Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 33 of 195
Found at i:7290415 original size:4 final size:4
Alignment explanation
Indices: 7290408--7290445 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
7290398 TAATAATAAT
7290408 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
7290446 AAACCTGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:7290415 original size:16 final size:18
Alignment explanation
Indices: 7290391--7290445 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 18
7290381 AATTCTGATT
*
7290391 TAATTAATAAT-AAT-AA
1 TAATAAATAATAAATAAA
7290407 TAATAAATAAATAAATAAA
1 TAATAAAT-AATAAATAAA
7290426 TAAATAAATAAATAAATAAA
1 T-AATAAAT-AATAAATAAA
7290446 AAACCTGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 3 0.09
19 3 0.09
20 18 0.53
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAATAAATAATAAATAAA
Found at i:7293655 original size:42 final size:42
Alignment explanation
Indices: 7293609--7293697 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
7293599 GCCACCAGCG
* *
7293609 CCACCACTGTCACAACTTCCTCCACCGCCACCAAAACCACCA
1 CCACCACTATCACAACCTCCTCCACCGCCACCAAAACCACCA
* *
7293651 CCACCACTATCACAACCTCGTCCACTGCCACCAAAACCACCA
1 CCACCACTATCACAACCTCCTCCACCGCCACCAAAACCACCA
7293693 CCACC
1 CCACC
7293698 GCCAATATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.53, G:0.04, T:0.11
Consensus pattern (42 bp):
CCACCACTATCACAACCTCCTCCACCGCCACCAAAACCACCA
Found at i:7294700 original size:72 final size:72
Alignment explanation
Indices: 7294608--7294751 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
7294598 ATTGTCTTGC
7294608 TGTGATGTTTTCACCCTTTGAAATGCATGCATCATGCATGTATACTAGGGTTTTCTGATCTAGCA
1 TGTGATGTTTTCACCCTTTGAAATGCATGCATCATGCATGTATACTAGGGTTTTCTGATCTAGCA
7294673 TTAATTT
66 TTAATTT
* * *
7294680 TGTGATGTTTTTACCTTTTGAAATGCATGCATCATGCATGTATACTTGGGTTTTCTGATCTAGCA
1 TGTGATGTTTTCACCCTTTGAAATGCATGCATCATGCATGTATACTAGGGTTTTCTGATCTAGCA
7294745 TTAATTT
66 TTAATTT
7294752 CCTTTAATGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (72 bp):
TGTGATGTTTTCACCCTTTGAAATGCATGCATCATGCATGTATACTAGGGTTTTCTGATCTAGCA
TTAATTT
Found at i:7295693 original size:29 final size:29
Alignment explanation
Indices: 7295618--7295700 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
7295608 TATTTTTGTA
**
7295618 TATATTCGTGTTAATCATGTCTATTTGTG
1 TATATTCGTGTTAATCATGTCTATTCATG
*
7295647 TATATTCGTGTTAGTCATGTCTATTCATG
1 TATATTCGTGTTAATCATGTCTATTCATG
* * * *
7295676 TATATCCGTATTATTCATGTTTATT
1 TATATTCGTGTTAATCATGTCTATT
7295701 TATATCGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (29 bp):
TATATTCGTGTTAATCATGTCTATTCATG
Found at i:7300711 original size:2 final size:2
Alignment explanation
Indices: 7300704--7300730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7300694 GATGGTGGCT
7300704 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
7300731 TTAGATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7303513 original size:13 final size:14
Alignment explanation
Indices: 7303476--7303513 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7303466 ATGAGAAAGA
*
7303476 TATTTAAATAATTT
1 TATTTAAAAAATTT
*
7303490 TATTTATAAAATTT
1 TATTTAAAAAATTT
7303504 T-TTTAAAAAA
1 TATTTAAAAAA
7303514 AAGTTGAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTTAAAAAATTT
Found at i:7309429 original size:17 final size:16
Alignment explanation
Indices: 7309407--7309445 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7309397 GGACAATTAA
*
7309407 AAAATTAATATGTATTT
1 AAAATTAA-ATGCATTT
*
7309424 AAAATTAACTGCATTT
1 AAAATTAAATGCATTT
7309440 AAAATT
1 AAAATT
7309446 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
AAAATTAAATGCATTT
Found at i:7310693 original size:60 final size:58
Alignment explanation
Indices: 7310624--7310741 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 58
7310614 TGCTTTCGTA
* *
7310624 TAAGAAAAATTGATACTTTCAACTTTTTCTT-AAAATGTTTTACTTGATAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAA-TTTTTCTTCAAAATATTTT--TTGAAAATTTTTATTTT
* *
7310684 TAAGGAAAATTGATACTTTTAATTTTTCTTCAAAATATTTTTTGAAAATTTTTATTTT
1 TAAGAAAAATTGATACTTTCAATTTTTCTTCAAAATATTTTTTGAAAATTTTTATTTT
7310742 AGAAATTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 16 0.30
59 8 0.15
60 29 0.55
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (58 bp):
TAAGAAAAATTGATACTTTCAATTTTTCTTCAAAATATTTTTTGAAAATTTTTATTTT
Found at i:7310812 original size:57 final size:55
Alignment explanation
Indices: 7310751--7310933 Score: 189
Period size: 57 Copynumber: 3.3 Consensus size: 55
7310741 TAGAAATTTT
*
7310751 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTAGAAAAAAA
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTT--AAAAAAA
* * *
7310808 ATTTTAAAAGAAAAATTGATATTTTCAA-TTTTCCTCAAAATATTTTTT---AAAA
1 ATTTT-CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAAAAAAA
*
7310860 ATTTT--AGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTATTTTTAAAAAAA
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATA--T-TTTTTAAAAAAA
* *
7310917 ATTATTCTAGCAAAATT
1 ATT-TTCAAGAAAAATT
7310934 ATTGACAAAA
Statistics
Matches: 107, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
49 19 0.18
50 6 0.06
51 6 0.06
52 9 0.08
53 1 0.01
54 5 0.05
57 31 0.29
58 22 0.21
60 8 0.07
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (55 bp):
ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAAAAAAA
Found at i:7311026 original size:4 final size:4
Alignment explanation
Indices: 7311012--7311040 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
7311002 TAATAATAAT
7311012 AATA AAT- AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
7311041 AAAACCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:7311034 original size:19 final size:16
Alignment explanation
Indices: 7310996--7311039 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
