size:7
Alignment explanation
Indices: 436536--436577 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
436526 GGTTAAATTT
*
436536 TAAAAAG
1 TAAAAAA
436543 TAATAAAA
1 TAA-AAAA
436551 TAAAAAAA
1 T-AAAAAA
436559 TAAAAAA
1 TAAAAAA
436566 TAAAAAA
1 TAAAAAA
436573 TAAAA
1 TAAAA
436578 TAAAGTAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 21 0.66
8 9 0.28
9 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:436560 original size:8 final size:8
Alignment explanation
Indices: 436537--436577 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
436527 GTTAAATTTT
*
436537 AAAAAGTA
1 AAAAAATA
*
436545 ATAAAATA
1 AAAAAATA
436553 AAAAAAT-
1 AAAAAATA
436560 AAAAAAT-
1 AAAAAATA
436567 AAAAAATA
1 AAAAAATA
436575 AAA
1 AAA
436578 TAAAGTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:437971 original size:4 final size:4
Alignment explanation
Indices: 437962--438003 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
437952 ACCCTGAACA
* *
437962 AAAT AAAT AAAT AAAT AAAT -AAT AAAA AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
438004 AATAAAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:437987 original size:19 final size:19
Alignment explanation
Indices: 437963--438009 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
437953 CCCTGAACAA
*
437963 AATAAATAAATAAATAAAT
1 AATAAATAAATAAAAAAAT
*
437982 AATAAAAAAATAAAAAAAT
1 AATAAATAAATAAAAAAAT
438001 AA-AAATAAA
1 AATAAATAAA
438010 AACCATTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAATAAATAAAAAAAT
Found at i:438004 original size:15 final size:15
Alignment explanation
Indices: 437966--438011 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
437956 TGAACAAAAT
*
437966 AAATAAATAAATAAA
1 AAATAAAAAAATAAA
*
437981 TAATAAAAAAATAAA
1 AAATAAAAAAATAAA
*
437996 AAA-ATAAAAATAAA
1 AAATAAAAAAATAAA
438010 AA
1 AA
438012 CCATTTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:438200 original size:71 final size:76
Alignment explanation
Indices: 438053--438226 Score: 241
Period size: 71 Copynumber: 2.3 Consensus size: 76
438043 TAATATGTTA
*
438053 TTTTAAAAATTATATATTATATGCATTTTCCAAAAAGAGTTTTTAAAAACTATATAATATTATAT
1 TTTTAAAAATTATATAATATAT--ATTTTCCAAAAAGAGTTTTTAAAAAC-ATATAATATTATAT
438118 ATATTTCCAAAATG
63 ATATTTCCAAAATG
* * *
438132 TTTTAAAAACTATATAATATATATTTT-CAAAAA-TG-TTTTAAAAAC-TAT-ATATTATATTTA
1 TTTTAAAAATTATATAATATATATTTTCCAAAAAGAGTTTTTAAAAACATATAATATTATATATA
*
438192 TTTTCAAAATG
66 TTTCCAAAATG
438203 TTTTAAAAATTATATAATATATAT
1 TTTTAAAAATTATATAATATATAT
438227 ATATATATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
71 44 0.49
72 3 0.03
74 10 0.11
75 1 0.01
76 6 0.07
77 5 0.06
79 20 0.22
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (76 bp):
TTTTAAAAATTATATAATATATATTTTCCAAAAAGAGTTTTTAAAAACATATAATATTATATATA
TTTCCAAAATG
Found at i:438208 original size:36 final size:36
Alignment explanation
Indices: 438053--438378 Score: 228
Period size: 36 Copynumber: 8.4 Consensus size: 36
438043 TAATATGTTA
* ** *
438053 TTTTAAAAATTATATATTATATGCATTTTCCAAAAAGAG
1 TTTTAAAAACTATATATTATATTTATTTT-C-AAAA-TG
* *
438092 TTTTTAAAAACTATATAATATTATATATATTTCCAAAATG
1 -TTTTAAAAAC--TAT-ATATTATATTTATTTTCAAAATG
*
438132 TTTTAAAAACTATATA--ATATATATTTTCAAAAATG
1 TTTTAAAAACTATATATTATATTTATTTTC-AAAATG
438167 TTTTAAAAACTATATATTATATTTATTTTCAAAATG
1 TTTTAAAAACTATATATTATATTTATTTTCAAAATG
*
438203 TTTTAAAAATTATATAATATATATATATATATATATTCAAAAAAATG
1 TTTTAAAAA--CTAT-ATAT-TATAT-T-TAT-T-TTC---AAAATG
*
438250 TTTTAAAAATTATATATTATA-TTAGTTTTCAAAATG
1 TTTTAAAAACTATATATTATATTTA-TTTTCAAAATG
* ** *
438286 TTTTAAAAACTATATAATATATAAATGTTCTTAAACATG
1 TTTTAAAAACTATATATTATATTTAT-TT-TCAAA-ATG
* * * *
438325 CTTGTCAAAACTATATATTATATATATATTTTAAAAATA
1 -TTTTAAAAACTATATATTATAT-T-TATTTTCAAAATG
*
438364 TTTT-CAAACTATATA
1 TTTTAAAAACTATATA
438379 ATGTGTGTAT
Statistics
Matches: 238, Mismatches: 23, Indels: 53
0.76 0.07 0.17
Matches are distributed among these distances:
34 11 0.05
35 22 0.09
36 44 0.18
37 27 0.11
38 10 0.04
39 22 0.09
40 41 0.17
41 9 0.04
42 9 0.04
43 18 0.08
44 7 0.03
45 3 0.01
47 15 0.06
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATTTATTTTCAAAATG
Found at i:438246 original size:71 final size:71
Alignment explanation
Indices: 438109--438246 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 71
