Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_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: 2012169
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:792922 original size:21 final size:21
Alignment explanation
Indices: 792897--792936 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
792887 CCTGTGAATA
792897 TGTCCCGAAGGACCTATGAGT
1 TGTCCCGAAGGACCTATGAGT
*
792918 TGTCCCGAATGACCTATGA
1 TGTCCCGAAGGACCTATGA
792937 AACCCTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
TGTCCCGAAGGACCTATGAGT
Found at i:795547 original size:18 final size:17
Alignment explanation
Indices: 795513--795555 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
795503 ACCTTTTTTT
795513 TTCTTATTTTATATTTA
1 TTCTTATTTTATATTTA
*
795530 TTCTTATATTTTTATTTA
1 TTCTTAT-TTTATATTTA
*
795548 TTATTATT
1 TTCTTATT
795556 ACTACTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTCTTATTTTATATTTA
Found at i:808691 original size:5 final size:5
Alignment explanation
Indices: 808600--808674 Score: 71
Period size: 5 Copynumber: 14.8 Consensus size: 5
808590 ACGCCTAAGA
* * * * * *
808600 AAAAG AAAAAT AAAAT AAAAG AAAA- AGAAAG GAAAG GAAAG GAAAG GAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG
808651 AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
808675 AAAGAATGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
4 1 0.02
5 58 0.92
6 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:810549 original size:23 final size:23
Alignment explanation
Indices: 810499--810569 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
810489 CACCGGACCT
* *
810499 AAACCAAACCCGAA-CTAGGCCC
1 AAACCAAACCCAAACCCAGGCCC
* *
810521 AAACCAAACCCAAACCCGGGTCC
1 AAACCAAACCCAAACCCAGGCCC
810544 AAACCAAACCCAAACCCAGGCCC
1 AAACCAAACCCAAACCCAGGCCC
810567 AAA
1 AAA
810570 TTAAAACCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 13 0.31
23 29 0.69
ACGTcount: A:0.44, C:0.42, G:0.11, T:0.03
Consensus pattern (23 bp):
AAACCAAACCCAAACCCAGGCCC
Found at i:815460 original size:12 final size:12
Alignment explanation
Indices: 815443--815490 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
815433 TTAGAATATT
815443 TTAAAATAAAAC
1 TTAAAATAAAAC
815455 TTAAAATAAAA-
1 TTAAAATAAAAC
*
815466 TAAAAATGAAAAC
1 TTAAAAT-AAAAC
*
815479 TTGAAAAGAAAA
1 TT-AAAATAAAA
815491 GAAAGAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 5 0.17
14 4 0.13
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (12 bp):
TTAAAATAAAAC
Found at i:815477 original size:17 final size:17
Alignment explanation
Indices: 815444--815477 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
815434 TAGAATATTT
* *
815444 TAAAATAAAACTTAAAA
1 TAAAATAAAAATGAAAA
815461 TAAAATAAAAATGAAAA
1 TAAAATAAAAATGAAAA
815478 CTTGAAAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAATAAAAATGAAAA
Found at i:822756 original size:17 final size:17
Alignment explanation
Indices: 822734--822766 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
822724 GCATATTTAA
*
822734 AAAATAAAACTGAAAAT
1 AAAATAAAAATGAAAAT
822751 AAAATAAAAATGAAAA
1 AAAATAAAAATGAAAA
822767 CTTGAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATGAAAAT
Found at i:822794 original size:25 final size:24
Alignment explanation
Indices: 822733--822788 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
822723 AGCATATTTA
* *
822733 AAAAATAAAAC-TGAAAATAAAAT
1 AAAAAGAAAACTTGAAAAGAAAAT
822756 AAAAATGAAAACTTGAAAAGAAAAT
1 AAAAA-GAAAACTTGAAAAGAAAAT
822781 -AAAAGAAA
1 AAAAAGAAA
822789 GAACTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 9 0.31
25 11 0.38
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.14
Consensus pattern (24 bp):
AAAAAGAAAACTTGAAAAGAAAAT
Found at i:824172 original size:14 final size:14
Alignment explanation
Indices: 824153--824189 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
824143 TGATGTGATA
824153 ATTTTTATTTATTT
1 ATTTTTATTTATTT
824167 ATTTTTATTTATTT
1 ATTTTTATTTATTT
824181 ATTTTTATT
1 ATTTTTATT
824190 GATGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTATTTATTT
Found at i:825986 original size:17 final size:17
Alignment explanation
Indices: 825964--826001 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
825954 ATTCCTATCA
*
825964 AATAAACTATATAAAAT
1 AATAAACTAAATAAAAT
825981 AATAAACTAAATAAAAT
1 AATAAACTAAATAAAAT
825998 AATA
1 AATA
826002 TAACATTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAACTAAATAAAAT
Found at i:828669 original size:15 final size:15
Alignment explanation
Indices: 828649--828690 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
828639 CATAAAGTAT
*
828649 TCTTTCTTATGCGTG
1 TCTTTCTTATCCGTG
*
828664 TCTTTCTTATCCTTG
1 TCTTTCTTATCCGTG
828679 TCTTTCTTATCC
1 TCTTTCTTATCC
828691 AGAGATCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.26, G:0.10, T:0.57
Consensus pattern (15 bp):
TCTTTCTTATCCGTG
Found at i:837188 original size:21 final size:21
Alignment explanation
Indices: 837159--837211 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
837149 ATTCTAACTA
837159 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
837180 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
837201 TCGCAATGCGA
1 TCGCATTGCGA
837212 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:837344 original size:60 final size:60
Alignment explanation
Indices: 837201--837353 Score: 245
Period size: 60 Copynumber: 2.5 Consensus size: 60
837191 TTTTCCTAAT
*
837201 TCGCAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
* *
837261 TCGCAACGCGATTACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
* *
837321 TCGCAATGCGAATATG-ACTATCGCAATGCGATT
1 TCGCAATGCGAATACGTA-AATCGCAATGCGATT
837354 TACATAGCGC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
59 1 0.01
60 84 0.99
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
Found at i:837351 original size:20 final size:20
Alignment explanation
Indices: 837201--837334 Score: 223
Period size: 20 Copynumber: 6.7 Consensus size: 20
837191 TTTTCCTAAT
837201 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
837221 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
837241 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
837261 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
837281 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
837301 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
837321 TCGCAATGCGAATA
1 TCGCAATGCGAATA
837335 TGACTATCGC
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 106 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:837969 original size:20 final size:20
Alignment explanation
Indices: 837923--837971 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
837913 CAACGAGTGA
837923 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * ** *
837943 ATTGCAATGCGAATTTGATT
1 ATCGCAACGCGAAAATGACT
837963 ATCGCAACG
1 ATCGCAACG
837972 AGAGAATCGC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:838024 original size:20 final size:20
Alignment explanation
Indices: 837999--838048 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
837989 TTTTCATTTT
837999 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
838019 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
838039 GTGTTGCGAT
1 GCGTTGCGAT
838049 TTAAAGTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:839953 original size:20 final size:20
Alignment explanation
Indices: 839924--840087 Score: 214
Period size: 20 Copynumber: 8.5 Consensus size: 20
839914 AGAATAGTTT
839924 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * *
839944 ACTATTGCAACGCGATAATG
1 ACTATCGCAATGCGAAAATG
*
839964 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
839980 A--ATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
839998 ACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATG
840018 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
840038 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
840058 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
840078 ACTATCGCAA
1 ACTATCGCAA
840088 CGAAAGAATC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
14 6 0.05
16 4 0.03
17 3 0.02
18 4 0.03
20 108 0.86
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:839968 original size:40 final size:40
Alignment explanation
Indices: 839924--840125 Score: 214
Period size: 40 Copynumber: 5.4 Consensus size: 40
839914 AGAATAGTTT
* * *
839924 ACTATCGCAATGCGAAAATGACTATTGCAACGCGATAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* *
839964 ACTATCGCAA--CG-AGA-GA--ATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
839998 ACTATCGCAATGTGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
840038 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
840078 ACTATCGCAA--CG-AAA-GA--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
840111 AAAATCGCATTGCGA
1 ACTATCGCAATGCGA
840126 TTCTCTCGTT
Statistics
Matches: 137, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
33 10 0.07
34 34 0.25
35 2 0.01
36 5 0.04
37 7 0.05
38 6 0.04
40 73 0.53
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:840018 original size:54 final size:54
Alignment explanation
Indices: 839927--840125 Score: 238
Period size: 54 Copynumber: 3.6 Consensus size: 54
839917 ATAGTTTACT
* * * *
839927 ATCGCAATGCGAAAATGACTATTGCAACGCGATAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
* *
839981 ATCACAATGCGAAAATGACTATCGCAATGTGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
**
840039 CTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
840095 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
840126 TTCTCTCGTT
Statistics
Matches: 126, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
53 17 0.13
54 53 0.42
56 4 0.03
57 5 0.04
58 4 0.03
60 43 0.34
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:840162 original size:20 final size:20
Alignment explanation
Indices: 840137--840180 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
840127 TCTCTCGTTT
840137 CGATAGTCAAATTCGCATTG
1 CGATAGTCAAATTCGCATTG
** *
840157 CGATAGTCATTTTCGCGTTG
1 CGATAGTCAAATTCGCATTG
840177 CGAT
1 CGAT
840181 TTTGTTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
CGATAGTCAAATTCGCATTG
Found at i:840273 original size:20 final size:20
Alignment explanation
Indices: 840248--840295 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
840238 GCAATGCAAA
840248 ATTGCGATAGTCATTTTCGC
1 ATTGCGATAGTCATTTTCGC
840268 ATTGCGATAGTCATTTTCGC
1 ATTGCGATAGTCATTTTCGC
*
840288 GTTGCGAT
1 ATTGCGAT
840296 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTGCGATAGTCATTTTCGC
Found at i:842254 original size:14 final size:15
Alignment explanation
Indices: 842219--842256 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
842209 TGATTGTTTA