7310986 CTGATTTAAT
7310996 TAAT-AATAATAATAA
1 TAATAAATAATAATAA
7311011 TAATAAATAATAAATAAA
1 TAATAAATAAT-AAT-AA
7311029 TAAATAAATAA
1 T-AATAAATAA
7311040 AAAAACCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 3 0.12
18 3 0.12
19 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:7312222 original size:12 final size:12
Alignment explanation
Indices: 7312207--7312232 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7312197 ACAGCCACTG
7312207 CCGCCACCACCA
1 CCGCCACCACCA
7312219 CCGCCACCACCA
1 CCGCCACCACCA
7312231 CC
1 CC
7312233 ACCGCAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.69, G:0.08, T:0.00
Consensus pattern (12 bp):
CCGCCACCACCA
Found at i:7314212 original size:9 final size:9
Alignment explanation
Indices: 7314198--7314222 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7314188 TTAACAGCCA
7314198 CCACCACCG
1 CCACCACCG
7314207 CCACCACCG
1 CCACCACCG
7314216 CCACCAC
1 CCACCAC
7314223 TGTCACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.68, G:0.08, T:0.00
Consensus pattern (9 bp):
CCACCACCG
Found at i:7314255 original size:42 final size:42
Alignment explanation
Indices: 7314209--7314306 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
7314199 CACCACCGCC
* * * *
7314209 ACCACCGCCACCACTGTCACAACTTCCTCCACCGCCACCAAA
1 ACCACCACCACCACTATCACAACCTCCTCCACCGCAACCAAA
*
7314251 ACCACCACCACCACTATCACAACCTCCTCCACTGCAACCAAA
1 ACCACCACCACCACTATCACAACCTCCTCCACCGCAACCAAA
7314293 ACCACCACCACCAC
1 ACCACCACCACCAC
7314307 CACCAATATC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.33, C:0.53, G:0.04, T:0.10
Consensus pattern (42 bp):
ACCACCACCACCACTATCACAACCTCCTCCACCGCAACCAAA
Found at i:7315322 original size:92 final size:94
Alignment explanation
Indices: 7315222--7315399 Score: 299
Period size: 92 Copynumber: 1.9 Consensus size: 94
7315212 ATTGTCTTGC
7315222 TGTGATGTTTTCACCTTTTGAAATGCATGCATCATGCATGTATACTAGGGTTTTCTGATCTAGCA
1 TGTGATGTTTTCACCTTTTGAAATGCATGCATCATGCATG-ATACTAGGGTTTTCTGATCTAGCA
7315287 TT-A-TTCC-TTAATACACGAATGTCTTAT
65 TTAATTTCCTTTAATACACGAATGTCTTAT
* *
7315314 TGTGATGTTTTTACCTTTTGAAATGCATGCATCATGCATGATACTTGGGTTTTCTGATCTAGCAT
1 TGTGATGTTTTCACCTTTTGAAATGCATGCATCATGCATGATACTAGGGTTTTCTGATCTAGCAT
*
7315379 TAATTTCCTTTAATGCACGAA
66 TAATTTCCTTTAATACACGAA
7315400 AAAGTTTCCT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
91 25 0.31
92 40 0.50
93 4 0.05
94 11 0.14
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (94 bp):
TGTGATGTTTTCACCTTTTGAAATGCATGCATCATGCATGATACTAGGGTTTTCTGATCTAGCAT
TAATTTCCTTTAATACACGAATGTCTTAT
Found at i:7316275 original size:29 final size:29
Alignment explanation
Indices: 7316235--7316303 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
7316225 TAGTCTTATT
* *
7316235 TTTGAATATATTCGTGTTAGTCATGTCTA
1 TTTGTATATATTCGTGTTAGTCATATCTA
7316264 TTTGTATATATTCGTGTTAGTCATATCTA
1 TTTGTATATATTCGTGTTAGTCATATCTA
7316293 TTCATGTATAT
1 TT--TGTATAT
7316304 CCGTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 29 0.81
31 7 0.19
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGTATATATTCGTGTTAGTCATATCTA
Found at i:7321298 original size:2 final size:2
Alignment explanation
Indices: 7321291--7321315 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7321281 GATGGTGGCT
7321291 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
7321316 TTAGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7330250 original size:23 final size:23
Alignment explanation
Indices: 7330222--7330277 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
7330212 TTGGGAAAGG
7330222 AGAGAAAAGAGATAGGGTGTG--
1 AGAGAAAAGAGATAGGGTGTGAA
*
7330243 AGA-AAGAAGAGATGGGGTGTGAA
1 AGAGAA-AAGAGATAGGGTGTGAA
7330266 AGAGAAAAGAGA
1 AGAGAAAAGAGA
7330278 AAAGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.07
21 17 0.57
23 9 0.30
24 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.11
Consensus pattern (23 bp):
AGAGAAAAGAGATAGGGTGTGAA
Found at i:7339460 original size:100 final size:100
Alignment explanation
Indices: 7339287--7339487 Score: 384
Period size: 100 Copynumber: 2.0 Consensus size: 100
7339277 AACAAAAAAT
**
7339287 AGGAGAATACATCAAGCAAAGATCTTCTATAATAAGAAATGAAGTTATTTATATATTGGATGAAT
1 AGGAGAATACATCAAGCAAAGATCTTCTATAATAAGAAATGAAGTTATTTATATATTCAATGAAT
7339352 ATCATTGAAGTTTTCTTGAATTAAGGTGATAGAAG
66 ATCATTGAAGTTTTCTTGAATTAAGGTGATAGAAG
7339387 AGGAGAATACATCAAGCAAAGATCTTCTATAATAAGAAATGAAGTTATTTATATATTCAATGAAT
1 AGGAGAATACATCAAGCAAAGATCTTCTATAATAAGAAATGAAGTTATTTATATATTCAATGAAT
7339452 ATCATTGAAGTTTTCTTGAATTAAGGTGATAGAAG
66 ATCATTGAAGTTTTCTTGAATTAAGGTGATAGAAG
7339487 A
1 A
7339488 TAAGAATTCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (100 bp):
AGGAGAATACATCAAGCAAAGATCTTCTATAATAAGAAATGAAGTTATTTATATATTCAATGAAT
ATCATTGAAGTTTTCTTGAATTAAGGTGATAGAAG
Found at i:7339519 original size:82 final size:82
Alignment explanation
Indices: 7339418--7339581 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
7339408 ATCTTCTATA
*
7339418 ATAAGAAATGAAGTTATTTATATATTCAATGAATATCATTGAAGTTTTCTTGAATTAAGGTGATA
1 ATAAGAAATGAAGTTATTTATATATTCAATGAATATCATTGAAGTTTTCTTGAAATAAGGTGATA
7339483 GAAGATAAGAATTCAAG
66 GAAGATAAGAATTCAAG
**
7339500 ATAAGAAATGAAGTTATTTATATATTTGATGAATATCATTGAAGTTTTCTTGAAATAAGGTGATA
1 ATAAGAAATGAAGTTATTTATATATTCAATGAATATCATTGAAGTTTTCTTGAAATAAGGTGATA
7339565 GAAGATAAGAATTCAAG
66 GAAGATAAGAATTCAAG
7339582 TAAACATATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (82 bp):
ATAAGAAATGAAGTTATTTATATATTCAATGAATATCATTGAAGTTTTCTTGAAATAAGGTGATA
GAAGATAAGAATTCAAG
Found at i:7341818 original size:14 final size:14
Alignment explanation
Indices: 7341799--7341826 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7341789 CCCTTACATT
7341799 TAATTGAATATAAA
1 TAATTGAATATAAA
7341813 TAATTGAATATAAA
1 TAATTGAATATAAA