438099 AAACTATATA
* * **
438109 ATATTATATATATTTCCAAAATGTTTTAAAAACTATATAATATATATTTTCAAAAATGTTTTAAA
1 ATATTATATATATTTCCAAAATGTTTTAAAAACTATATAATATATATTATCAAAAATATTCAAAA
438174 AACTAT
66 AACTAT
* * * * *
438180 ATATTATATTTATTTTCAAAATGTTTTAAAAATTATATAATATATATATAT-ATATATATTCAAA
1 ATATTATATATATTTCCAAAATGTTTTAAAAACTATATAATATATAT-TATCAAAAATATTCAAA
438244 AAA
65 AAA
438247 ATGTTTTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 55 0.96
72 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (71 bp):
ATATTATATATATTTCCAAAATGTTTTAAAAACTATATAATATATATTATCAAAAATATTCAAAA
AACTAT
Found at i:438254 original size:83 final size:80
Alignment explanation
Indices: 438142--438308 Score: 264
Period size: 83 Copynumber: 2.0 Consensus size: 80
438132 TTTTAAAAAC
*
438142 TATATAATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTTA-TTTTCAAAATGTTT
1 TATATAATATATATATTCAAAAATGTTTTAAAAACTATATATTATA-TTAGTTTTCAAAATGTTT
*
438206 TAAAAATTATATAATA
65 TAAAAACTATATAATA
*
438222 TATATATATATATATATTCAAAAAAATGTTTTAAAAATTATATATTATATTAGTTTTCAAAATGT
1 TATATA-ATATATATATTC--AAAAATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGT
438287 TTTAAAAACTATATAATA
63 TTTAAAAACTATATAATA
438305 TATA
1 TATA
438309 AATGTTCTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
80 6 0.08
81 11 0.14
82 3 0.04
83 60 0.75
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (80 bp):
TATATAATATATATATTCAAAAATGTTTTAAAAACTATATATTATATTAGTTTTCAAAATGTTTT
AAAAACTATATAATA
Found at i:444310 original size:51 final size:51
Alignment explanation
Indices: 443931--444559 Score: 681
Period size: 55 Copynumber: 11.9 Consensus size: 51
443921 ACGAGTCTGT
* *
443931 TCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATA-AAATGTGTCTGC
1 TCCCTATTCCTTCAGAG-AGTATAAGACT----CAATCTTCA-ACAAACGTGTCCGC
* * * *
443986 TCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCATA-AAATGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAAGAC-T---CAATCTTCA-ACAAACGTGTCCGC
* * *
444041 TCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAACAAACGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAAGAC-T---CAATCTTCAACAAACGTGTCCGC
* * *
444096 TCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTC----AATCTTCAACAAACGTGTCCGC
*
444151 TCCCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCAACAAACGTGTCTGC
1 TCCCTATTCCTTCAGAGAGTATAAGAC-T---CAATCTTCAACAAACGTGTCCGC
* * *
444206 TCCCTATTCGTTCA-AGGAGTATAAGACTGGAATAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGA-GAGTATAAGACT----CAATCTTCAACAAACGTGTCCGC
* * *
444261 TCTCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
* * *
444312 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
* * * *
444363 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCGACGAACTTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
* * *
444414 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
* *
444465 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
* *
444516 TCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
1 TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACG
444560 AATTTGCTTC
Statistics
Matches: 527, Mismatches: 33, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
51 257 0.49
54 4 0.01
55 261 0.50
56 4 0.01
59 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
TCCCTATTCCTTCAGAGAGTATAAGACTCAATCTTCAACAAACGTGTCCGC
Found at i:445882 original size:9 final size:8
Alignment explanation
Indices: 445870--445985 Score: 57
Period size: 8 Copynumber: 13.9 Consensus size: 8
445860 TTTATTTCTC
445870 TTTTTTCA
1 TTTTTTCA
445878 -TTTTTCA
1 TTTTTTCA
445885 TTTTTTTCA
1 -TTTTTTCA
445894 -TTTTTCA
1 TTTTTTCA
445901 TTTTTT-A
1 TTTTTTCA
445908 TTCCCTTTTCCA
1 TT---TTTT-CA
445920 TTTTTTC-
1 TTTTTTCA
445927 TTCTTTT--
1 TT-TTTTCA
*
445934 TTCCTTTTCG
1 TT--TTTTCA
445944 TTTTTTCCA
1 TTTTTT-CA
445953 TCATTTTTC-
1 T--TTTTTCA
445962 TTTTTCTCA
1 TTTTT-TCA
*
445971 TTTTCTCA
1 TTTTTTCA
445979 TTTTTTC
1 TTTTTTC
445986 CTCTTTTATT
Statistics
Matches: 88, Mismatches: 3, Indels: 34
0.70 0.02 0.27
Matches are distributed among these distances:
7 25 0.28
8 30 0.34
9 18 0.20
10 7 0.08
11 5 0.06
12 3 0.03
ACGTcount: A:0.09, C:0.20, G:0.01, T:0.71
Consensus pattern (8 bp):
TTTTTTCA
Found at i:445883 original size:7 final size:7
Alignment explanation