842219 ATTGATTTGTAAAAG
1 ATTGATTTGTAAAAG
*
842234 ATT-ATTTGTAAATG
1 ATTGATTTGTAAAAG
842248 -TTGATTTGT
1 ATTGATTTGT
842257 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 16 0.76
15 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (15 bp):
ATTGATTTGTAAAAG
Found at i:842415 original size:33 final size:34
Alignment explanation
Indices: 842358--842433 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
842348 AAAACAGACT
** *
842358 ATCGCAATGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
842392 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
842425 ATCGCAATG
1 ATCGCAATG
842434 TGATTTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 28 0.74
34 10 0.26
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:842503 original size:20 final size:21
Alignment explanation
Indices: 842462--842551 Score: 132
Period size: 20 Copynumber: 4.4 Consensus size: 21
842452 GTGATTCTCT
*
842462 CGTTGCGATAGTCATTTTCCG
1 CGTTGCGATAGTCATATTCCG
842483 CGTTGCGATAGTCA-ATTCCG
1 CGTTGCGATAGTCATATTCCG
*
842503 CATTGCGATAGTCAT-TTCCG
1 CGTTGCGATAGTCATATTCCG
*
842523 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCATATTCCG
842543 CGTTGCGAT
1 CGTTGCGAT
842552 TTCCGCGTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
20 46 0.74
21 16 0.26
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (21 bp):
CGTTGCGATAGTCATATTCCG
Found at i:844981 original size:24 final size:24
Alignment explanation
Indices: 844947--845000 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
844937 CTGAAAAATC
*
844947 ATCAAAATCCGAGTATTGCCCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
844971 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
844995 ATCAAA
1 ATCAAA
845001 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:845851 original size:20 final size:20
Alignment explanation
Indices: 845828--845943 Score: 105
Period size: 20 Copynumber: 5.8 Consensus size: 20
845818 TTGCGATAGT
* *
845828 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
845848 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
845868 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
845888 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
845908 C-GTAATCGCATTGCGATAGT-
1 CAG-AATCGCATTGCGAT-TTA
*
845928 CAGAATCGCGTTGCGA
1 CAGAATCGCATTGCGA
845944 ATCTGGAAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.01
20 84 0.97
21 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:845882 original size:40 final size:40
Alignment explanation
Indices: 845838--845924 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
845828 CAGAATCTCG
*
845838 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGTAATCGCA
845878 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
845918 TTGCGAT
1 TTGCGAT
845925 AGTCAGAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
Found at i:845942 original size:40 final size:38
Alignment explanation
Indices: 845838--845943 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 38
845828 CAGAATCTCG
*
845838 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGA-TT-CAGATTCGCATTGCGATTTACGTAATCGCA
*
845878 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTCA-G-ATTCGCATTGCGATTTACGTAATCGCA
* *
845918 TTGCGATAGTCAGAATCGCGTTGCGA
1 TTGCGAT--TCAGATTCGCATTGCGA
845944 ATCTGGAAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 50 0.88
41 1 0.02
42 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (38 bp):
TTGCGATTCAGATTCGCATTGCGATTTACGTAATCGCA
Found at i:848561 original size:10 final size:10
Alignment explanation
Indices: 848546--848591 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
848536 TTCATCACAC
*
848546 CAAATCCTAT
1 CAAATCCTCT
848556 CAAATCCTCT
1 CAAATCCTCT
*
848566 CAAAACCTCT
1 CAAATCCTCT
848576 CAAATCCTCT
1 CAAATCCTCT
*
848586 TAAATC
1 CAAATC
848592 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:848676 original size:19 final size:20
Alignment explanation
Indices: 848663--848700 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
848653 ATATTCATTT
848663 TTTAGTATTTTATTTAATTA
1 TTTAGTATTTTATTTAATTA
848683 TTTAGTA-TTTATTTAATT
1 TTTAGTATTTTATTTAATT
848701 TTTTTTGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTAGTATTTTATTTAATTA
Found at i:848790 original size:21 final size:22
Alignment explanation
Indices: 848764--848806 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
848754 ATTCTGGATT
848764 GTTCACACTC-CCCATCCATCC
1 GTTCACACTCTCCCATCCATCC
*
848785 GTTCACACTCTCCCTTCCATCC
1 GTTCACACTCTCCCATCCATCC
848807 TATAAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.16, C:0.51, G:0.05, T:0.28
Consensus pattern (22 bp):
GTTCACACTCTCCCATCCATCC
Found at i:848967 original size:25 final size:25
Alignment explanation
Indices: 848917--848986 Score: 110
Period size: 24 Copynumber: 2.9 Consensus size: 25
848907 TAATATATTA
848917 TATTTTATTCTATTTA-TTTTTTAG
1 TATTTTATTCTATTTATTTTTTTAG
848941 TATTTTATTCTATTTATTTTTTTAG
1 TATTTTATTCTATTTATTTTTTTAG
*
848966 TA-TTTATT-TAATTATTTTTTT
1 TATTTTATTCTATTTATTTTTTT
848987 GTAGTTATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 12 0.27
24 22 0.50
25 10 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (25 bp):
TATTTTATTCTATTTATTTTTTTAG
Found at i:848983 original size:20 final size:20
Alignment explanation
Indices: 848946--848983 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
848936 TTTAGTATTT
*
848946 TATTCTATTTATTTTTTTAG
1 TATTCTATTTATTATTTTAG
848966 TATT-TATTTAATTATTTT
1 TATTCTATTT-ATTATTTT
848984 TTTGTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TATTCTATTTATTATTTTAG
Found at i:852852 original size:30 final size:30
Alignment explanation
Indices: 852805--852895 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
852795 AATATAAGAA
852805 GATTGTATG-GTGATGTTTATGGGTTGAGAG
1 GATTGT-TGTGTGATGTTTATGGGTTGAGAG
* * *
852835 GATTGTTGTGTGTTGTTT-TCCGGTTGACAG
1 GATTGTTGTGTGATGTTTAT-GGGTTGAGAG
* *
852865 GATTGTTGTGTGAATGTTTACGGGGTGAGAG
1 GATTGTTGTGTG-ATGTTTATGGGTTGAGAG
852896 CGTTTCATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 3 0.06
30 34 0.69
31 12 0.24
ACGTcount: A:0.16, C:0.04, G:0.38, T:0.41
Consensus pattern (30 bp):
GATTGTTGTGTGATGTTTATGGGTTGAGAG
Found at i:853046 original size:51 final size:51
Alignment explanation
Indices: 852955--853074 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
852945 CATAATTATA
* * * * * *
852955 AAAGTTGCGGCCCATACACCGCGCCTATCTGGCGCGTGTGTCAGCCGACAG
1 AAAGGTGCGACCCATGCACCGCGCCTATCTGGCACATGTGTCAGACGACAG
* *
853006 AAAGGTGCGACCCATGCACCGCTCCTATCTGGCACATGTGTCAGACGATAG
1 AAAGGTGCGACCCATGCACCGCGCCTATCTGGCACATGTGTCAGACGACAG
* *
853057 AAAGGCGTGACCCATGCA
1 AAAGGTGCGACCCATGCA
853075 TCGTGACTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (51 bp):
AAAGGTGCGACCCATGCACCGCGCCTATCTGGCACATGTGTCAGACGACAG
Found at i:857427 original size:19 final size:19
Alignment explanation
Indices: 857405--857469 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
857395 TTAAAAATGG
857405 TTAAAATAATATTAATGAA
1 TTAAAATAATATTAATGAA
* *
857424 TTAAAATATTCA-AAATGAA
1 TTAAAATAAT-ATTAATGAA
*
857443 TTAAAATAATATTTAATTAA
1 TTAAAATAATA-TTAATGAA
*
857463 TAAAAAT
1 TTAAAAT
857470 GTTGAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 24 0.65
20 12 0.32
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (19 bp):
TTAAAATAATATTAATGAA
Found at i:858431 original size:14 final size:14
Alignment explanation
Indices: 858408--858437 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
858398 TTACATTGAG
858408 TTTCTCAATAAAAC
1 TTTCTCAATAAAAC
*
858422 TTTCTTAATAAAAC
1 TTTCTCAATAAAAC
858436 TT
1 TT
858438 AAAATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTCTCAATAAAAC
Found at i:862075 original size:30 final size:30
Alignment explanation
Indices: 862039--862102 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
862029 TAAGAGATTA
862039 ATATAAAAATTTGATAACAAATTCTAACAC
1 ATATAAAAATTTGATAACAAATTCTAACAC
* *
862069 ATATAAAATTTTGATAACAAATTTTAACAC
1 ATATAAAAATTTGATAACAAATTCTAACAC
862099 ATAT
1 ATAT
862103 TATATGATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (30 bp):
ATATAAAAATTTGATAACAAATTCTAACAC
Found at i:862351 original size:32 final size:32
Alignment explanation
Indices: 862325--862414 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
862315 TTGACCTAAA
862325 CCGAAAATCAACAGATCTGATATTGACCCGAC
1 CCGAAAATCAACAGATCTGATATTGACCCGAC
* * *
862357 CCG-AAATCTAACCGATCCGATATTAACCCGAC
1 CCGAAAATC-AACAGATCTGATATTGACCCGAC
*
862389 CCAAAAATCAATCA-ATCTGATATTGA
1 CCGAAAATCAA-CAGATCTGATATTGA
862415 TGTAACACCT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 5 0.10
32 37 0.77
33 6 0.12
ACGTcount: A:0.39, C:0.28, G:0.12, T:0.21
Consensus pattern (32 bp):
CCGAAAATCAACAGATCTGATATTGACCCGAC
Found at i:865607 original size:29 final size:30
Alignment explanation
Indices: 865559--865619 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
865549 ATTTTGGTCT
**
865559 CTAAACTTTTCAAAGTTTATACTTTAGCCA
1 CTAAACTTTTCAAAACTTATACTTTAGCCA
* *
865589 CTAAAC-TTTCAAAACTTATATTTTAGTCA
1 CTAAACTTTTCAAAACTTATACTTTAGCCA
865618 CT
1 CT
865620 TCGCAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (30 bp):
CTAAACTTTTCAAAACTTATACTTTAGCCA
Found at i:873919 original size:20 final size:20
Alignment explanation
Indices: 873896--873934 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
873886 TTCTCTATCT
*
873896 AATAACTAAATTCAAAATTA
1 AATAAATAAATTCAAAATTA
**
873916 AATAAATAGCTTCAAAATT
1 AATAAATAAATTCAAAATT
873935 CAAAATAAAA
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:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
AATAAATAAATTCAAAATTA
Found at i:874783 original size:15 final size:15
Alignment explanation
Indices: 874759--874796 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
874749 ATTTAATATA
*
874759 GACCCAAAATTACCT
1 GACCCAAAATGACCT
*
874774 GACCCGAAATGACCT
1 GACCCAAAATGACCT
874789 GACCCAAA
1 GACCCAAA
874797 CCCGATCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.34, G:0.13, T:0.13
Consensus pattern (15 bp):
GACCCAAAATGACCT
Found at i:875031 original size:29 final size:29
Alignment explanation
Indices: 874989--875050 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
874979 CGAGTAATTC
874989 GTTAATGTTTTAAATAAATTTTTTAAGTT
1 GTTAATGTTTTAAATAAATTTTTTAAGTT
875018 GTTAATGTTTTAAATAAATTTTTTAAGTT
1 GTTAATGTTTTAAATAAATTTTTTAAGTT
875047 GTTA
1 GTTA
875051 TCTTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (29 bp):
GTTAATGTTTTAAATAAATTTTTTAAGTT
Found at i:875061 original size:29 final size:29
Alignment explanation
Indices: 875000--875059 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
874990 TTAATGTTTT
* **
875000 AAATAAATTTTTTAAGTTGTTAATGTTTT