7341827 ATTAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
TAATTGAATATAAA
Found at i:7342103 original size:9 final size:9
Alignment explanation
Indices: 7342089--7342130 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
7342079 ATAATATAAA
7342089 ATATTATAT
1 ATATTATAT
7342098 ATATTATAT
1 ATATTATAT
*
7342107 ATATTTTACT
1 ATATTATA-T
7342117 A-ATTATAT
1 ATATTATAT
7342125 GATATT
1 -ATATT
7342131 GTGATACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 22 0.79
10 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATTATAT
Found at i:7342380 original size:13 final size:12
Alignment explanation
Indices: 7342353--7342392 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
7342343 CCTTTTTCCC
7342353 TTTTCTATTTCT
1 TTTTCTATTTCT
*
7342365 TTTTCTATTATTT
1 TTTTCTATT-TCT
7342378 TTTTCTATTTCT
1 TTTTCTATTTCT
7342390 TTT
1 TTT
7342393 CTTTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTATTTCT
Found at i:7342382 original size:19 final size:19
Alignment explanation
Indices: 7342360--7342400 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7342350 CCCTTTTCTA
*
7342360 TTTCTTTTTCTATTATTTT
1 TTTCTATTTCTATTATTTT
* *
7342379 TTTCTATTTCTTTTCTTTT
1 TTTCTATTTCTATTATTTT
7342398 TTT
1 TTT
7342401 TAAAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTATTTCTATTATTTT
Found at i:7342393 original size:11 final size:11
Alignment explanation
Indices: 7342352--7342394 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
7342342 TCCTTTTTCC
7342352 CTTTTCTATTT
1 CTTTTCTATTT
7342363 CTTTTTCTATTATT
1 C-TTTTCTA-T-TT
*
7342377 TTTTTCTATTT
1 CTTTTCTATTT
7342388 CTTTTCT
1 CTTTTCT
7342395 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.33
12 8 0.30
13 8 0.30
14 2 0.07
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (11 bp):
CTTTTCTATTT
Found at i:7342906 original size:23 final size:23
Alignment explanation
Indices: 7342870--7342942 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
7342860 TATATAAATA
7342870 TATATTT-TATTATTTATTTAATT
1 TATATTTATA-TATTTATTTAATT
*
7342893 TATATTTATATATTATATTAAAATTT
1 TATATTTATATATT-TATT-TAA-TT
7342919 TATTATTTA-ATATTTTAATTTAAT
1 TA-TATTTATATA-TTT-ATTTAAT
7342943 AAATTCATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
23 11 0.27
24 6 0.15
25 3 0.07
26 10 0.24
27 11 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATATTTATATATTTATTTAATT
Found at i:7343578 original size:21 final size:21
Alignment explanation
Indices: 7343554--7343600 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7343544 TTTTTTTCTC
*
7343554 TTTTTTGTTTTAATTTTTGTT
1 TTTTTTCTTTTAATTTTTGTT
* *
7343575 TTTTATCTTTTTATTTTTGTT
1 TTTTTTCTTTTAATTTTTGTT
7343596 TTTTT
1 TTTTT
7343601 ATTTAAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.02, G:0.06, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTAATTTTTGTT
Found at i:7344072 original size:16 final size:16
Alignment explanation
Indices: 7344051--7344106 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
7344041 CCCTTTATTA
7344051 ATTTTTTTTATTTTTT
1 ATTTTTTTTATTTTTT
* *
7344067 ATTTTTTTTCCTTTTTC
1 ATTTTTTTT-ATTTTTT
* *
7344084 AATTTTTTGATTCTTTT
1 ATTTTTTTTATT-TTTT
7344101 -TTTTTT
1 ATTTTTT
7344107 AATTAGATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (16 bp):
ATTTTTTTTATTTTTT
Found at i:7344606 original size:11 final size:11
Alignment explanation
Indices: 7344590--7344630 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
7344580 ATCCTATAAA
7344590 AGATTTGTTTG
1 AGATTTGTTTG
*
7344601 AGATTTGTTAG
1 AGATTTGTTTG
7344612 AGATTTGTTTG
1 AGATTTGTTTG
7344623 AGATTTGT
1 AGATTTGT
7344631 CAGATATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:7344743 original size:52 final size:52
Alignment explanation
Indices: 7344687--7344811 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 52
7344677 AGAGAAAGAT
* *
7344687 GATTCTTAATAGGTAAGTTTGACTTGCAAAAGAAGAATTCTAAAAGGAAATG
1 GATTCTTAATAGGCAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAAATG
* ** * * *
7344739 GATTCTTAATAGGCAAGTTTAACTTACAGGAGAAGAATTTTAAGAGGAGATG
1 GATTCTTAATAGGCAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAAATG
*
7344791 GATTCTTAATGGGCAAGTTTG
1 GATTCTTAATAGGCAAGTTTG
7344812 TATGGTTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (52 bp):
GATTCTTAATAGGCAAGTTTGACTTACAAAAGAAGAATTCTAAAAGGAAATG
Found at i:7345672 original size:11 final size:11
Alignment explanation
Indices: 7345656--7345697 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
7345646 AATCTTATAA
7345656 AAGATTTGTTT
1 AAGATTTGTTT
7345667 AAGATTTG-TT
1 AAGATTTGTTT
*
7345677 AGAGATTTATTT
1 A-AGATTTGTTT
7345689 AAGATTTGT
1 AAGATTTGT
7345698 CAGATATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.11
11 21 0.78
12 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (11 bp):
AAGATTTGTTT
Found at i:7345809 original size:52 final size:52
Alignment explanation
Indices: 7345722--7345866 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 52
7345712 TGGACAAAAA
* * *
7345722 GACTTACAAAAGAAGAATT-T-CAAGAGAAAGAAGATTTTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAG-GAAAG-AGATTTTTAATAGGCAAGTTT
* *
7345774 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAGAGATTTTTAATAGGCAAGTTT
* * * *
7345826 GACTTACAGGAAAAGAATTCTAAGAGGAGATGA-ATTTTTAA
1 GACTTACAAGAGAAGAATTCTAAAAGGA-AAGAGATTTTTAA
7345867 GGGATAAGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
52 67 0.85
53 9 0.11
54 3 0.04
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAGGAAAGAGATTTTTAATAGGCAAGTTT
Found at i:7351170 original size:14 final size:14
Alignment explanation
Indices: 7351151--7351181 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7351141 ATTAATAAGG
7351151 TTCGGCTATTAGCT
1 TTCGGCTATTAGCT
7351165 TTCGGCTATTAGCT
1 TTCGGCTATTAGCT
7351179 TTC
1 TTC
7351182 TTTACATGGC