Indices: 445871--445905 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
445861 TTATTTCTCT
445871 TTTTTCA
1 TTTTTCA
445878 TTTTTCA
1 TTTTTCA
445885 TTTTTTTCA
1 --TTTTTCA
445894 TTTTTCA
1 TTTTTCA
445901 TTTTT
1 TTTTT
445906 TATTCCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 19 0.73
9 7 0.27
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:445889 original size:16 final size:16
Alignment explanation
Indices: 445870--445906 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
445860 TTTATTTCTC
445870 TTTTTTCATTTTTCAT
1 TTTTTTCATTTTTCAT
445886 TTTTTTCATTTTTCAT
1 TTTTTTCATTTTTCAT
445902 TTTTT
1 TTTTT
445907 ATTCCCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCATTTTTCAT
Found at i:445935 original size:19 final size:18
Alignment explanation
Indices: 445870--445941 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
445860 TTTATTTCTC
445870 TTTTTTCATTTTT-CA-T
1 TTTTTTCATTTTTCCATT
445886 TTTTTTCATTTTT-CATT
1 TTTTTTCATTTTTCCATT
**
445903 TTTTATTCCCTTTTCCATT
1 TTTT-TTCATTTTTCCATT
*
445922 TTTTCTTCTTTTTTCC-TT
1 TTTT-TTCATTTTTCCATT
445940 TT
1 TT
445942 CGTTTTTTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
16 15 0.31
17 5 0.10
18 11 0.23
19 17 0.35
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTCATTTTTCCATT
Found at i:445939 original size:25 final size:25
Alignment explanation
Indices: 445894--445974 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
445884 ATTTTTTTCA
445894 TTTTTCATT-TTTTATTCCCTTTTCCAT
1 TTTTTC-TTCTTTT-TT-CCTTTTCCAT
*
445921 TTTTTCTTCTTTTTTCCTTTT-CGT
1 TTTTTCTTCTTTTTTCCTTTTCCAT
* * *
445945 TTTTTCCATCATTTTTCTTTTTCTCAT
1 TTTTT-CTTCTTTTTTCCTTTTC-CAT
445972 TTT
1 TTT
445975 CTCATTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 7 0.16
25 19 0.42
26 4 0.09
27 15 0.33
ACGTcount: A:0.07, C:0.21, G:0.01, T:0.70
Consensus pattern (25 bp):
TTTTTCTTCTTTTTTCCTTTTCCAT
Found at i:445965 original size:18 final size:18
Alignment explanation
Indices: 445938--445992 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
445928 TCTTTTTTCC
*
445938 TTTTCGTTTTTTCCATCAT
1 TTTTCATTTTTTCC-TCAT
445957 TTTTC--TTTTT-CTCAT
1 TTTTCATTTTTTCCTCAT
445972 TTTCTCATTTTTTCCTC-T
1 TTT-TCATTTTTTCCTCAT
445990 TTT
1 TTT
445993 ATTTCTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.22
16 3 0.09
17 5 0.16
18 9 0.28
19 8 0.25
ACGTcount: A:0.07, C:0.22, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTCATTTTTTCCTCAT
Found at i:445975 original size:33 final size:33
Alignment explanation
Indices: 445913--445975 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
445903 TTTTATTCCC
** *
445913 TTTTCCATTTTTTCTTCTTTTTTCCTTTTCGTT
1 TTTTCCATCATTTCTTCTTTTTTCATTTTCGTT
445946 TTTTCCATCATTT-TTCTTTTTCTCATTTTC
1 TTTTCCATCATTTCTTCTTTTT-TCATTTTC
445976 TCATTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 8 0.31
33 18 0.69
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (33 bp):
TTTTCCATCATTTCTTCTTTTTTCATTTTCGTT
Found at i:459150 original size:184 final size:184
Alignment explanation
Indices: 458841--459368 Score: 948
Period size: 184 Copynumber: 2.9 Consensus size: 184
458831 TTCAAATTAC
* *
458841 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* * *
458906 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
458971 ATATTACAAAATTATCTATTACATTATAATTATGGATTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGATTCCGATGTGTAAAATGT
459025 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
459090 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
*
459155 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGATTCCGATGTGTAAAATGT
*
459209 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
459274 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
* * * **
459339 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
459369 AGTTGAAAGT
Statistics
Matches: 332, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 332 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGATTCCGATGTGTAAAATGT
Found at i:460841 original size:3 final size:3
Alignment explanation
Indices: 460833--460919 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
460823 ACTTGTTTGG
* * * **
460833 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
460881 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
460920 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:460856 original size:18 final size:18