1 AAATAAATTTTTTAAGTTGTTAATCTTAA
875029 AAATAAATTTTTTAAGTTGTT-ATCTTAA
1 AAATAAATTTTTTAAGTTGTTAATCTTAA
875057 AAA
1 AAA
875060 ATTATTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (29 bp):
AAATAAATTTTTTAAGTTGTTAATCTTAA
Found at i:875428 original size:30 final size:30
Alignment explanation
Indices: 875381--875438 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
875371 CTTGATGAGC
* *
875381 TTAATGAGCAATGAGTCGTGCAACAATTTTT
1 TTAACGAGCAATGAGTCGAGCAA-AATTTTT
875412 TTAACGAGCAA-GAGTCGAGCAAAATTT
1 TTAACGAGCAATGAGTCGAGCAAAATTT
875439 GAACGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 10 0.40
31 10 0.40
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (30 bp):
TTAACGAGCAATGAGTCGAGCAAAATTTTT
Found at i:875882 original size:15 final size:15
Alignment explanation
Indices: 875862--875892 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
875852 AATTGTCTAA
875862 AAGTTCAAATAAAAT
1 AAGTTCAAATAAAAT
*
875877 AAGTTCAAATACAAT
1 AAGTTCAAATAAAAT
875892 A
1 A
875893 TTGGCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (15 bp):
AAGTTCAAATAAAAT
Found at i:884309 original size:15 final size:14
Alignment explanation
Indices: 884280--884318 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
884270 ACACATGCAC
884280 ACATGCATA-AGAT
1 ACATGCATACAGAT
884293 ACATGCATACGAGAT
1 ACATGCATAC-AGAT
884308 ACATGCATACA
1 ACATGCATACA
884319 TCATATACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 1 0.04
15 14 0.58
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (14 bp):
ACATGCATACAGAT
Found at i:885543 original size:14 final size:14
Alignment explanation
Indices: 885521--885563 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
885511 TTTTTTAGGG
885521 TTAAAGTTTAAGAT
1 TTAAAGTTTAAGAT
*
885535 TTAATGTTTAAGAT
1 TTAAAGTTTAAGAT
* *
885549 TTAAACTATAAGAT
1 TTAAAGTTTAAGAT
885563 T
1 T
885564 CATGATTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (14 bp):
TTAAAGTTTAAGAT
Found at i:889788 original size:23 final size:23
Alignment explanation
Indices: 889762--889820 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
889752 ATCAAGTTCA
*
889762 ATAATATATTAGGTAGCGCTTAG
1 ATAATATAATAGGTAGCGCTTAG
* *
889785 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAG
*
889808 ATAATAAAATAGG
1 ATAATATAATAGG
889821 CATTTAACCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAG
Found at i:889880 original size:87 final size:87
Alignment explanation
Indices: 889734--889896 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
889724 TATGTTATAT
* * * *
889734 CATTTAATCGGAAATATCATCAAGTTCAATAATATATTAGGTAGCGCTTAGATAATGTAATAGGT
1 CATTTAACCGGAAATATCATCAAGTACAATAACATATTAGGTAACGCTTAGATAATGTAATAGGT
* *
889799 AGCGCTTATATAATAAAATAGG
66 AACACTTATATAATAAAATAGG
* * *
889821 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGGTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATCATCAAGTACAATAACATATTAGGTAACGCTTAGATAATGTAATAGGT
889886 AACACTTATAT
66 AACACTTATAT
889897 TGACCTATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGGAAATATCATCAAGTACAATAACATATTAGGTAACGCTTAGATAATGTAATAGGT
AACACTTATATAATAAAATAGG
Found at i:890321 original size:198 final size:199
Alignment explanation
Indices: 889918--890413 Score: 553
Period size: 198 Copynumber: 2.5 Consensus size: 199
889908 CCAACTAAAC
* * *
889918 CGGTTTATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTT
* * *
889983 TTAGGGATCGATACAATTT--TAAATATATCGACACTTTATGCGTGCACCTCGTTGGACATTCAT
66 TTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATTCAT
* * * * *
890046 GATGGAAAAAAGTATCGGCACATATTTAAAAAGTGTAGATACATAATGTTGACTTATTCTCTCAT
130 GATGGAAAAAAGTATCGACACAAATTCAAAAAGTGTAGATACATAATGTTGACATATTCTCTAAT
890111 AAAAT
195 AAAAT
* * *
890116 CGGTATATTTATATCGGTTACATTGTAAATTTA-CTAATTAAATCATAATT-TCAGTTTCGATGT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCT-ATTACATTATAATTATCAGTTTCGATGT
* * *
890179 TTTTGGGATCGATACTTTTAATAAATGTATCGACATTTTAT-CGTGTACCTCGTTTGGGCATTCA
65 TTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGACATTCA
** * * * * * * * * * *
890243 TTCTGGACAATAAGTATCGATACAAATTCCACAAGTTTCGATACAGT-ATGTTTACATGTTTTGT
129 TGATGGA-AAAAAGTATCGACACAAATTCAAAAAGTGTAGATACA-TAATGTTGACATATTCTCT
* *
890307 AATTAACT
192 AATAAAAT
* *
890315 -GGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT-TGATTTCGATGT
1 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAG-TTTCGATG-
890378 TTTTTGGG-TCGATACTTTTAGA-AAATGTATCGACAC
64 TTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
890414 ATTTTTTATC
Statistics
Matches: 250, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
196 3 0.01
197 38 0.15
198 118 0.47
199 81 0.32
200 10 0.04
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (199 bp):
CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTT
TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACATTCATG
ATGGAAAAAAGTATCGACACAAATTCAAAAAGTGTAGATACATAATGTTGACATATTCTCTAATA
AAAT
Found at i:893166 original size:19 final size:19
Alignment explanation
Indices: 893142--893190 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
893132 ATTACATTCA
*
893142 TATACAAAATTATAAATTG
1 TATACAAAATTATAAATCG
*
893161 TATACAAAATTATGAATCG
1 TATACAAAATTATAAATCG
893180 TATACAAAATT
1 TATACAAAATT
893191 TCCCTTACAT
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:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (19 bp):
TATACAAAATTATAAATCG
Found at i:895512 original size:199 final size:199
Alignment explanation
Indices: 894754--896143 Score: 1965
Period size: 199 Copynumber: 7.0 Consensus size: 199
894744 GTGTAATTTA
* * *
894754 AAAAAGTATCGACACAACTTTAAAAAGTGTCGATACATTATGTAGACCTAATTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * * *
894819 GTATATTTCTATCAGTTACATTAGAAATTTACCTACTACATTATATTTATCAGTT-TT-GATGTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATC--TTATTCGATGTT
* * * ** *
894882 TATGGAATCGATACTTTTTATAAATGTATCGACACTTTATTCGTTCACCCCGTTGGGCATTCTTT
129 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATT
*
894947 CTGGTC
194 CTGGAC
* * * *
894953 AAAATGCATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATACTCTCTTAA--AA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTAT--TTTC-TAATTAA
* * * * *
895016 CTGGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTTTAATTATCGGT-TTCGATG
63 CCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATC-TTATTCGATG
* * * * * ** *
895080 TTTATGGAATCGATACTTTTTATAAATGTATCGACAATTTATTTGTACACCCCGTTGGGCATTCT
127 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCA
*
895145 TTCTGGTC
192 TTCTGGAC
**
895153 AAAAAACATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAA--AA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATT-T-TC-TAATTAA
* * * * * *
895216 CTGGTATATTTATACCAGTTACATTGGAAATTTACCTATTACATTTTAATTATCGGT-TTCGATG
63 CCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATC-TTATTCGATG
* ** * * *
895280 TTTTTGGGATCAATACAATTT-TAAATGTATCGACACTTTATGCGTGCAC-TCTTTTAGGCATTC
127 TTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTC-GTTGGGCATTC
*
895343 ATTCTGAAC
191 ATTCTGGAC
895352 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
895417 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
* *
895482 TGGGATCGATACTTTTTATAAATATATCGACACTTTATTCGTGCACGTCGTTGTGCATTCATTCT
131 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
895547 GGAC
196 GGAC
*
895551 AAAAAGTATCGACACAAATTTAAGAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
895616 GTATATTTCTACCGGTTACATTGGAAATTAACCTATTACATTATAATTAACTTATTCGATATTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
* * *
895681 TGGGATCGATATTTGTTTATAAATATATCGACACTTTATTCGTACACGTCGTTGGGCATTCATTC
131 TGGGATCGATACTT-TTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTC
*
895746 TGGAT
195 TGGAC
*
895751 AAAAAGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
*
895816 GTATATTTCTACCGGTTACATTGGAAATTGATCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
* * * *
895881 TGGGATTGATACTTTTTATAAATGTATCAACACTTTATTCGTGCACGTCATTGGGCATTCGTTCT
131 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
895946 GGAC
196 GGAC
* * * *
895950 AAAAAGTATCAACACAAATTTAAGAAGTGTCGAAACATTATGTAGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
896015 GTATATTTCTACCGGTTACATTGGAAATTGA-CTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
*
896079 TGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
131 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
896144 TGAGCTTTTT
Statistics
Matches: 1094, Mismatches: 84, Indels: 27
0.91 0.07 0.02
Matches are distributed among these distances:
196 3 0.00
197 3 0.00
198 172 0.16
199 462 0.42
200 448 0.41
201 3 0.00
202 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
GGAC
Found at i:895843 original size:399 final size:397
Alignment explanation
Indices: 894754--896143 Score: 1945
Period size: 399 Copynumber: 3.5 Consensus size: 397
894744 GTGTAATTTA
* * *
894754 AAAAAGTATCGACACAACTTTAAAAAGTGTCGATACATTATGTAGACCTAATTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
894819 GTATATTTCTATCAGTTACATTAGAAATTTACCTACTACATTATATTTATCAGTTTT-GATGTTT
66 GTATATTTCTACCAGTTACATTGGAAATTTACCTATTACATTATAATTA--ACTTTTCGATGTTT
* * * * ** *
894883 ATGGAATCGATACTTTTTATAAATGTATCGACACTTTATTCGTTCACCCCGTTGGGCATTCTTTC
129 TTGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTC
* * * *
894948 TGG-TCAAAATGCATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATACTCTCTT
194 TGGAT-AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTAT--TTTC-T
* * * * *
895012 AA--AACTGGTATATTTATACCGGTTACATTGGAAATTTACCTATTACATTTTAATTATCGGT-T
255 AATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATC-TTAT
* * * * * **
895074 TCGATGTTTATGGAATCGATACTTTTTATAAATGTATCGACAATTTATTTGTACACCCCGTTGGG
319 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGG
* *
895139 CATTCTTTCTGGTC
384 CATTCATTCTGGAC
**
895153 AAAAAACATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAA--AA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATT-T-TC-TAATTAA
* * * * *
895216 CTGGTATATTTATACCAGTTACATTGGAAATTTACCTATTACATTTTAATTATCGGTTTCGATGT
63 CCGGTATATTTCTACCAGTTACATTGGAAATTTACCTATTACATTATAATTAAC-TTTTCGATGT
** * * *
895281 TTTTGGGATCAATACAATTT-TAAATGTATCGACACTTTATGCGTGCAC-TCTTTTAGGCATTCA
127 TTTTGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTC-GTTGGGCATTCA
* *
895344 TTCTGAACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTA
191 TTCTGGATAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTA
895409 ATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTC
256 ATTAACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTC
* *
895474 GATGTTTTTGGGATCGATACTTTTTATAAATATATCGACACTTTATTCGTGCACGTCGTTGTGCA
321 GATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCA
895539 TTCATTCTGGAC
386 TTCATTCTGGAC
*
895551 AAAAAGTATCGACACAAATTTAAGAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
895616 GTATATTTCTACCGGTTACATTGGAAATTAACCTATTACATTATAATTAACTTATTCGATATTTT
66 GTATATTTCTACCAGTTACATTGGAAATTTACCTATTACATTATAATTAACTT-TTCGATGTTTT
* * * *
895681 TGGGATCGATATTTGTTTATAAATATATCGACACTTTATTCGTACACGTCGTTGGGCATTCATTC
130 TGGGATCAATACTT-TTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTC
*
895746 TGGATAAAAAGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
194 TGGATAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATT
*
895811 AACCGGTATATTTCTACCGGTTACATTGGAAATTGATCTATTACATTATAATTATCTTATTCGAT
259 AACCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGAT
* * *
895876 GTTTTTGGGATTGATACTTTTTATAAATGTATCAACACTTTATTCGTGCACGTCATTGGGCATTC
324 GTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTC
*
895941 GTTCTGGAC
389 ATTCTGGAC
* * * *
895950 AAAAAGTATCAACACAAATTTAAGAAGTGTCGAAACATTATGTAGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
896015 GTATATTTCTACCGGTTACATTGGAAATTGA-CTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCAGTTACATTGGAAATTTACCTATTACATTATAATTAACTT-TTCGATGTTTT
896079 TGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
130 TGGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCT
896144 TGAGCTTTTT
Statistics
Matches: 889, Mismatches: 86, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
395 3 0.00
396 6 0.01
397 124 0.14
398 217 0.24
399 463 0.52
400 71 0.08
401 2 0.00
402 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (397 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCAGTTACATTGGAAATTTACCTATTACATTATAATTAACTTTTCGATGTTTTT
GGGATCAATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCATTCTG
GATAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAA
CCGGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGT
TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACGTCGTTGGGCATTCAT
TCTGGAC
Found at i:898152 original size:202 final size:201
Alignment explanation
Indices: 897543--898334 Score: 1199
Period size: 201 Copynumber: 3.9 Consensus size: 201
897533 TGTATCGACA
*
897543 CTAGTTTGGGCATTCATTCTGGACGAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
1 CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
* * * * *
897608 GTAGACCTATTCTCTCTTAAAACGGGTATATTTATACCTGTTACATTGAAAAATTACCTATAAAA
66 GTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATAACA
* * * *
897673 TTAAAATTATGAGTTTCGATGTTTTTGGGATCGATACGTTTTATAAATGTATTGACACTTTATGC
131 TTATAATTATGAGTTTCAATGTTTTTGGGATCGATACGTTTTTTAAATGTATCGACACTTTATGC
897738 GTGCAC
196 GTGCAC
* * * *
897744 CTAGTTTGGGCATTCATTCTAGACGAAAAGTATCGACACTAACTTAAAAAGTATCGATACATTAT
1 CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
* * *
897809 GTAGACCTATTCTCACATAAAACAGGTATATTTATACCGGTTACATTAAAAAATTACCTATTACA
66 GTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATAACA
* * * * *
897874 TTATAATTATTAGTTTCGATGTTTTTTGGATCGATACCTTTTGTAAATGTATCGACACTTTATGC
131 TTATAATTATGAGTTTCAATGTTTTTGGGATCGATACGTTTTTTAAATGTATCGACACTTTATGC
*
897939 GTGCTC
196 GTGCAC
* * *
897945 CTAGTTTGGGCATTAATTATGGACAAAAAGTATTGACACAAACTTAAAAAGTGTCGATACATTAT
1 CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
* * *
898010 GTAGAACTATTCTCACATAAAAACCGGTATAATTATATCGGTTACATTGAAAAATTACCTATAAC
66 GTAGACCTATTCTCACAT-AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATAAC
*
898075 ATTATAATTATGAGTTTCAATGTTTTTGGGATCAATACGTTTTTTAAATGTATCGACACTTTATG
130 ATTATAATTATGAGTTTCAATGTTTTTGGGATCGATACGTTTTTTAAATGTATCGACACTTTATG
898140 CGTGCAC
195 CGTGCAC
898147 CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
1 CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
* * * * * * *
898212 GTAGACCCATTCTCACATAAAATCGATAGATTTATACCGGTTACATTGAAAAATTACATATTATA
66 GTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATAACA
* * *
898277 TTATAATTATGGGTTTCAATGTTTTTGAGATCGATAC-TTTTTGTAAATGTATCCACAC
131 TTATAATTATGAGTTTCAATGTTTTTGGGATCGATACGTTTTT-TAAATGTATCGACAC
898335 ATATGTTTAC
Statistics
Matches: 535, Mismatches: 54, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
200 5 0.01
201 346 0.65
202 184 0.34
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (201 bp):
CTAGTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
GTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATAACA
TTATAATTATGAGTTTCAATGTTTTTGGGATCGATACGTTTTTTAAATGTATCGACACTTTATGC
GTGCAC
Found at i:898301 original size:403 final size:387
Alignment explanation
Indices: 897385--898335 Score: 1363
Period size: 403 Copynumber: 2.4 Consensus size: 387
897375 CGAAATTTAG
* * *
897385 AAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGTAGAACTATTCTCACATAAAACCG
1 AAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CG
* *
897450 GTATATTTATACCGGTTACATTGAAAAATTACTTATTACATTATAATTA--TTTCGATGTTTTTG
65 GTATATTTATACCGGTTACATTGAAAAATTACATATTACATTATAATTATGTTTCGATGTTTTTT
* * *
897513 GGATCGATACCTTTTGTAAATGTATCG--ACACTAGTTTGGGCATTCATTCTGGACGAAAAGTAT
130 GGATCGATACCTTTTGTAAATGTATCGACACACTAGTTTGGGCATTAATTATGGACAAAAAGTAT
* * * * *
897576 CGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCTTAAAACGGGTATATTT
195 CGACACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTCTCACTAAAAACCGGTATAATT
* * *
897641 ATACCTGTTACATTGAAAAATTACCTATAAAATTAAAATTATGAGTTTCGATGTTTTTGGGATCG
260 ATACCGGTTACATTGAAAAATTACCTATAAAATTAAAATTATGAGTTTCAATGTTTTTGGGATCA
* *
897706 ATACGTTTTATAAATGTATTGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTCTAGACG
325 ATACGTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTCTAGACA
* *
897769 AAAAGTATCGACACTAACTTAAAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAACAG
1 AAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAC-G
* *
897834 GTATATTTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATTAGTTTCGATGTTTT
65 GTATATTTATACCGGTTACATTGAAAAATTACATATTACATTATAATTA-T-GTTTCGATGTTTT
897899 TTGGATCGATACCTTTTGTAAATGTATCGACACTTTATGCGTGCTCCTAGTTTGGGCATTAATTA
128 TTGGATCGATACCTTTTGTAAATGTATCGACAC---A---------CTAGTTTGGGCATTAATTA
*
897964 TGGACAAAAAGTATTGACACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTCTCACATA
181 TGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTCTCAC-TA
* * *
898029 AAAACCGGTATAATTATATCGGTTACATTGAAAAATTACCTATAACATTATAATTATGAGTTTCA
245 AAAACCGGTATAATTATACCGGTTACATTGAAAAATTACCTATAAAATTAAAATTATGAGTTTCA
*
898094 ATGTTTTTGGGATCAATACGTTTTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCA
310 ATGTTTTTGGGATCAATACGTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCA
*
898159 TTCATTCTGGACA
375 TTCATTCTAGACA
*
898172 AAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCCATTCTCACATAAAATCG
1 AAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CG
* * * *
898237 ATAGATTTATACCGGTTACATTGAAAAATTACATATTATATTATAATTATGGGTTTCAATG-TTT
65 GTATATTTATACCGGTTACATTGAAAAATTACATATTACATTATAATTAT--GTTTCGATGTTTT
* *
898301 TTGAGATCGATACTTTTTGTAAATGTATCCACACA
128 TTG-GATCGATACCTTTTGTAAATGTATCGACACA
898336 TATGTTTACC
Statistics
Matches: 505, Mismatches: 39, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
383 1 0.00
384 105 0.21
388 40 0.08
390 2 0.00
393 1 0.00
400 1 0.00
402 82 0.16
403 272 0.54
404 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (387 bp):
AAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACGG
TATATTTATACCGGTTACATTGAAAAATTACATATTACATTATAATTATGTTTCGATGTTTTTTG
GATCGATACCTTTTGTAAATGTATCGACACACTAGTTTGGGCATTAATTATGGACAAAAAGTATC
GACACAAACTTAAAAAGTGTCGATACATTATGTAGAACTATTCTCACTAAAAACCGGTATAATTA
TACCGGTTACATTGAAAAATTACCTATAAAATTAAAATTATGAGTTTCAATGTTTTTGGGATCAA
TACGTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCATTCTAGACA
Found at i:900390 original size:18 final size:18
Alignment explanation
Indices: 900367--900423 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
900357 CCTCCTTATT
*
900367 TTCCTCCATCTTTTCTTC
1 TTCCTCAATCTTTTCTTC
900385 TTCCTCAATCTTTTCTTC
1 TTCCTCAATCTTTTCTTC
*
900403 TCCCTCAATCTTTTCTTC
1 TTCCTCAATCTTTTCTTC
900421 TTC
1 TTC
900424 ATATTTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.09, C:0.37, G:0.00, T:0.54
Consensus pattern (18 bp):
TTCCTCAATCTTTTCTTC
Found at i:900647 original size:33 final size:33
Alignment explanation
Indices: 900610--900673 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
900600 TCTTAATTTT
* *
900610 ACCCCTCAACACCTCAACTTCTTTTACCACTTA
1 ACCCCTCAAAACCTCAACTTCTTTCACCACTTA
900643 ACCCCTCAAAACCTCAACTTCTTTCACCACT
1 ACCCCTCAAAACCTCAACTTCTTTCACCACT
900674 CCATCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (33 bp):
ACCCCTCAAAACCTCAACTTCTTTCACCACTTA
Found at i:901159 original size:22 final size:23
Alignment explanation
Indices: 901131--901185 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
901121 AACCTGCATT
*
901131 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
901153 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
901177 TATAA-AAAA
1 TATAATAAAA
901186 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 4 0.14
24 15 0.54
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:903490 original size:182 final size:182
Alignment explanation
Indices: 903183--903781 Score: 839
Period size: 182 Copynumber: 3.3 Consensus size: 182
903173 CACGTACTTA
*
903183 TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTA-TCATTTCGAGACCGG
1 TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACC-GGTTTAGTCATTTCGAGACCGG
* * * *
903247 TTTTTTCATATTTTTACGTGTTATATCGTTATGAATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATATTTTTACCTGTTATATCTTTATGGATCGATACATTTTTATAAAGTATCGACACTT
903312 TATAGGCTCTATTACTGTTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATT
130 TATAGGCTCTATTACTGTTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATT
* * *
903365 TTAAAGTATCTACACTTCCAAAATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCGGT
1 TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCGGT
*
903430 TTTGTCATATTTTTACCTTTTATATCTTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATCTTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * *
903495 ATAGG-TGCTATTATTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATA
131 ATAGGCT-CTATTACTGTTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATT
* * * * * * * * * *
903547 TTATAGTATCGATACTTTCAATATATCCAGTAGTGCTTTATCGATTTTGTCTTTTCAAGACCGGA
1 TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCGGT
903612 TTTGTCATATTTTTACCTGTTATAT-TATTATGGATCGATACATTTTTATAAAGTATCGACACTT
66 TTTGTCATATTTTTACCTGTTATATCT-TTATGGATCGATACATTTTTATAAAGTATCGACACTT
* *
903676 TATAGGCACT-TTACT-TCTTCTCTTTTAAATTCCCAAAGTGTTGATACTTATT
130 TATAGGCTCTATTACTGT-TTCTCTTTTAAATTCCCAAAGTGTCGATACTTATT
* ** * * * *
903728 TCAATCTAATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCAT
1 TTAAAGT-ATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTAGTCAT
903782 ATTTTTACCT
Statistics
Matches: 369, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
181 47 0.13
182 322 0.87
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (182 bp):
TTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTAGTCATTTCGAGACCGGT
TTTGTCATATTTTTACCTGTTATATCTTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
ATAGGCTCTATTACTGTTTCTCTTTTAAATTCCCAAAGTGTCGATACTTATT
Found at i:910007 original size:11 final size:13
Alignment explanation
Indices: 909975--910004 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
909965 TGGCCAAAGA
909975 TGAAAAGGTATGT
1 TGAAAAGGTATGT
909988 TGAAAAGGTATG-
1 TGAAAAGGTATGT
910000 TGAAA
1 TGAAA
910005 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:913669 original size:18 final size:18
Alignment explanation
Indices: 913646--913689 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
913636 CATTCAACAT
913646 AGATATCAATTGTTTGAG
1 AGATATCAATTGTTTGAG
913664 AGATATCAATTGTTTGAG
1 AGATATCAATTGTTTGAG
913682 AGATATCA
1 AGATATCA
913690 TAGGGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (18 bp):
AGATATCAATTGTTTGAG
Found at i:917397 original size:32 final size:32
Alignment explanation
Indices: 917359--917422 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
917349 TTTGTTTCAC
917359 ATGTAGGTGCAAGCAAGTGAAGTAGAGGGTGT
1 ATGTAGGTGCAAGCAAGTGAAGTAGAGGGTGT
*
917391 ATGTAGGTGCAAGCAAGTGGAGTAGAGGGTGT
1 ATGTAGGTGCAAGCAAGTGAAGTAGAGGGTGT
917423 GCCACCATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.42, T:0.22
Consensus pattern (32 bp):
ATGTAGGTGCAAGCAAGTGAAGTAGAGGGTGT
Found at i:925325 original size:3 final size:3
Alignment explanation
Indices: 925319--925383 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
925309 TCATTTAAAT
** * * *
925319 TTA TTA TTA TTA TTA AAA GTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
925367 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
925384 AATATTACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:937886 original size:165 final size:163
Alignment explanation
Indices: 937571--937891 Score: 484
Period size: 165 Copynumber: 2.0 Consensus size: 163
937561 AGAATGAGTA
* *
937571 TTATCTTGAGATTGGGGCATGTTACTCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
** ** * *
937636 TTTCCATAGTTTCTCATTTTATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAATGATTTTCTT
66 TTTCCATAGTTTCTCATTCAATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTCCAT
* *
937701 AGTTTTTTACTTATTAAACTATTTCCAACAACC
131 AGTTTCTTACTTAGTAAACTATTTCCAACAACC
*
937734 TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATCTT-GAAAA-ATAATGAGAAAACG
1 TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTAT-TTCAAAAACATAATGAGAAAACG
*
937797 ATTTCCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAATAGTAAGAAAACAATTT
65 ATTTCCATAGTTTCTCATTCAATC-TTT-T-AAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
937862 CCATAGTTTCTTACTTAGTAAACTATTTCC
127 CCATAGTTTCTTACTTAGTAAACTATTTCC
937892 CACATCTGTA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
162 36 0.25
163 46 0.32
164 3 0.02
165 57 0.40
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (163 bp):
TTATCTGGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
TTTCCATAGTTTCTCATTCAATCTTTTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTCCAT
AGTTTCTTACTTAGTAAACTATTTCCAACAACC
Found at i:938020 original size:76 final size:76
Alignment explanation
Indices: 937894--938384 Score: 876
Period size: 76 Copynumber: 6.5 Consensus size: 76
937884 CTATTTCCCA
*
937894 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
937959 ATCCTTCGGGT
66 AGCCTTCGGGT
*
937970 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
938035 ATCCTTCGGGT
66 AGCCTTCGGGT
* *
938046 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
938111 ATCCTTCGGGT
66 AGCCTTCGGGT
*
938122 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
938187 AGCCTTCGGGT
66 AGCCTTCGGGT
*
938198 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
938263 AGCCTTCGGGT
66 AGCCTTCGGGT
938274 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
938339 AGCC-TCAGGGT
66 AGCCTTC-GGGT
*
938350 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
938385 CATTTCCATC
Statistics
Matches: 407, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
75 2 0.00
76 405 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:938518 original size:3 final size:3
Alignment explanation
Indices: 938512--938576 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
938502 TCATTTAAAT
** * *
938512 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
938560 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
938577 AATATTACAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:944619 original size:19 final size:18
Alignment explanation
Indices: 944567--944795 Score: 122
Period size: 19 Copynumber: 11.9 Consensus size: 18
944557 CATAACAGGC
944567 TTGC-ACCTAAAAATCTGG
1 TTGCAACCT-AAAATCTGG
*
944585 TTTCCAACCTTAAAATCTGTG
1 -TTGCAACC-TAAAATCTG-G
*
944606 TTGCAACCTAAAATTTGG
1 TTGCAACCTAAAATCTGG
* * *
944624 CATCCAACCTTAAAT-TAGG
1 -TTGCAACCTAAAATCT-GG
*
944643 ATTCCAACCTAAAAATCTTGG
1 -TTGCAACCT-AAAATC-TGG
*
944664 TTGCAACCTAAAACCTGG
1 TTGCAACCTAAAATCTGG
* *
944682 CTTCCAACCTAAAATCATGA
1 -TTGCAACCTAAAATC-TGG
*
944702 TTGCAACCTAAAAATCGGGG
1 TTGCAACCT-AAAATC-TGG
* * *
944722 TTGCAACTTAAAATTTAGC
1 TTGCAACCTAAAATCT-GG
*
944741 TT-CTAACCTAAAATCTAGA
1 TTGC-AACCTAAAATCT-GG
* *
944760 TTACAACCTAAAAATCTTAG
1 TTGCAACCT-AAAATC-TGG
*
944780 TCGCAACCTAAAATCT
1 TTGCAACCTAAAATCT
944796 AGTTCCTCAC
Statistics
Matches: 165, Mismatches: 29, Indels: 33
0.73 0.13 0.15
Matches are distributed among these distances:
18 7 0.04
19 91 0.55
20 61 0.37
21 5 0.03
22 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
TTGCAACCTAAAATCTGG
Found at i:944658 original size:58 final size:57
Alignment explanation
Indices: 944586--944793 Score: 229
Period size: 58 Copynumber: 3.6 Consensus size: 57
944576 AAAATCTGGT
* * *
944586 TTCCAACCTTAAAATCTGT-GTTGCAACCTAAAATTTGGCATCCAACCTTAAATTAGGA
1 TTCCAACCTAAAAATCT-TAGTTGCAACCTAAAATTTGGCTTCCAACCTAAAATTA-GA
* ** *
944644 TTCCAACCTAAAAATCTTGGTTGCAACCTAAAACCTGGCTTCCAACCTAAAATCATGA
1 TTCCAACCTAAAAATCTTAGTTGCAACCTAAAATTTGGCTTCCAACCTAAAATTA-GA
* *** * * *
944702 TTGCAACCTAAAAATCGGGGTTGCAACTTAAAATTTAGCTTCTAACCTAAAATCTAGA
1 TTCCAACCTAAAAATCTTAGTTGCAACCTAAAATTTGGCTTCCAACCTAAAAT-TAGA
* *
944760 TTACAACCTAAAAATCTTAGTCGCAACCTAAAAT
1 TTCCAACCTAAAAATCTTAGTTGCAACCTAAAAT
944794 CTAGTTCCTC
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 1 0.01
58 124 0.98
59 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (57 bp):
TTCCAACCTAAAAATCTTAGTTGCAACCTAAAATTTGGCTTCCAACCTAAAATTAGA
Found at i:947146 original size:54 final size:54
Alignment explanation
Indices: 947062--947182 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
947052 TACCCATAAG
** **
947062 GGGGTATCAATACCCATTGGGCATTCTGTTTTTCTTGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCATTGGGCATTCTGTTTTTCAAGGAGCCAAAATTGGCATA
* *
947116 GGGGTATCGGTACCCATTTGGCATTTTGTTTTTCAAGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCATTGGGCATTCTGTTTTTCAAGGAGCCAAAATTGGCATA
947170 GGGGTATCGGTAC
1 GGGGTATCGGTAC
947183 ACCCTGTGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (54 bp):
GGGGTATCGGTACCCATTGGGCATTCTGTTTTTCAAGGAGCCAAAATTGGCATA
Found at i:954000 original size:3 final size:3
Alignment explanation
Indices: 953970--954020 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
953960 TTGGGTTTTG
* *
953970 TAA TAT TAA TAAA TAA TATA TATT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
954018 TAA
1 TAA
954021 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 33 0.79
4 9 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:957597 original size:54 final size:54
Alignment explanation
Indices: 957516--957636 Score: 199
Period size: 54 Copynumber: 2.2 Consensus size: 54
957506 TAACTCTAAG
957516 GGGGTATCGGTACCCATTGTACATTCTGTTTTTCTCGGAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCATTGTACATTCTGTTTTTCTCGGAGCCAAAATTGGCATA
* * *
957570 GGGGTATCGGTACCCATT-TGGCTTTCTGTTTTTCTCGGAGCCAAAATTTGCATA
1 GGGGTATCGGTACCCATTGT-ACATTCTGTTTTTCTCGGAGCCAAAATTGGCATA
957624 GGGGTATCGGTAC
1 GGGGTATCGGTAC
957637 ACCCTATGCG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
53 1 0.02
54 62 0.98
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (54 bp):
GGGGTATCGGTACCCATTGTACATTCTGTTTTTCTCGGAGCCAAAATTGGCATA
Found at i:960157 original size:407 final size:407
Alignment explanation
Indices: 959402--960215 Score: 1619
Period size: 407 Copynumber: 2.0 Consensus size: 407
959392 TCATTATTGG
959402 GAATATAAATTCTCTCTCAGTAGTATAAACACCCATTTAACTTGATTTCGAAATCTTTGGCATCC
1 GAATATAAATTCTCTCTCAGTAGTATAAACACCCATTTAACTTGATTTCGAAATCTTTGGCATCC
959467 CTGCTTCCAACTTGCATTCTCTTCATCACGTACCTTTCATTTGTTAATTGGAGCTCTATATTCCT
66 CTGCTTCCAACTTGCATTCTCTTCATCACGTACCTTTCATTTGTTAATTGGAGCTCTATATTCCT
959532 ATCTACTAAGGTATGATTCACTTGTAATTTGGTTAACTAAGCACCATTTCTCTCTATAAAAGTAG
131 ATCTACTAAGGTATGATTCACTTGTAATTTGGTTAACTAAGCACCATTTCTCTCTATAAAAGTAG
959597 CAACGCTAAATCTTGAGTGCAAACACTACTTCTATGAATTCAAGATCGTGAGTTCGATAATTTCT
196 CAACGCTAAATCTTGAGTGCAAACACTACTTCTATGAATTCAAGATCGTGAGTTCGATAATTTCT
959662 CTCATGAGTCTTGAGTTATCGAGATGCATAAGCTACAACTTTGCCTTCTTTCATCAACACATACC
261 CTCATGAGTCTTGAGTTATCGAGATGCATAAGCTACAACTTTGCCTTCTTTCATCAACACATACC
959727 CCAATCCATTTAACGAAGCATCGATAAACAAGGTAAAGGCCTTTCTCCATTATAGTTGTACTGAT
326 CCAATCCATTTAACGAAGCATCGATAAACAAGGTAAAGGCCTTTCTCCATTATAGTTGTACTGAT
959792 ATCGGTGCTTCAGTTAA
391 ATCGGTGCTTCAGTTAA
959809 GAATATAAATTCTCTCTCAGTAGTATAAACACCCATTTAACTTGATTTCGAAATCTTTGGCATCC
1 GAATATAAATTCTCTCTCAGTAGTATAAACACCCATTTAACTTGATTTCGAAATCTTTGGCATCC
959874 CTGCTTCCAACTTGCATTCTCTTCATCACGTACCTTTCATTTGTTAATTGGAGCTCTATATTCCT
66 CTGCTTCCAACTTGCATTCTCTTCATCACGTACCTTTCATTTGTTAATTGGAGCTCTATATTCCT
959939 ATCTACTAAGGTATGATTCACTTGTAATTTGGTTAACTAAGCACCATTTCTCTCTATAAAAGTAG
131 ATCTACTAAGGTATGATTCACTTGTAATTTGGTTAACTAAGCACCATTTCTCTCTATAAAAGTAG
960004 CAACGCTAAATCTTGAGTGCAAACACTACTTCTATGAATTCAAGATCGTGAGTTCGATAATTTCT
196 CAACGCTAAATCTTGAGTGCAAACACTACTTCTATGAATTCAAGATCGTGAGTTCGATAATTTCT
*
960069 CTCGTGAGTCTTGAGTTATCGAGATGCATAAGCTACAACTTTGCCTTCTTTCATCAACACATACC
261 CTCATGAGTCTTGAGTTATCGAGATGCATAAGCTACAACTTTGCCTTCTTTCATCAACACATACC
960134 CCAATCCATTTAACGAAGCATCGATAAACAAGGTAAAGGCCTTTCTCCATTATAGTTGTACTGAT
326 CCAATCCATTTAACGAAGCATCGATAAACAAGGTAAAGGCCTTTCTCCATTATAGTTGTACTGAT
960199 ATCGGTGCTTCAGTTAA
391 ATCGGTGCTTCAGTTAA
960216 AATTATTTTT
Statistics
Matches: 406, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