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:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (14 bp):
TTCGGCTATTAGCT
Found at i:7351205 original size:21 final size:21
Alignment explanation
Indices: 7351181--7351231 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
7351171 TATTAGCTTT
*
7351181 CTTTACATGGCTGAATGTGCA
1 CTTTGCATGGCTGAATGTGCA
7351202 CTTTGCATGGCTGAATGTGCA
1 CTTTGCATGGCTGAATGTGCA
7351223 CTTTGCATG
1 CTTTGCATG
7351232 CTTGCATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
CTTTGCATGGCTGAATGTGCA
Found at i:7351522 original size:16 final size:16
Alignment explanation
Indices: 7351485--7351515 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7351475 AAAGATATTT
7351485 AATAATTTTGCCTAAG
1 AATAATTTTGCCTAAG
7351501 AATAATTTTGCCTAA
1 AATAATTTTGCCTAA
7351516 ATATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
AATAATTTTGCCTAAG
Found at i:7352416 original size:16 final size:16
Alignment explanation
Indices: 7352397--7352433 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7352387 TTTTAAAAGA
* *
7352397 AAAAAAGTAAAAAATT
1 AAAAAAGCAAAAAATG
7352413 AAAAAAGCAAAAAATG
1 AAAAAAGCAAAAAATG
7352429 AAAAA
1 AAAAA
7352434 TATAGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAAGCAAAAAATG
Found at i:7353145 original size:43 final size:43
Alignment explanation
Indices: 7353079--7353211 Score: 257
Period size: 43 Copynumber: 3.1 Consensus size: 43
7353069 TTTATTGTGA
7353079 AACAGTTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
1 AACA-TTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
7353123 AACATTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
1 AACATTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
7353166 AACATTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
1 AACATTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
7353209 AAC
1 AAC
7353212 TGACACGGCT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
43 85 0.96
44 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.18
Consensus pattern (43 bp):
AACATTTATACACAGCGGCAGGTAGTACGGCCAAGGCTCTGGC
Found at i:7359348 original size:184 final size:184
Alignment explanation
Indices: 7359039--7359407 Score: 729
Period size: 184 Copynumber: 2.0 Consensus size: 184
7359029 CAGGAGAGGG
7359039 AGGAGAGGATAAACTAAAAGAAGATCTGGAGGAAGAAGGTTGAGAACTAGAGTTGCTAAAAGTGG
1 AGGAGAGGATAAACTAAAAGAAGATCTGGAGGAAGAAGGTTGAGAACTAGAGTTGCTAAAAGTGG
7359104 ATAGATCCATGAAAGTAAGACTCTTTTTTGGCTTTTTCTTTTCCAATTTTCCAATAATCAAATCT
66 ATAGATCCATGAAAGTAAGACTCTTTTTTGGCTTTTTCTTTTCCAATTTTCCAATAATCAAATCT
*
7359169 TTAGAAACATACTTTTCTTCTCACTATCTTGATAAGTTGTTAGGCTCTGATATC
131 TTAAAAACATACTTTTCTTCTCACTATCTTGATAAGTTGTTAGGCTCTGATATC
7359223 AGGAGAGGATAAACTAAAAGAAGATCTGGAGGAAGAAGGTTGAGAACTAGAGTTGCTAAAAGTGG
1 AGGAGAGGATAAACTAAAAGAAGATCTGGAGGAAGAAGGTTGAGAACTAGAGTTGCTAAAAGTGG
7359288 ATAGATCCATGAAAGTAAGACTCTTTTTTGGCTTTTTCTTTTCCAATTTTCCAATAATCAAATCT
66 ATAGATCCATGAAAGTAAGACTCTTTTTTGGCTTTTTCTTTTCCAATTTTCCAATAATCAAATCT
7359353 TTAAAAACATACTTTTCTTCTCACTATCTTGATAAGTTGTTAGGCTCTGATATC
131 TTAAAAACATACTTTTCTTCTCACTATCTTGATAAGTTGTTAGGCTCTGATATC
7359407 A
1 A
7359408 TTTATACACA
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (184 bp):
AGGAGAGGATAAACTAAAAGAAGATCTGGAGGAAGAAGGTTGAGAACTAGAGTTGCTAAAAGTGG
ATAGATCCATGAAAGTAAGACTCTTTTTTGGCTTTTTCTTTTCCAATTTTCCAATAATCAAATCT
TTAAAAACATACTTTTCTTCTCACTATCTTGATAAGTTGTTAGGCTCTGATATC
Found at i:7359423 original size:24 final size:24
Alignment explanation
Indices: 7359396--7359441 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
7359386 AAGTTGTTAG
7359396 GCTCTGATATCATTTATACACATA
1 GCTCTGATATCATTTATACACATA
7359420 GCTCTGATATCATTTATACACA
1 GCTCTGATATCATTTATACACA
7359442 ACGGCAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (24 bp):
GCTCTGATATCATTTATACACATA
Found at i:7359525 original size:24 final size:24
Alignment explanation
Indices: 7359467--7359542 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
7359457 AACACGACCA
* *
7359467 TCAATGTCGTGTGAAACAGGGAAG
1 TCAATGTCGTGTGAAAAATGGAAG
7359491 TC-ATGTCGTGTGAAAAATGGAAG
1 TCAATGTCGTGTGAAAAATGGAAG
* *
7359514 TCAATGTCGTGTGGAAAATGGAAC
1 TCAATGTCGTGTGAAAAATGGAAG
7359538 TCAAT
1 TCAAT
7359543 TTTTGTAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
23 21 0.45
24 26 0.55
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (24 bp):
TCAATGTCGTGTGAAAAATGGAAG
Found at i:7359877 original size:18 final size:19
Alignment explanation
Indices: 7359839--7359884 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
7359829 TTTAATATAT
*
7359839 TATTAATAATAAATTTTAAA
1 TATTATTAATAAA-TTTAAA
7359859 TATTATTAATAAA-TTAAA
1 TATTATTAATAAATTTAAA
*
7359877 TAATATTA
1 TATTATTA
7359885 TTTTCTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
20 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATTAATAAATTTAAA
Found at i:7360015 original size:26 final size:28
Alignment explanation
Indices: 7359952--7360026 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 28
7359942 TTTAAAAATA
* *
7359952 TATTCATTAACAAAATTATATCATTTAATT
1 TATTCATTAATAAAATAATATCA-TT-ATT
7359982 TATTTCATTAATAAAATAATATCA-T-TT
1 TA-TTCATTAATAAAATAATATCATTATT
*
7360009 TATTCATTAATAATATAA
1 TATTCATTAATAAAATAA
7360027 AATATATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.37
27 4 0.10
29 1 0.02
30 2 0.05
31 19 0.46
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (28 bp):
TATTCATTAATAAAATAATATCATTATT
Found at i:7360038 original size:26 final size:26
Alignment explanation
Indices: 7359981--7360038 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
7359971 ATCATTTAAT
*
7359981 TTAT-TTCATTAATAAAATAATATCA
1 TTATATTCATTAATAAAATAAAATCA
* *
7360006 TTTTATTCATTAATAATATAAAAT-A
1 TTATATTCATTAATAAAATAAAATCA
7360031 TATATATT
1 T-TATATT
7360039 AACAATGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