Alignment explanation
Indices: 460833--460934 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
460823 ACTTGTTTGG
460833 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
460851 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
460869 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
460887 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
460905 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
460923 AGCTTCATCTTC
1 ATCATCATCTTC
460935 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:460900 original size:42 final size:42
Alignment explanation
Indices: 460841--460931 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
460831 GGATCATCAT
*
460841 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
460883 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
460925 CTTCATC
1 CTTCATC
460932 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:462918 original size:199 final size:199
Alignment explanation
Indices: 462386--463753 Score: 2589
Period size: 199 Copynumber: 6.9 Consensus size: 199
462376 TTTAAATTAG
*
462386 TATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462451 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
462516 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462580 AAAA
196 AAAA
462584 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462649 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** * *
462714 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTTTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462779 AAAA
196 AAAA
462783 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462848 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
462913 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462978 AAAA
196 AAAA
462982 TATCGACACAAACTATATTAGTGTCG--ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
463045 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
463110 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
463175 AAAA
196 AAAA
463179 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
463244 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
463309 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
463374 AAAA
196 AAAA
463378 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
463443 ATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
463508 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
463573 AAAA
196 AAAA
463577 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
463642 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
463707 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
463754 GGCCATATTG
Statistics
Matches: 1145, Mismatches: 21, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
197 197 0.17
198 187 0.16
199 701 0.61
200 60 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:463206 original size:396 final size:397
Alignment explanation
Indices: 462386--463753 Score: 2578
Period size: 396 Copynumber: 3.4 Consensus size: 397
462376 TTTAAATTAG
*
462386 TATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462451 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
462516 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462580 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGG
462645 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
** *
462710 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTTTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
*
462775 AAAAAAAA
390 GAAAAAAA
462783 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462848 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
462913 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462978 AAAATATCGACACAAACTATATTAGTGTCG-ACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAAATATCGACACAAACTATATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGT
463042 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
463107 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG
463172 AAAAAAA
391 AAAAAAA
463179 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
463244 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
463309 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
463374 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGG
*