407 406 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (407 bp):
GAATATAAATTCTCTCTCAGTAGTATAAACACCCATTTAACTTGATTTCGAAATCTTTGGCATCC
CTGCTTCCAACTTGCATTCTCTTCATCACGTACCTTTCATTTGTTAATTGGAGCTCTATATTCCT
ATCTACTAAGGTATGATTCACTTGTAATTTGGTTAACTAAGCACCATTTCTCTCTATAAAAGTAG
CAACGCTAAATCTTGAGTGCAAACACTACTTCTATGAATTCAAGATCGTGAGTTCGATAATTTCT
CTCATGAGTCTTGAGTTATCGAGATGCATAAGCTACAACTTTGCCTTCTTTCATCAACACATACC
CCAATCCATTTAACGAAGCATCGATAAACAAGGTAAAGGCCTTTCTCCATTATAGTTGTACTGAT
ATCGGTGCTTCAGTTAA
Found at i:961198 original size:11 final size:11
Alignment explanation
Indices: 961184--961225 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
961174 TTATCCATAT
961184 TTTTATTATTA
1 TTTTATTATTA
961195 TTTTATTA--A
1 TTTTATTATTA
*
961204 TTTTATTACTA
1 TTTTATTATTA
*
961215 CTTTATTATTA
1 TTTTATTATTA
961226 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.33
11 18 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:961209 original size:20 final size:20
Alignment explanation
Indices: 961184--961222 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
961174 TTATCCATAT
* *
961184 TTTTATTATTATTTTATTAA
1 TTTTATTACTACTTTATTAA
961204 TTTTATTACTACTTTATTA
1 TTTTATTACTACTTTATTA
961223 TTAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATTACTACTTTATTAA
Found at i:962484 original size:2 final size:2
Alignment explanation
Indices: 962477--962502 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
962467 CATGATTCTT
962477 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
962503 CAATAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:962966 original size:144 final size:144
Alignment explanation
Indices: 962706--963003 Score: 562
Period size: 144 Copynumber: 2.1 Consensus size: 144
962696 TTTATTCGTT
962706 ATGTTATATTTGATATTTCATCCATTTTTATATATGTCATTTATTATTGTTGCATTCATAAATCA
1 ATGTTATATTTGATATTTCATCCATTTTTATATATGTCATTTATTATTGTTGCATTCATAAATCA
962771 TGCATTTATCTTCATTTTTTATTCAAAAGCAATGTCATCTCGCATCGTGGGTTAATGAAATTACA
66 TGCATTTATCTTCATTTTTTATTCAAAAGCAATGTCATCTCGCATCGTGGGTTAATGAAATTACA
*
962836 TCCAACATGACTGA
131 TCCAAAATGACTGA
962850 ATGTTATATTTGATATTTCATCCATTTTTATATATGTCATTTATTATTGTTGCATTCATAAATCA
1 ATGTTATATTTGATATTTCATCCATTTTTATATATGTCATTTATTATTGTTGCATTCATAAATCA
*
962915 TGCATTTATCTTCATTTTTTATTCAAAAGCAATGTCATCTCGCGTCGTGGGTTAATGAAATTACA
66 TGCATTTATCTTCATTTTTTATTCAAAAGCAATGTCATCTCGCATCGTGGGTTAATGAAATTACA
962980 TCCAAAATGACTGA
131 TCCAAAATGACTGA
*
962994 ATTTTA-ATTT
1 ATGTTATATTT
963004 TTGTTAATTC
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
143 4 0.03
144 147 0.97
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (144 bp):
ATGTTATATTTGATATTTCATCCATTTTTATATATGTCATTTATTATTGTTGCATTCATAAATCA
TGCATTTATCTTCATTTTTTATTCAAAAGCAATGTCATCTCGCATCGTGGGTTAATGAAATTACA
TCCAAAATGACTGA
Found at i:968061 original size:24 final size:24
Alignment explanation
Indices: 968034--968080 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
968024 TTCTTTCATT
*
968034 AATTTTTTCATAAAACATTTTCAA
1 AATTTATTCATAAAACATTTTCAA
* *
968058 AATTTATTCATCAAACTTTTTCA
1 AATTTATTCATAAAACATTTTCA
968081 CCTTTTTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTTATTCATAAAACATTTTCAA
Found at i:969268 original size:133 final size:133
Alignment explanation
Indices: 969021--969268 Score: 336
Period size: 133 Copynumber: 1.9 Consensus size: 133
969011 ATTCCCAAAA
* ** *
969021 TCAAGTTAACTCCAAACAATCAGATTTCCTCAAAGCGAAGGAACAATGTTATCTTCAAATACAAC
1 TCAAGTTAACTCCAAACAATCAGACTTCCTCAAAGAAAAAGAACAATGTTATCTTCAAATACAAC
* * * *
969086 TAGATGTCCTTAACACGAAGGAATAATGTCGTCCATTGAGCAGATCTCCTAATCACGTAAGGGTA
66 TAGATGTCCTCAACACGAAAGAATAATGTCGTCCACTGAGCAGACCTCCTAATCACGTAAGGGTA
969151 GTG
131 GTG
* * * *
969154 TCAAGTTAACTCCAGACAATCAGACTTCCTCAACGAAAAAGAACAATGTTTTCTAT-AAATACGA
1 TCAAGTTAACTCCAAACAATCAGACTTCCTCAAAGAAAAAGAACAATGTTATCT-TCAAATACAA
* * **
969218 CTAGATGTCCTCAACATGAAAGAATAATGTCTTCCACTGATTAGACCTCCT
65 CTAGATGTCCTCAACACGAAAGAATAATGTCGTCCACTGAGCAGACCTCCT
969269 CAACGTGAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 97 0.99
134 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (133 bp):
TCAAGTTAACTCCAAACAATCAGACTTCCTCAAAGAAAAAGAACAATGTTATCTTCAAATACAAC
TAGATGTCCTCAACACGAAAGAATAATGTCGTCCACTGAGCAGACCTCCTAATCACGTAAGGGTA
GTG
Found at i:969725 original size:229 final size:227
Alignment explanation
Indices: 969210--969749 Score: 572
Period size: 229 Copynumber: 2.4 Consensus size: 227
969200 TGTTTTCTAT
* * * * *
969210 AAATACGACTAGATGTCCTCAACATGAA-A-GAATAATGTCTTCCACTGATTAGACCTCCTCAAC
1 AAATACGACTAGACGTCCTCAACA--AATAGGAACAATGTCATCCACTGACTAAACCTCCTCAA-
* * *
969273 GTGAATGAGCAA-GTCATTATCAGATTTGACATCAAGCAAATCACCAAAGTGACCAGATTTCCTC
63 GAGAATGAGCAATGTCATCATCAGATTTGACATCAAGCAAATCACCAAAGTGACCAGATCTCCTC
* * * * * * * * *
969337 ATCATGTAAGAACCATGTCGTTTCTAGAATTAAATTTTCTTCAGGAAATCAGACTTCCTCAACGC
128 ATCACGTAAGAACCATATCATTTCCAAAATCAAATTGTCTCCAGGAAATCAGACTTCCTCAACGA
969402 AAAGGAACAATGTTGTCTTCAGACGTACAATCACCC
193 AAAGGAACAATGTTGTCTTCAGACGTA-AATCACCC
* * ** *
969438 AAATACAACTAGACATCCTC-A-AAATGAAGGAACGGTGTCATCCAATGACTAAACCTCCTCAAT
1 AAATACGACTAGACGTCCTCAACAAAT--AGGAACAATGTCATCCACTGACTAAACCTCCTCAA-
*
969501 GAGAATGAGCAATGTCATCATCAGATTTGACATCGAGCAAATCACTCAGAAGTGACCAGATCTCC
63 GAGAATGAGCAATGTCATCATCAGATTTGACATCAAGCAAATCAC-CA-AAGTGACCAGATCTCC
* ** * * *
969566 TCATCACGTATGAGTCATATCATTTCCAAAATCAAATTGTCTCCGGGCAATCAGATTTCCTCAAC
126 TCATCACGTAAGAACCATATCATTTCCAAAATCAAATTGTCTCCAGGAAATCAGACTTCCTCAAC
* * * ***
969631 -AAGAAGGAATAATGTTGTCTTCATACGT-AGTCTTTC
191 GAA-AAGGAACAATGTTGTCTTCAGACGTAAATCACCC
* * * *
969667 AAATACGACTAGACGTCCTCAACAAATAGGAACAATGTCGTACACTGACTATACCTCCTCAACAT
1 AAATACGACTAGACGTCCTCAACAAATAGGAACAATGTCATCCACTGACTAAACCTCCTCAAGA-
*
969732 GAAGGAGCAATGTCATCA
65 GAATGAGCAATGTCATCA
969750 GAAGTGACTA
Statistics
Matches: 255, Mismatches: 46, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
224 2 0.01
226 1 0.00
227 2 0.01
228 55 0.22
229 98 0.38
230 4 0.02
231 93 0.36
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (227 bp):
AAATACGACTAGACGTCCTCAACAAATAGGAACAATGTCATCCACTGACTAAACCTCCTCAAGAG
AATGAGCAATGTCATCATCAGATTTGACATCAAGCAAATCACCAAAGTGACCAGATCTCCTCATC
ACGTAAGAACCATATCATTTCCAAAATCAAATTGTCTCCAGGAAATCAGACTTCCTCAACGAAAA
GGAACAATGTTGTCTTCAGACGTAAATCACCC
Found at i:969917 original size:202 final size:200
Alignment explanation
Indices: 969546--969939 Score: 520
Period size: 202 Copynumber: 2.0 Consensus size: 200
969536 AGCAAATCAC
* * * *
969546 TCAGAAGTGACCAGATCTCCTCATCACGTATGAGTCATATCATTTCCAAAATCAAATTGTCTCCG
1 TCAGAAGTGACCAGATCTCCTCATCACATAGGAGTCATATCATTTCCAAAATCAAATTATCTCCA
* * *
969611 GGCAATCAGATTTCCTCAACAAGAAGGAATAATGTTGTCTTCATACGTAGTCTTTCAAATACGAC
66 GGCAATCAAATTTCCTCAACAAGAAGGAACAATGTTGTCTTAATACG-AGTCTTTCAAATACGAC
* * * *
969676 TAGACGTCCTCAACAAATAGGAACAATGTCGTACACTGACTATACCTCCTCAACATGAAGGAGCA
130 TAGACGTCCTCAACAAATAGGAACAATATCATACACTGACTAAACCTCCTCAACACGAAGGAGCA
969741 ATGTCA
195 ATGTCA
* ** * * *
969747 TCAGAAGTGACTAGATTCTCCTCATCACATAGGAGTTGTGTCATTTCCAAAATCAAGTTATCTTC
1 TCAGAAGTGACCAGA-TCTCCTCATCACATAGGAGTCATATCATTTCCAAAATCAAATTATCTCC
* *
969812 AGGCAATCAAATTTCCTCAATAAGAAGGAACATTGTTGTCTTTAAATAC-AGTCTTTCAAATACG
65 AGGCAATCAAATTTCCTCAACAAGAAGGAACAATGTTGTC-TT-AATACGAGTCTTTCAAATACG
* * * * * *
969876 AGTAGATGTCCTCATCAAGTAGGAACAATATCATCCACTGACTAAACTTCCTCAACACGAAGGA
128 ACTAGACGTCCTCAACAAATAGGAACAATATCATACACTGACTAAACCTCCTCAACACGAAGGA
969940 ACATATAACT
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
201 14 0.08
202 145 0.88
203 2 0.01
204 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (200 bp):
TCAGAAGTGACCAGATCTCCTCATCACATAGGAGTCATATCATTTCCAAAATCAAATTATCTCCA
GGCAATCAAATTTCCTCAACAAGAAGGAACAATGTTGTCTTAATACGAGTCTTTCAAATACGACT
AGACGTCCTCAACAAATAGGAACAATATCATACACTGACTAAACCTCCTCAACACGAAGGAGCAA
TGTCA
Found at i:972302 original size:16 final size:17
Alignment explanation
Indices: 972277--972310 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
972267 TGTTTCATTT
972277 TTTTAATCATT-TGTTA
1 TTTTAATCATTATGTTA
*
972293 TTTTATTCATTATGTTA
1 TTTTAATCATTATGTTA
972310 T
1 T
972311 ATTTGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTAATCATTATGTTA
Found at i:974923 original size:19 final size:19
Alignment explanation
Indices: 974901--975065 Score: 86
Period size: 19 Copynumber: 8.5 Consensus size: 19
974891 CTTGGGTTGT
* *
974901 AACCTAAAATTTGGCTTCC
1 AACCTAAAATTTGGATTAC
* * * *
974920 AACCTTAAGTCTAGATT-C
1 AACCTAAAATTTGGATTAC
* * *
974938 TAACCTAAAAATCTGGGTTGC
1 -AACCT-AAAATTTGGATTAC
**
974959 AACCTAAAATCAGGATTAC
1 AACCTAAAATTTGGATTAC
* *
974978 AACCTAAAAATATGGGTTAC
1 AACCT-AAAATTTGGATTAC
* * *
974998 AACATAAAAATT--ATCTTC
1 AACCTAAAATTTGGAT-TAC
975016 TAACCTAAAATTTGGATTAC
1 -AACCTAAAATTTGGATTAC
*
975036 AACCTAAAAGTTTGTG-TTTC
1 AACCTAAAA-TTTG-GATTAC
975056 AACCTAAAAT
1 AACCTAAAAT
975066 CTAGTTCCTC
Statistics
Matches: 112, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.01
18 3 0.03
19 58 0.52
20 46 0.41
21 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (19 bp):
AACCTAAAATTTGGATTAC
Found at i:974949 original size:39 final size:40
Alignment explanation
Indices: 974900--975006 Score: 96
Period size: 39 Copynumber: 2.8 Consensus size: 40
974890 ACTTGGGTTG
* * *
974900 TAACCT-AAAATTTGGCTTCCAACCTTAAGTCTA-GATT-C
1 TAACCTAAAAATCTGGCTTCCAACCTAAAATC-AGGATTAC
* *
974938 TAACCTAAAAATCTGGGTTGCAACCTAAAATCAGGATTAC
1 TAACCTAAAAATCTGGCTTCCAACCTAAAATCAGGATTAC
* * * *
974978 -AACCTAAAAATATGGGTTACAACATAAAA
1 TAACCTAAAAATCTGGCTTCCAACCTAAAA
975007 ATTATCTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 7 0.12
39 50 0.86
40 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (40 bp):
TAACCTAAAAATCTGGCTTCCAACCTAAAATCAGGATTAC
Found at i:974964 original size:20 final size:20
Alignment explanation
Indices: 974939--975064 Score: 89
Period size: 20 Copynumber: 6.5 Consensus size: 20
974929 TCTAGATTCT
*
974939 AACCTAAAAATCTGGGTTGC
1 AACCTAAAAATCTGGGTTAC
* *
974959 AACCT-AAAATCAGGATTAC
1 AACCTAAAAATCTGGGTTAC
*
974978 AACCTAAAAATATGGGTTAC
1 AACCTAAAAATCTGGGTTAC
* ***
974998 AACATAAAAAT-TATCTT-C
1 AACCTAAAAATCTGGGTTAC
* *
975016 TAACCT-AAAATTTGGATTAC
1 -AACCTAAAAATCTGGGTTAC
* * * *
975036 AACCTAAAAGTTTGTGTTTC
1 AACCTAAAAATCTGGGTTAC
975056 AACCTAAAA
1 AACCTAAAA
975065 TCTAGTTCCT
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
18 6 0.07
19 31 0.37
20 46 0.55
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (20 bp):
AACCTAAAAATCTGGGTTAC
Found at i:974981 original size:58 final size:58
Alignment explanation
Indices: 974871--974982 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
974861 CAGCCAAAAT
* * ** * *
974871 TCTAGTTTCTAACCTAAAAACTTGGGTTGTAACCTAAAATTTGGCTTCCAACCTTAAG
1 TCTAGATTCTAACCTAAAAACTTGGGTTGCAACCTAAAATCAGGATTACAACCTTAAG