TTATATTCATTAATAAAATAAAATCA
Found at i:7364700 original size:30 final size:31
Alignment explanation
Indices: 7364666--7364741 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
7364656 GTAAATTTTT
* *
7364666 TAAAAAATTTATAAACTCTTTTTTAAA-A-CA
1 TAAAAAATTTATAAAAT-TTTTCTAAACATCA
*
7364696 TAAAATA-TTATAAAATTTTTCTAAACATCA
1 TAAAAAATTTATAAAATTTTTCTAAACATCA
* *
7364726 TAAAAATTTTTTAAAA
1 TAAAAAATTTATAAAA
7364742 AATGGAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 8 0.22
29 9 0.24
30 13 0.35
31 7 0.19
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (31 bp):
TAAAAAATTTATAAAATTTTTCTAAACATCA
Found at i:7364722 original size:27 final size:28
Alignment explanation
Indices: 7364669--7364730 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 28
7364659 AATTTTTTAA
* *
7364669 AAAATTTATAAACTCTTTTTTAAAACAT
1 AAAATTTATAAAATCTTTTCTAAAACAT
7364697 AAAATATTATAAAAT-TTTTCTAAACATCAT
1 AAAAT-TTATAAAATCTTTTCTAAA-A-CAT
7364727 AAAA
1 AAAA
7364731 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 13 0.45
29 9 0.31
30 7 0.24
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAATTTATAAAATCTTTTCTAAAACAT
Found at i:7364981 original size:30 final size:30
Alignment explanation
Indices: 7364925--7364988 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
7364915 TATTAAAAGA
*
7364925 ACTAAATTTCAAAATTCATACAAGTATAGGG
1 ACTAAATTTCAAAATTCAAACAAGTAT-GGG
**
7364956 ACTAAATTTC-AAATTCAAATGAGTATGGG
1 ACTAAATTTCAAAATTCAAACAAGTATGGG
7364985 ACTA
1 ACTA
7364989 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 7 0.23
30 13 0.43
31 10 0.33
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (30 bp):
ACTAAATTTCAAAATTCAAACAAGTATGGG
Found at i:7365468 original size:22 final size:20
Alignment explanation
Indices: 7365409--7365451 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
7365399 ATATATATTA
*
7365409 TATTTAATAA-ATAAAATTT
1 TATTAAATAATATAAAATTT
7365428 TATTAAATAATATAAAATTT
1 TATTAAATAATATAAAATTT
7365448 TATT
1 TATT
7365452 TTAAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAAATAATATAAAATTT
Found at i:7365494 original size:25 final size:25
Alignment explanation
Indices: 7365466--7365513 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
7365456 ATTAATTAGA
7365466 ATTAATATAT-TTTATATAAAAAAAT
1 ATTAATATATATTTAT-TAAAAAAAT
7365491 ATTAATATATATTTATTAAAAAA
1 ATTAATATATATTTATTAAAAAA
7365514 TTACATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTAATATATATTTATTAAAAAAAT
Found at i:7365687 original size:18 final size:17
Alignment explanation
Indices: 7365647--7365694 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
7365637 AAATACTTTT
7365647 AATAGATATAAAATTAAA
1 AATA-ATATAAAATTAAA
*
7365665 TATAATATAAAATTTAAA
1 AATAATATAAAA-TTAAA
*
7365683 AATAAAATAAAA
1 AATAATATAAAA
7365695 AAATATTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAATATAAAATTAAA
Found at i:7368607 original size:14 final size:14
Alignment explanation
Indices: 7368566--7368609 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
7368556 AGTTTAAAGC
*
7368566 CTTAGACTAGGGTC
1 CTTAGACTAGGGTT
7368580 CTTAGACTAGGGTT
1 CTTAGACTAGGGTT
7368594 CTTAGACTAGGGTT
1 CTTAGACTAGGGTT
7368608 CT
1 CT
7368610 ATACTGCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.34
Consensus pattern (14 bp):
CTTAGACTAGGGTT
Found at i:7376854 original size:2 final size:2
Alignment explanation
Indices: 7376847--7376878 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7376837 CCATTTCCCG
7376847 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7376879 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7376883 original size:2 final size:2
Alignment explanation
Indices: 7376878--7376912 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7376868 TCTCTCTCTC
7376878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7376913 GTCCCAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7379620 original size:24 final size:25
Alignment explanation
Indices: 7379546--7379609 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
7379536 TTCTTGAAGA
*
7379546 TAGATTCAGAGCTTTCACTTTGCTG
1 TAGATTCAAAGCTTTCACTTTGCTG
7379571 TAGATTCAAAGCTTTCACTTTGCTG
1 TAGATTCAAAGCTTTCACTTTGCTG
7379596 TAGATTCAAAGCTT
1 TAGATTCAAAGCTT
7379610 CACCCTTCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (25 bp):
TAGATTCAAAGCTTTCACTTTGCTG
Found at i:7387630 original size:20 final size:21
Alignment explanation
Indices: 7387584--7387673 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 21
7387574 TTTACTCTTA
* * *
7387584 TAATTTATTATCAA-AATTAT
1 TAATTTAATATAAATAAATAT
*
7387604 TAA-TTAATA-AAATAAATAA
1 TAATTTAATATAAATAAATAT
*
7387623 TAATTTAATATAACT-AATAT
1 TAATTTAATATAAATAAATAT
* * *
7387643 TAAGTTAATATTATTAAATAT
1 TAATTTAATATAAATAAATAT
7387664 TAATTTAATA
1 TAATTTAATA
7387674 ATATTCAACA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
18 2 0.04
19 12 0.21
20 25 0.45
21 17 0.30
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (21 bp):
TAATTTAATATAAATAAATAT
Found at i:7387651 original size:11 final size:10
Alignment explanation
Indices: 7387601--7387673 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
7387591 TTATCAAAAT
7387601 TATTAATTAA
1 TATTAATTAA
* *
7387611 TA-AAATAAA
1 TATTAATTAA
*
7387620 TAATAATTTAA
1 TATTAA-TTAA
*
7387631 TA-TAACTAA
1 TATTAATTAA
7387640 TATTAAGTTAA
1 TATTAA-TTAA
7387651 TATT-ATTAAA
1 TATTAATT-AA
7387661 TATTAATTTAA
1 TATTAA-TTAA
7387672 TA
1 TA
7387674 ATATTCAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
9 14 0.28
10 17 0.34
11 17 0.34
12 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (10 bp):
TATTAATTAA
Found at i:7387664 original size:21 final size:21
Alignment explanation
Indices: 7387616--7387724 Score: 80
Period size: 21 Copynumber: 5.0 Consensus size: 21
7387606 ATTAATAAAA