463439 TATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
463504 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
463569 GAAAAAAA
390 GAAAAAAA
463577 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
463642 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
463707 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
463754 GGCCATATTG
Statistics
Matches: 954, Mismatches: 13, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
396 389 0.41
397 191 0.20
398 314 0.33
399 60 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
AAAATATCGACACAAACTATATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG
AAAAAAA
Found at i:463544 original size:595 final size:595
Alignment explanation
Indices: 462386--463753 Score: 2639
Period size: 595 Copynumber: 2.3 Consensus size: 595
462376 TTTAAATTAG
462386 TATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
462451 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
462516 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
462581 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
462646 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
462711 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTTTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
462776 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
390 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
462841 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
455 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
462906 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
520 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
462971 TGGGAAAAAAA
585 TGGGAAAAAAA
462982 TATCGACACAAACTATATTAGTGTCG-ACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
1 TATCGACACAAACTATATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
463046 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
463111 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AAA
463176 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
463241 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
463306 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
463371 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
390 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
*
463436 CGGTATAATTGTACCGGTTAGATTGAAAAATTACTTATTACATTATACTTTTGGGTTCGATGATT
455 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
463501 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
520 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTC
463566 TGGGAAAAAAA
585 TGGGAAAAAAA
463577 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGA-ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
463642 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
463707 TTGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
463754 GGCCATATTG
Statistics
Matches: 762, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
594 164 0.22
595 428 0.56
596 26 0.03
597 84 0.11
598 60 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (595 bp):
TATCGACACAAACTATATTAGTGTCGAACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
GGGAAAAAAA
Found at i:463918 original size:19 final size:19
Alignment explanation
Indices: 463872--463920 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
463862 TTATATTCAC
*
463872 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
463891 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
463910 ATACAAAATTA
1 ATACAAAATTA
463921 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:465742 original size:33 final size:33
Alignment explanation
Indices: 465705--465770 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
465695 CATCTTAATA
*
465705 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
465738 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
465771 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:465844 original size:21 final size:21
Alignment explanation
Indices: 465804--465868 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
465794 CCCCTTATGC
* *
465804 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
465825 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
465846 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
465867 CT
1 CT
465869 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Done.