974929 TCTAGATTCTAACCTAAAAA-TCTGGGTTGCAACCTAAAATCAGGATTACAACCT
1 TCTAGATTCTAACCTAAAAACT-TGGGTTGCAACCTAAAATCAGGATTACAACCT
974983 AAAAATATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 46 0.98
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (58 bp):
TCTAGATTCTAACCTAAAAACTTGGGTTGCAACCTAAAATCAGGATTACAACCTTAAG
Found at i:975021 original size:39 final size:39
Alignment explanation
Indices: 974935--975044 Score: 109
Period size: 39 Copynumber: 2.8 Consensus size: 39
974925 TAAGTCTAGA
* *
974935 TTCTAACCTAAAAATCTGGGTTGCAACCTAAAATCAGGAT
1 TTCTAACCTAAAAATATGGGTTACAACCTAAAA-CAGGAT
* * **
974975 TAC-AACCTAAAAATATGGGTTACAACATAAAA-ATTAT
1 TTCTAACCTAAAAATATGGGTTACAACCTAAAACAGGAT
* *
975012 CTTCTAACCT-AAAATTTGGATTACAACCTAAAA
1 -TTCTAACCTAAAAATATGGGTTACAACCTAAAA
975045 GTTTGTGTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
37 3 0.05
38 22 0.38
39 31 0.53
40 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (39 bp):
TTCTAACCTAAAAATATGGGTTACAACCTAAAACAGGAT
Found at i:979675 original size:13 final size:13
Alignment explanation
Indices: 979657--979681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
979647 TGATTCTTTG
979657 TTTAAATATTTTA
1 TTTAAATATTTTA
979670 TTTAAATATTTT
1 TTTAAATATTTT
979682 TCAGTTCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATATTTTA
Found at i:981316 original size:31 final size:31
Alignment explanation
Indices: 981265--981350 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
981255 TGGTTTTGAA
* *
981265 AAAAATAAAAGTTTAGGTACTAAAACGAACC
1 AAAACTAATAGTTTAGGTACTAAAACGAACC
* * *
981296 AAAACTGATAGTTTATGTACTAAAACGAATC
1 AAAACTAATAGTTTAGGTACTAAAACGAACC
*
981327 AAAAGTAATAGTTTAGGTACTAAA
1 AAAACTAATAGTTTAGGTACTAAA
981351 TATATAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (31 bp):
AAAACTAATAGTTTAGGTACTAAAACGAACC
Found at i:981897 original size:15 final size:16
Alignment explanation
Indices: 981872--981908 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
981862 AGCTCGACTC
*
981872 GAAAGTTTTTAAGTTT
1 GAAAATTTTTAAGTTT
981888 -AAAATTTTTAAGTTT
1 GAAAATTTTTAAGTTT
981903 GAAAAT
1 GAAAAT
981909 AAAAATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (16 bp):
GAAAATTTTTAAGTTT
Found at i:983693 original size:22 final size:23
Alignment explanation
Indices: 983647--983703 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
983637 ACAAGCAAAT
983647 ACAAACATATATTTTTTTTAAAA-
1 ACAAACATA-ATTTTTTTTAAAAC
983670 ACGTAAACATAATTTTTTTT-AAAC
1 AC--AAACATAATTTTTTTTAAAAC
983694 ACAAACATAA
1 ACAAACATAA
983704 CTCATATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.26
23 5 0.16
24 11 0.35
25 7 0.23
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (23 bp):
ACAAACATAATTTTTTTTAAAAC
Found at i:985088 original size:3 final size:3
Alignment explanation
Indices: 985080--985109 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
985070 ATTTCATTTA
*
985080 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
985110 GCTATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:986526 original size:16 final size:17
Alignment explanation
Indices: 986471--986546 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 17
986461 GCTGATACGA
986471 TAATAATTTTAAATTCTATT
1 TAAT-ATTTT-AATT-TATT
*
986491 TTA-ATTTTAA-TTATTAT
1 TAATATTTTAATTTA-T-T
986508 TAATATTTT-ATTTATT
1 TAATATTTTAATTTATT
*
986524 TAAT-TTTTAATTTGTT
1 TAATATTTTAATTTATT
*
986540 TAGTATT
1 TAATATT
986547 AGTTTATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
15 6 0.13
16 16 0.35
17 9 0.20
18 13 0.28
20 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
TAATATTTTAATTTATT
Found at i:991126 original size:59 final size:59
Alignment explanation
Indices: 991031--991144 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
991021 CTCCACGATG
* * * * * * *
991031 TCGACATTTAGGTCGAACAAGCTGATAGTTGCATGCCTTCCCTTGAACTTGAAGGTATC
1 TCGACATTGAGATCGAACAAGCTCACAGTTGAATGCCTCCCCTGGAACTTGAAGGTATC
* *
991090 TCGACATTGAGATCGAAGAAGCTCACAGTTGAATGCCTCCCCTGGAGCTTGAAGG
1 TCGACATTGAGATCGAACAAGCTCACAGTTGAATGCCTCCCCTGGAACTTGAAGG
991145 CATCATGTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (59 bp):
TCGACATTGAGATCGAACAAGCTCACAGTTGAATGCCTCCCCTGGAACTTGAAGGTATC
Found at i:992080 original size:18 final size:21
Alignment explanation
Indices: 992042--992081 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
992032 TTTTCTTCAA
992042 ATAATCATATATAAAATAAAT
1 ATAATCATATATAAAATAAAT
992063 ATAAT-ATA-ATAAAA-AAAT
1 ATAATCATATATAAAATAAAT
992081 A
1 A
992082 ATTTTACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 3 0.16
21 5 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATCATATATAAAATAAAT
Found at i:995650 original size:22 final size:21
Alignment explanation
Indices: 995625--995683 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
995615 CTCACTTCAA
995625 TTTTGCCACAACATTCTTTACT
1 TTTTGCCACAACATTCTTTA-T
***
995647 TTTTGCTTTAACATTCTTTAT
1 TTTTGCCACAACATTCTTTAT
*
995668 TGTTTGTCACAACATT
1 T-TTTGCCACAACATT
995684 TCACCTCATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTGCCACAACATTCTTTAT
Found at i:996049 original size:18 final size:17
Alignment explanation
Indices: 996022--996073 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
996012 TATTTTTTAG
996022 AAAAAA-ATAATATAAA
1 AAAAAATATAATATAAA
*
996038 AATAAAATATAAAAT-AA
1 AA-AAAATATAATATAAA
996055 AAAAAAT-TAATATAAA
1 AAAAAATATAATATAAA
996071 AAA
1 AAA
996074 TTACAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 8 0.26
18 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATATAATATAAA
Found at i:996069 original size:15 final size:15
Alignment explanation
Indices: 996022--996073 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
996012 TATTTTTTAG
996022 AAAAAAA-TAATATAA
1 AAAAAAATTAATAT-A
*
996037 AAATAAAATATAAAATA
1 AAA-AAAAT-TAATATA
996054 AAAAAAATTAATATA
1 AAAAAAATTAATATA
996069 AAAAA
1 AAAAA
996074 TTACAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 14 0.44
16 9 0.28
17 4 0.12
18 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATTAATATA
Found at i:996072 original size:28 final size:27
Alignment explanation
Indices: 996022--996103 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
996012 TATTTTTTAG
* *
996022 AAAAAAATAATATAAAAATAAAATATA-A
1 AAAAAAAAAAT-TAAATA-AAAATATACA
996050 AATAAAAAAAATTAATATAAAAA-ATTACA
1 AA-AAAAAAAATTAA-ATAAAAATA-TACA
*
996079 AAAATAAAAATTAAATAAAAATATA
1 AAAAAAAAAATTAAATAAAAATATA
996104 TTAAAATTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 10 0.22
28 23 0.50
29 13 0.28
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (27 bp):
AAAAAAAAAATTAAATAAAAATATACA
Found at i:996083 original size:31 final size:32
Alignment explanation
Indices: 996022--996088 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
996012 TATTTTTTAG
*
996022 AAAAAAATAATATAAAAATAAAATATAAAATA
1 AAAAAAATAATATAAAAATAAAACATAAAATA
**
996054 AAAAAAATTAATATAAAAA-ATTACA-AAAATA
1 AAAAAAA-TAATATAAAAATAAAACATAAAATA
996085 AAAA
1 AAAA
996089 TTAAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 10 0.32
33 11 0.35
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (32 bp):
AAAAAAATAATATAAAAATAAAACATAAAATA
Found at i:997228 original size:27 final size:27
Alignment explanation
Indices: 997197--997251 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
997187 TTTTAGATCA
*
997197 AAATCCTAAATTCCCAAATTAT-ATCTC
1 AAATCCTAAACT-CCAAATTATAATCTC
*
997224 AAATCCTATACTCCAAATTATAATCTC
1 AAATCCTAAACTCCAAATTATAATCTC
997251 A
1 A
997252 CCCACCCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATCCTAAACTCCAAATTATAATCTC
Found at i:997382 original size:3 final size:3
Alignment explanation
Indices: 997374--997489 Score: 189
Period size: 3 Copynumber: 39.0 Consensus size: 3
997364 TATCATGAGG
*
997374 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
997422 GAG GAA GAA GAA GAA GAG GAA GAA GAA GAA GAA AAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
997469 GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA
997490 AATGTTATTG
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 102 0.98
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:997388 original size:30 final size:31
Alignment explanation
Indices: 997330--997389 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
997320 GAGTTGATGT
*
997330 TGTTTTCATGAGAGGAGAGAAGAGAAGAAGG
1 TGTTATCATGAGAGGAGAGAAGAGAAGAAGG
997361 TGTTATCATGAG-GGA-AGAAGAAGAAGAAG
1 TGTTATCATGAGAGGAGAGAAG-AGAAGAAG
997390 AAGAAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 11 0.41
31 11 0.41
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (31 bp):
TGTTATCATGAGAGGAGAGAAGAGAAGAAGG
Found at i:999299 original size:29 final size:29
Alignment explanation
Indices: 999161--999300 Score: 95
Period size: 29 Copynumber: 4.9 Consensus size: 29
999151 CATGACATGA
* * * *
999161 ATATAATCCCATACAGAAACATGATGGGG
1 ATATAATCCCATACAAAAATAGGACGGGG
* ** *
999190 -TATAATCCTACGCAAAAATAGGACGAGG
1 ATATAATCCCATACAAAAATAGGACGGGG
* * *
999218 ATATAAAT-CAATACAAAAATAGAACAGGG
1 ATAT-AATCCCATACAAAAATAGGACGGGG
* ** ** *
999247 ATATAATCTCATGTAAAAGCAGGATGGGG
1 ATATAATCCCATACAAAAATAGGACGGGG
*
999276 ATATAATCCCATACAGAAATAGGAC
1 ATATAATCCCATACAAAAATAGGAC
999301 AGAGATAAAA
Statistics
Matches: 78, Mismatches: 30, Indels: 6
0.68 0.26 0.05
Matches are distributed among these distances:
28 23 0.29
29 52 0.67
30 3 0.04
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (29 bp):
ATATAATCCCATACAAAAATAGGACGGGG
Found at i:1001156 original size:13 final size:14
Alignment explanation
Indices: 1001133--1001162 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1001123 TTCCCATTAC
1001133 AGACGTGCATATGA
1 AGACGTGCATATGA
1001147 AGAC-TGCATATGA
1 AGACGTGCATATGA
1001160 AGA
1 AGA
1001163 TTGTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:1002925 original size:23 final size:23
Alignment explanation
Indices: 1002895--1002938 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1002885 AACATATAGT
1002895 GTTGATAATTTATATCATCACGG
1 GTTGATAATTTATATCATCACGG
1002918 GTTGATAATTTATATCATCAC
1 GTTGATAATTTATATCATCAC
1002939 AGATAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (23 bp):
GTTGATAATTTATATCATCACGG
Found at i:1005150 original size:15 final size:14
Alignment explanation
Indices: 1005127--1005157 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1005117 AGAAGAATTT
1005127 TTTTTAAAAATAAA
1 TTTTTAAAAATAAA
1005141 TTTTTAAAAATAAA
1 TTTTTAAAAATAAA
1005155 TTT
1 TTT
1005158 AAATTAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTTAAAAATAAA
Found at i:1008149 original size:14 final size:14
Alignment explanation
Indices: 1008114--1008142 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1008104 TATGTAACAT