* * *
7387616 TAAATAATAATTTAATATAAC
1 TAAATATTAATTTAATATTAT
*
7387637 T-AATATTAAGTTAATATTAT
1 TAAATATTAATTTAATATTAT
*
7387657 TAAATATTAATTTAATAATAT
1 TAAATATTAATTTAATATTAT
*
7387678 TCAACATTTTAA--TAATATTTTAT
1 T-AA-ATATTAATTTAATA--TTAT
*
7387701 ACTAAATATTAATTTAATAATAT
1 --TAAATATTAATTTAATATTAT
7387724 T
1 T
7387725 TTAATATTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
20 16 0.23
21 25 0.36
22 2 0.03
23 18 0.26
24 2 0.03
25 6 0.09
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.47
Consensus pattern (21 bp):
TAAATATTAATTTAATATTAT
Found at i:7387715 original size:29 final size:29
Alignment explanation
Indices: 7387683--7387857 Score: 173
Period size: 28 Copynumber: 6.1 Consensus size: 29
7387673 AATATTCAAC
*
7387683 ATTTTAATAATATTTTATACTAAATATTA
1 ATTTTAATAATATTTTATATTAAATATTA
* *
7387712 A-TTTAATAATATTTTAATATTTAATCTT-
1 ATTTTAATAATATTTT-ATATTAAATATTA
* *
7387740 ATTTTAATATTATTTT-TATTAAGTATTA
1 ATTTTAATAATATTTTATATTAAATATTA
*
7387768 ATTGTTAATAATAGTTTAATATTAAATATTA
1 ATT-TTAATAATA-TTTTATATTAAATATTA
* * * *
7387799 A-TTTAACAATATTTAATGTAAAATATT-
1 ATTTTAATAATATTTTATATTAAATATTA
*
7387826 ATTTTTATAATATTTTA-ATATAAATATTA
1 ATTTTAATAATATTTTATAT-TAAATATTA
7387855 ATT
1 ATT
7387858 GAATGGTATC
Statistics
Matches: 119, Mismatches: 18, Indels: 18
0.77 0.12 0.12
Matches are distributed among these distances:
27 10 0.08
28 51 0.43
29 42 0.35
30 4 0.03
31 12 0.10
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTTTAATAATATTTTATATTAAATATTA
Found at i:7387733 original size:18 final size:18
Alignment explanation
Indices: 7387712--7387750 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7387702 CTAAATATTA
7387712 ATTTAATAATATTTTAAT
1 ATTTAATAATATTTTAAT
**
7387730 ATTTAATCTTATTTTAAT
1 ATTTAATAATATTTTAAT
7387748 ATT
1 ATT
7387751 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTAATAATATTTTAAT
Found at i:7387735 original size:46 final size:44
Alignment explanation
Indices: 7387615--7387815 Score: 145
Period size: 46 Copynumber: 4.6 Consensus size: 44
7387605 AATTAATAAA
* **
7387615 ATAAATAATAATTTAAT-ATAACTAATA-TTAAGTTAATA--TTAT
1 ATAAATATTAATTTAATAATATTTAATATTTAA--TAATATTTTAT
* *
7387657 -TAAATATTAATTTAATAATATTCAACATTTTAATAATATTTTAT
1 ATAAATATTAATTTAATAATATTTAATA-TTTAATAATATTTTAT
**
7387701 ACTAAATATTAATTTAATAATATTTTAATATTTAATCTTATTTTA-
1 A-TAAATATTAATTTAATAATA-TTTAATATTTAATAATATTTTAT
* * *
7387746 AT-ATTATT--TTTATTAAGTA-TTAAT-TGTTAATAATAGTTTAAT
1 ATAAATATTAATTTAATAA-TATTTAATAT-TTAATAATA-TTTTAT
*
7387788 ATTAAATATTAATTTAACAATATTTAAT
1 A-TAAATATTAATTTAATAATATTTAAT
7387816 GTAAAATATT
Statistics
Matches: 125, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
39 1 0.01
40 12 0.10
41 26 0.21
42 14 0.11
43 6 0.05
44 14 0.11
45 3 0.02
46 44 0.35
47 5 0.04
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (44 bp):
ATAAATATTAATTTAATAATATTTAATATTTAATAATATTTTAT
Found at i:7387742 original size:10 final size:10
Alignment explanation
Indices: 7387637--7387754 Score: 52
Period size: 11 Copynumber: 12.1 Consensus size: 10
7387627 TTAATATAAC
*
7387637 TAATATTAAGT
1 TAATATT-ATT
7387648 TAATATTATT
1 TAATATTATT
*
7387658 AAATATTAATT
1 TAATATT-ATT
*
7387669 TAATAATATT
1 TAATATTATT
* *
7387679 CAACA-T-TT
1 TAATATTATT
*
7387687 TAATAATATT
1 TAATATTATT
*
7387697 T--TA-TACT
1 TAATATTATT
*
7387704 AAATATTAATT
1 TAATATT-ATT
*
7387715 TAATAATATT
1 TAATATTATT
*
7387725 T--TAATATT
1 TAATATTATT
*
7387733 TAATCTTATTT
1 TAATATTA-TT
7387744 TAATATTATT
1 TAATATTATT
7387754 T
1 T
7387755 TTATTAAGTA
Statistics
Matches: 81, Mismatches: 16, Indels: 21
0.69 0.14 0.18
Matches are distributed among these distances:
7 3 0.04
8 15 0.19
9 4 0.05
10 28 0.35
11 31 0.38
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (10 bp):
TAATATTATT
Found at i:7387786 original size:58 final size:57
Alignment explanation
Indices: 7387683--7387854 Score: 179
Period size: 58 Copynumber: 3.0 Consensus size: 57
7387673 AATATTCAAC
* * *
7387683 ATTTTAATAATATTTTATACTAAATATTAATTTAATAATATTTTAATATTTAATCTT
1 ATTTTAATAATATTTTATACTAAATATTAATTTAATAATAGTTTAATATTAAATATT
* * *
7387740 ATTTTAATATTATTTT-TATTAAGTATTAATTGTTAATAATAGTTTAATATTAAATATT
1 ATTTTAATAATATTTTATACTAAATATTAA-T-TTAATAATAGTTTAATATTAAATATT
* * * * * * *
7387798 AATTTAACAATATTTAAT-GTAAAATATTATTTTTATAATATTTTAATA-TAAATATT
1 ATTTTAATAATATTTTATACT-AAATATTAATTTAATAATAGTTTAATATTAAATATT
7387854 A
1 A
7387855 ATTGAATGGT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
56 20 0.21
57 31 0.32
58 37 0.39
59 8 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (57 bp):
ATTTTAATAATATTTTATACTAAATATTAATTTAATAATAGTTTAATATTAAATATT
Found at i:7387794 original size:87 final size:86
Alignment explanation
Indices: 7387686--7387858 Score: 222
Period size: 86 Copynumber: 2.0 Consensus size: 86
7387676 ATTCAACATT
* * ** * *
7387686 TTAATAATATTTTATACTAAATATTAATTTAATAATATTTTAATATTTAATCTTATTTTAATATT
1 TTAATAATATTTAATACTAAATATTAATTTAACAATA-TTTAATATAAAATATTATTTTAATAAT
* *
7387751 ATTTTTAT-TAAGTATTAATTG
65 ATTTTAATATAAATATTAATTG
* * *
7387772 TTAATAATAGTTTAATATTAAATATTAATTTAACAATATTTAATGTAAAATATTATTTTTATAAT
1 TTAATAATA-TTTAATACTAAATATTAATTTAACAATATTTAATATAAAATATTATTTTAATAAT
7387837 ATTTTAATATAAATATTAATTG
65 ATTTTAATATAAATATTAATTG
7387859 AATGGTATCT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
86 37 0.50
87 37 0.50
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (86 bp):
TTAATAATATTTAATACTAAATATTAATTTAACAATATTTAATATAAAATATTATTTTAATAATA
TTTTAATATAAATATTAATTG
Found at i:7387904 original size:22 final size:21
Alignment explanation
Indices: 7387869--7387917 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
7387859 AATGGTATCT
*
7387869 TAATATTATTAAATAATTGCA
1 TAATATAATTAAATAATTGCA
*
7387890 TAATATAATTTAAATAATTGTA
1 TAATATAA-TTAAATAATTGCA
7387912 TAATAT
1 TAATAT
7387918 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
TAATATAATTAAATAATTGCA
Found at i:7388013 original size:23 final size:24
Alignment explanation
Indices: 7387985--7388038 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 24
7387975 TGAATAATTT
7387985 TTTAATACTAAATATTATT-CATTA
1 TTTAATA-TAAATATTATTACATTA
*
7388009 -TTAAT-TTAATATTATTAACATTA
1 TTTAATATAAATATTATT-ACATTA
7388032 TTTAATA
1 TTTAATA
7388039 ATATTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
23 10 0.40
24 5 0.20
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTAATATAAATATTATTACATTA
Found at i:7388052 original size:43 final size:44
Alignment explanation
Indices: 7388005--7388133 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 44
7387995 AATATTATTC
*
7388005 ATTATTAATTTAATATTATTAACATT-ATTTAATAATATTAAAT
1 ATTATTAATTTAATATTATTAAAATTAATTTAATAATATTAAAT
* * * *
7388048 ATTATTGAA--CAATATTA-T-ATATTAATTTGATCATATTAAAT
1 ATTATT-AATTTAATATTATTAAAATTAATTTAATAATATTAAAT
* *
7388089 ATTA--AATTTAATAATATTAAAAATTAATTAAATAATATTAAAT
1 ATTATTAATTTAATATTATT-AAAATTAATTTAATAATATTAAAT
7388132 AT
1 AT
7388134 GTTGTAATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
38 2 0.03
40 10 0.14
41 21 0.30
42 7 0.10
43 27 0.39
44 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTATTAATTTAATATTATTAAAATTAATTTAATAATATTAAAT
Found at i:7388085 original size:21 final size:21
Alignment explanation
Indices: 7388007--7388133 Score: 143
Period size: 21 Copynumber: 6.1 Consensus size: 21
7387997 TATTATTCAT
*
7388007 TATTAATTTAATATTATT-AA
1 TATTAATTTAATAATATTAAA
*
7388027 CATT-ATTTAATAATATTAAA
1 TATTAATTTAATAATATTAAA
* * *
7388047 TATT-ATTGAACAATATTATA
1 TATTAATTTAATAATATTAAA
* *
7388067 TATTAATTTGATCATATTAAA
1 TATTAATTTAATAATATTAAA
7388088 TATTAAATTTAATAATATTAAA
1 TATT-AATTTAATAATATTAAA
* *
7388110 AATTAATTAAATAATATTAAA
1 TATTAATTTAATAATATTAAA
7388131 TAT
1 TAT
7388134 GTTGTAATAT
Statistics
Matches: 88, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
19 12 0.14
20 25 0.28
21 33 0.38
22 18 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTAATTTAATAATATTAAA
Found at i:7388248 original size:29 final size:30
Alignment explanation
Indices: 7388196--7388253 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
7388186 TTTAATATTA
* *
7388196 AGTATTAAATATTTATTTAAAAAATATTTT
1 AGTATTAAATACTAATTTAAAAAATATTTT
*
7388226 AGTATTAAATACTAATTT-TAAAATATTT
1 AGTATTAAATACTAATTTAAAAAATATTT
7388254 AATATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (30 bp):
AGTATTAAATACTAATTTAAAAAATATTTT
Found at i:7388274 original size:39 final size:39
Alignment explanation
Indices: 7388220--7388302 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 39
7388210 ATTTAAAAAA
* *
7388220 TATTTTAGTATTAAATACTAATTTTA-AAATA-TTTAATAT
1 TATTTCAGTAGTAAAT--TAATTTTATAAATATTTTAATAT
* *
7388259 TATTTCAGTAGTAAATTTATTTTATTAATATTTTAATAT
1 TATTTCAGTAGTAAATTAATTTTATAAATATTTTAATAT
7388298 TATTT
1 TATTT
7388303 AATTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
37 7 0.18
38 4 0.11
39 27 0.71
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (39 bp):
TATTTCAGTAGTAAATTAATTTTATAAATATTTTAATAT
Found at i:7388300 original size:22 final size:22
Alignment explanation
Indices: 7388275--7388320 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7388265 AGTAGTAAAT
*
7388275 TTATTTTATTAATATTT-TAATA
1 TTATTTAATTAAT-TTTATAATA
7388297 TTATTTAATTAATTTTATAATA
1 TTATTTAATTAATTTTATAATA
7388319 TT
1 TT
7388321 TTAATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATTTAATTAATTTTATAATA
Found at i:7388313 original size:20 final size:22
Alignment explanation
Indices: 7388288--7388340 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
7388278 TTTTATTAAT
7388288 ATTTTAATATTA-TTTAAT-TA
1 ATTTTAATATTATTTTAATGTA
* *
7388308 ATTTT-ATAATATTTTAATGTT
1 ATTTTAATATTATTTTAATGTA
*
7388329 ATTTTAAAATTA
1 ATTTTAATATTA
7388341 CAAGTGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 6 0.23
22 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAATATTATTTTAATGTA
Found at i:7388320 original size:30 final size:31
Alignment explanation
Indices: 7388272--7388332 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
7388262 TTCAGTAGTA
*
7388272 AATTTATTTTATTAATATTTTAATATTATTT
1 AATTAATTTTATTAATATTTTAATATTATTT
*
7388303 AATTAATTTTA-TAATATTTTAATGTTATTT
1 AATTAATTTTATTAATATTTTAATATTATTT
7388333 TAAAATTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (31 bp):
AATTAATTTTATTAATATTTTAATATTATTT
Found at i:7388333 original size:11 final size:11
Alignment explanation
Indices: 7388275--7388340 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 11
7388265 AGTAGTAAAT
*
7388275 TTATTTTATTA
1 TTATTTTAATA
*
7388286 ATATTTTAATA
1 TTATTTTAATA
7388297 TTA-TTTAAT-
1 TTATTTTAATA
*
7388306 TAATTTT-ATA
1 TTATTTTAATA
* *
7388316 ATATTTTAATG
1 TTATTTTAATA
*
7388327 TTATTTTAAAA
1 TTATTTTAATA
7388338 TTA
1 TTA
7388341 CAAGTGAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
9 4 0.10
10 14 0.33
11 24 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:7388471 original size:11 final size:11
Alignment explanation
Indices: 7388450--7388530 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
7388440 TAATAGTATT
7388450 ATATT-TTTTA
1 ATATTATTTTA
7388460 ATATTATTTTA
1 ATATTATTTTA
* *
7388471 ATATTATGTAA
1 ATATTATTTTA
* * * *
7388482 ATAATGTTATC
1 ATATTATTTTA
7388493 ATATTTCATTTT-
1 ATA-TT-ATTTTA
*
7388505 -TATTTTTTTA
1 ATATTATTTTA
*
7388515 ATATTATTTCA
1 ATATTATTTTA
7388526 ATATT
1 ATATT
7388531 TAATATTAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
9 4 0.08
10 7 0.13
11 37 0.71
12 1 0.02
13 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (11 bp):
ATATTATTTTA
Found at i:7388534 original size:18 final size:19
Alignment explanation
Indices: 7388511--7388551 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