1008114 TAATAATAATATAA
1 TAATAATAATATAA
1008128 TAATAATAATATAA
1 TAATAATAATATAA
1008142 T
1 T
1008143 TTTAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:1008527 original size:55 final size:54
Alignment explanation
Indices: 1008445--1008638 Score: 268
Period size: 55 Copynumber: 3.6 Consensus size: 54
1008435 CCCTCTTTTT
* *
1008445 TTCAGGGAGTAT-AGAACTCAAAC-ATCTTCAACACTCGTGTCTGTTCCCTATTCC
1 TTCAGAGAGTATAAG-ACTCGAACAATCTTCAACA-TCGTGTCTGTTCCCTATTCC
*
1008499 TTCAGAGAGTATAAGACTTGAACAATCTTCAACAATCGTGTCT-TCTCCCTATTCC
1 TTCAGAGAGTATAAGACTCGAACAATCTTCAAC-ATCGTGTCTGT-TCCCTATTCC
* * *
1008554 TTTAGAGAGTATAAGACTCGAACAATCTTCAACTATCATGTCTGCTCCCTATTCC
1 TTCAGAGAGTATAAGACTCGAACAATCTTCAAC-ATCGTGTCTGTTCCCTATTCC
1008609 TTCAGAGAGTATAAGACTCGAACAATCTTC
1 TTCAGAGAGTATAAGACTCGAACAATCTTC
1008639 TTCTTATGGG
Statistics
Matches: 126, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
54 18 0.14
55 107 0.85
56 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (54 bp):
TTCAGAGAGTATAAGACTCGAACAATCTTCAACATCGTGTCTGTTCCCTATTCC
Found at i:1008656 original size:55 final size:54
Alignment explanation
Indices: 1008489--1008802 Score: 227
Period size: 55 Copynumber: 5.8 Consensus size: 54
1008479 TCGTGTCTGT
* ** * *
1008489 TCCCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCAAC-AATCGTGTCTTC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTTCTAATGGT-TC-GC
* **
1008544 TCCCTATTCCTTTAGAGAGTATAAGACTCGAACAATCTTCAACTATCAT-G-TCTGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTTCTA--ATGGTTC-GC
*
1008599 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTTCTTATGGGTTCGC
1 TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTTCTAAT-GGTTCGC
* * * * * * *
1008654 TCCCTCTTTCTTCAGAGAGTAT-AGAACTTGAA-TATCTTCTTCAAACGGGTTTGC
1 TCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCTTCTAA-TGGTTCGC
* * * * * *
1008708 TCCCTCTTTC-TCTAGGGAGTATAA-ACTCGGAC-ATCTTCTTCAAACGGTTCGC
1 TCCCTATTCCTTC-AGAGAGTATAAGACTCGAACAATCTTCTTCTAATGGTTCGC
* * *
1008760 TCCCTCTTTC-TCTAGGGAGTAT-AGAACTCGAAC-ATCTTCTTCT
1 TCCCTATTCCTTC-AGAGAGTATAAG-ACTCGAACAATCTTCTTCT
1008803 GCTTCACTAC
Statistics
Matches: 224, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
51 1 0.00
52 28 0.12
53 37 0.17
54 36 0.16
55 116 0.52
56 3 0.01
57 1 0.00
58 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (54 bp):
TCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTTCTAATGGTTCGC
Found at i:1008657 original size:110 final size:109
Alignment explanation
Indices: 1008422--1008798 Score: 304
Period size: 110 Copynumber: 3.5 Consensus size: 109
1008412 AGTATTTTGC
* * * *
1008422 CAATGGGTTCGTTCCCTCTTTTTTTCAGGGAGTAT-AGAACTCAAACATCTTCAACACTCGTGTC
1 CAATGGGTTCGCTCCCTCTTTCTTT-AGAGAGTATAAGAACTCAAACATCTTCAACACTCATGTC
* *
1008486 TGTTCCCTATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCAA
65 TGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
* * * * *
1008531 CAAT-CGTGTCTTCTCCCTATTCCTTTAGAGAGTATAAG-ACTCGAACAATCTTCAACTA-TCAT
1 CAATGGGT-TC-GCTCCCTCTTTCTTTAGAGAGTATAAGAACTCAAAC-ATCTTCAAC-ACTCAT
**
1008593 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTT
62 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
* * ** * ** ** ** *
1008641 CTTATGGGTTCGCTCCCTCTTTCTTCAGAGAGTAT-AGAACTTGAATATCTTCTTCAAACGGGTT
1 C-AATGGGTTCGCTCCCTCTTTCTTTAGAGAGTATAAGAACTCAAACATCTTCAACACTCATGTC
* * * * **
1008705 TGCTCCCTCTTTC-TCTAGGGAGTATAA-ACTCGGAC-ATCTTCTT
65 TGCTCCCTATTCCTTC-AGAGAGTATAAGACTCGAACAATCTTCAA
** * * *
1008748 CAAACGGTTCGCTCCCTCTTTCTCTAGGGAGTAT-AGAACTCGAACATCTTC
1 CAATGGGTTCGCTCCCTCTTTCTTTAGAGAGTATAAGAACTCAAACATCTTC
1008799 TTCTGCTTCA
Statistics
Matches: 219, Mismatches: 39, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
106 42 0.19
107 9 0.04
108 12 0.05
109 54 0.25
110 95 0.43
111 5 0.02
112 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (109 bp):
CAATGGGTTCGCTCCCTCTTTCTTTAGAGAGTATAAGAACTCAAACATCTTCAACACTCATGTCT
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
Found at i:1008788 original size:53 final size:54
Alignment explanation
Indices: 1008615--1008801 Score: 247
Period size: 54 Copynumber: 3.5 Consensus size: 54
1008605 TTCCTTCAGA
** * *
1008615 GAGTATA-AGACTCGAACAATCTTCTTCTTATGGGTTCGCTCCCTCTTTCT-TCAGA
1 GAGTATAGA-ACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCT-AGG
* * *
1008670 GAGTATAGAACTTGAATATCTTCTTCAAACGGGTTTGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
*
1008724 GAGTATA-AACTCGGACATCTTCTTCAAAC-GGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
1008776 GAGTATAGAACTCGAACATCTTCTTC
1 GAGTATAGAACTCGAACATCTTCTTC
1008802 TGCTTCACTA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
52 29 0.25
53 36 0.31
54 37 0.32
55 14 0.12
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGG
Found at i:1022879 original size:3 final size:3
Alignment explanation
Indices: 1022873--1022905 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1022863 TATGTAACAT
*
1022873 TAA TAA TAA TAT TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1022906 TTTAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1022888 original size:6 final size:6
Alignment explanation
Indices: 1022860--1022919 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
1022850 GTAAAAAAAA
* * * * *
1022860 TAATAT GTAACAT TAATAA TAATAT TAATAA TAATAA TAATA- TAATTT
1 TAATAT -TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
1022908 TAATA- TAATAT T
1 TAATAT TAATAT T
1022920 TATAATCCGG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
5 9 0.20
6 30 0.68
7 5 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
TAATAT
Found at i:1027877 original size:46 final size:46
Alignment explanation
Indices: 1027827--1028184 Score: 529
Period size: 46 Copynumber: 7.8 Consensus size: 46
1027817 TACATAATAT
**
1027827 TGCATTATCAACATGAAAGGATGCCATAAATGAAAATGCATAACGG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
* * * * *
1027873 TGCATTATCGACATGAAAGGATTCCATAAATAAAAATGTATAACAG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
*
1027919 TGCATTATCGACATGAAAGGATGCCATAAATGAAAATGCATAACGG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
*
1027965 TGCATTATCGGCATGAAAGAATGCCATAAATGAAAATGCATAACGG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
** * *
1028011 TGCATTATTAGCATGAAAGGATGCCATTAATGAAAATGTATAACGG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
* *
1028057 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAATGA
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
* ** *
1028103 TACATTATTTGCATGAAAGGATGCTAT-AATGAAAATGCATAACGG
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
*
1028148 TGCATTATAGGCATGAAAGGATGCCATAAATGAAAAT
1 TGCATTATCGGCATGAAAGGATGCCATAAATGAAAAT
1028185 AAAAAATAAT
Statistics
Matches: 279, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 39 0.14
46 240 0.86
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (46 bp):
TGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCATAACGG
Found at i:1032828 original size:46 final size:46
Alignment explanation
Indices: 1032758--1033040 Score: 369
Period size: 46 Copynumber: 6.3 Consensus size: 46
1032748 AAAAGAATGA
1032758 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
1032804 ATAAATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* ** *
1032850 ATAAATGAAAATACATAACGGTGCATTATTAGCATGAAAGGATTCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
1032896 ATTAATGAAAATGCATAATGATGCATTATCGGTATGAAAGGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
1032942 ATAAATGAAAATTCATAAC---G-ATTATCGACATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * * * *
1032984 GTAAATGAAAATGCATAATGGTGCGTTGTAGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
1033030 ATAAAT-AAAAT
1 ATAAATGAAAAT
1033041 TAAAGAATAA
Statistics
Matches: 203, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
42 34 0.17
43 1 0.00
45 6 0.03
46 162 0.80
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:1040400 original size:31 final size:31
Alignment explanation
Indices: 1040345--1040449 Score: 174
Period size: 31 Copynumber: 3.4 Consensus size: 31
1040335 GGGCCTGAGA
*
1040345 GCCTACCCAAGAAAGATTCTCGGGGCCATAGG
1 GCCTACCCAAGAAAGA-TCTCGGGGCCGTAGG
*
1040377 GCCTACCCAAGAAAGATCTCGGGGCCGCAGG
1 GCCTACCCAAGAAAGATCTCGGGGCCGTAGG
*
1040408 GCCTACCCAAGAAAGATCTCGGGGCCGTAGA
1 GCCTACCCAAGAAAGATCTCGGGGCCGTAGG
1040439 GCCTACCCAAG
1 GCCTACCCAAG
1040450 GGTCGCCTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
31 53 0.77
32 16 0.23
ACGTcount: A:0.28, C:0.31, G:0.29, T:0.12
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCGGGGCCGTAGG
Found at i:1042074 original size:37 final size:36
Alignment explanation
Indices: 1041999--1042074 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
1041989 TTTTTATATT
*
1041999 TTTAATTTTGTAAAAAAATATATATAATATTATGAA
1 TTTAATTTTGTAAAAAAATATATATAATATTATCAA
* *
1042035 TTTAATTTTTTAAAGAAAATATATA-AATATTTTACAA
1 TTTAATTTTGTAAA-AAAATATATATAATATTAT-CAA
1042072 TTT
1 TTT
1042075 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 20 0.57
37 15 0.43
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATATATATAATATTATCAA
Found at i:1047111 original size:77 final size:79
Alignment explanation
Indices: 1046965--1047113 Score: 207
Period size: 77 Copynumber: 1.9 Consensus size: 79
1046955 ATATAGTAAG
*
1046965 TAAACATTAAAAGAATGTAATTTAGATTATAACTCTTTTAATCGATATTTAATTCGGAATAATTA
1 TAAACATTAAAAGAATGTAATTCAGATTATAACTCTTTTAATCGATATTTAATTCGGAATAATTA
1047030 AATAAGAGTTTAAA
66 AATAAGAGTTTAAA
* * * *
1047044 TAAACGTT-AAAGATTGTAATTCAGATTATAAGTC-TTTAAT-GAGTATTTAATT-TGAATTAAT
1 TAAACATTAAAAGAATGTAATTCAGATTATAACTCTTTTAATCGA-TATTTAATTCGGAA-TAAT
1047105 TAAATAAGA
64 TAAATAAGA
1047114 TTTTTTATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
76 5 0.08
77 28 0.44
78 23 0.37
79 7 0.11
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.39
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTATAACTCTTTTAATCGATATTTAATTCGGAATAATTA
AATAAGAGTTTAAA
Found at i:1049296 original size:28 final size:28
Alignment explanation
Indices: 1049196--1049321 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 28
1049186 AATCAAGACG
* ** *
1049196 AGGATATAATCCCATACAGAAACATGAT
1 AGGATATAATCTCATACAGAATTAGGAT
* ** * *
1049224 GGAGATATAATCTCATGGAGAATCAAGACT
1 AG-GATATAATCTCATACAGAATTAGGA-T
* *
1049254 GGGATATAATCTCATACATAATTAGGAAT
1 AGGATATAATCTCATACAGAATTAGG-AT
*
1049283 A-GATATAATCTCATGCAGAATTAGGAT
1 AGGATATAATCTCATACAGAATTAGGAT
1049310 AGGGATATAATC
1 A-GGATATAATC
1049322 CTATAGACAA
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.04
28 23 0.29
29 49 0.62
30 4 0.05
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (28 bp):
AGGATATAATCTCATACAGAATTAGGAT
Done.