7388501 TTTTTATTTT
7388511 TTTAATATT-ATTTCAAT-A
1 TTTAATATTAATTT-AATAA
7388529 TTTAATATTAATTTAATAA
1 TTTAATATTAATTTAATAA
7388548 TTTA
1 TTTA
7388552 TTAACATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATATTAATTTAATAA
Found at i:7388627 original size:30 final size:29
Alignment explanation
Indices: 7388591--7388713 Score: 110
Period size: 30 Copynumber: 4.3 Consensus size: 29
7388581 TTTACTGTTA
7388591 AATATTATTTTAATAATATTATTATATTAG
1 AATATTATTTTAATAATATTA-TATATTAG
* *
7388621 AATATTATTTTAATAATACTATATATGA-
1 AATATTATTTTAATAATATTATATATTAG
* * *
7388649 AATATTATTTTAAT-GTTTTAATATTATTTG
1 AATATTATTTTAATAATATT-ATA-TATTAG
* * *
7388679 AATATTA-TTTAATTA-ATTATACATTAT
1 AATATTATTTTAATAATATTATATATTAG
*
7388706 AATTTTAT
1 AATATTAT
7388714 CAAATGAAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
27 11 0.15
28 20 0.27
29 17 0.23
30 27 0.36
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (29 bp):
AATATTATTTTAATAATATTATATATTAG
Found at i:7396398 original size:26 final size:28
Alignment explanation
Indices: 7396369--7396420 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
7396359 TTACAAATAA
*
7396369 ATTTTTTTTAAAAATT-AT-TTTTTTGT
1 ATTTATTTTAAAAATTAATATTTTTTGT
7396395 ATTTATTTTAAAAATTAATATTTTTT
1 ATTTATTTTAAAAATTAATATTTTTT
7396421 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 2 0.09
28 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
ATTTATTTTAAAAATTAATATTTTTTGT
Found at i:7396622 original size:11 final size:11
Alignment explanation
Indices: 7396606--7396640 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
7396596 TTTTGTTTTA
7396606 TATTTTTATTT
1 TATTTTTATTT
*
7396617 TATTTTTATGT
1 TATTTTTATTT
7396628 TATTTTTTATTT
1 TA-TTTTTATTT
7396640 T
1 T
7396641 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:7396656 original size:8 final size:7
Alignment explanation
Indices: 7396577--7396658 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
7396567 TCCTTTCTTC
7396577 ATTTTTT
1 ATTTTTT
*
7396584 ATTTTTCG
1 ATTTTT-T
*
7396592 ACTTTTT
1 ATTTTTT
*
7396599 -TGTTTT
1 ATTTTTT
7396605 ATATTTTT
1 AT-TTTTT
7396613 ATTTTATT
1 ATTTT-TT
7396621 -TTTATGTT
1 ATTT-T-TT
7396629 ATTTTTT
1 ATTTTTT
7396636 ATTTTTT
1 ATTTTTT
* *
7396643 A-ATTTA
1 ATTTTTT
7396649 ATTTTTT
1 ATTTTTT
7396656 ATT
1 ATT
7396659 AAATAAATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
6 8 0.14
7 29 0.51
8 17 0.30
9 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:7397369 original size:14 final size:14
Alignment explanation
Indices: 7397337--7397397 Score: 70
Period size: 15 Copynumber: 4.3 Consensus size: 14
7397327 TCTTTACTTT
7397337 TTATTTTA-TTTTA
1 TTATTTTATTTTTA
7397350 TTATTTTATTTTTA
1 TTATTTTATTTTTA
** *
7397364 AAATTTTTATTTTTT
1 TTA-TTTTATTTTTA
7397379 TTATTTTATTTTTTA
1 TTATTTTA-TTTTTA
7397394 TTAT
1 TTAT
7397398 ATAAATTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 8 0.21
14 11 0.28
15 20 0.51
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:7398568 original size:14 final size:15
Alignment explanation
Indices: 7398539--7398571 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7398529 ATATATGTCG
7398539 TTTTATTTATTAAAT
1 TTTTATTTATTAAAT
*
7398554 TTTTATTT-TTTAAT
1 TTTTATTTATTAAAT
7398568 TTTT
1 TTTT
7398572 GTTTCAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTTATTAAAT
Found at i:7399538 original size:21 final size:21
Alignment explanation
Indices: 7399504--7399543 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7399494 TTACTTTTTC
*
7399504 TTTTAAAAAAATAATAAAACT
1 TTTTAAAAAAATAAAAAAACT
**
7399525 TTTTAAAATTATAAAAAAA
1 TTTTAAAAAAATAAAAAAA
7399544 ATCATATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTTAAAAAAATAAAAAAACT
Found at i:7400552 original size:17 final size:19
Alignment explanation
Indices: 7400530--7400571 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
7400520 AGTTGACACT
7400530 TTTTTTTTTTGCT-TTT-C
1 TTTTTTTTTTGCTATTTAC
7400547 TTTTTTTTTTGCTATTTAC
1 TTTTTTTTTTGCTATTTAC
7400566 TTTTTT
1 TTTTTT
7400572 AAAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.57
18 3 0.13
19 7 0.30
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTTGCTATTTAC
Found at i:7404468 original size:61 final size:62
Alignment explanation
Indices: 7404403--7404576 Score: 160
Period size: 61 Copynumber: 2.9 Consensus size: 62
7404393 CCATTCTAAT
* * * * *
7404403 ATAATTATAGAAATACTCATTTTCTCATAATTAACCAAAATTATTATATTATCA-TTTTATC
1 ATAATTATAAAAATACGCATCTTATCATAATTAACCAAAATTATTATAATATCATTTTTATC
* * * * * *
7404464 ATAATTATAAAAATGCGCCTCTTATCATAATTTATCAAAATTATTATAATGTCATTTTTATT
1 ATAATTATAAAAATACGCATCTTATCATAATTAACCAAAATTATTATAATATCATTTTTATC
* * * *
7404526 ATAATTA-CAAAATGC-CATTCTTATCATTACTT-ACCAAAATTACTAT-ATATC
1 ATAATTATAAAAATACGCA-TCTTATCA-TAATTAACCAAAATTATTATAATATC
7404577 TCTCGTACTA
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
60 5 0.05
61 71 0.76
62 17 0.18
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (62 bp):
ATAATTATAAAAATACGCATCTTATCATAATTAACCAAAATTATTATAATATCATTTTTATC
Found at i:7405262 original size:29 final size:29
Alignment explanation
Indices: 7405230--7405290 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
7405220 AAAGTTTGTC
7405230 AATTAAA-ATAAATTAAAAAT-CATACATTT
1 AATTAAAGATAAA-TAAAAATACA-ACATTT
*
7405259 AATTAAAGGATTAATAAAAATACAACATTT
1 AATTAAA-GATAAATAAAAATACAACATTT
7405289 AA
1 AA
7405291 AATATAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.25
30 15 0.54
31 6 0.21
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (29 bp):
AATTAAAGATAAATAAAAATACAACATTT
Found at i:7406480 original size:22 final size:20
Alignment explanation
Indices: 7406434--7406480 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
7406424 TTAATATTCA
**
7406434 TAAATTATTAAAATTTAATT
1 TAAATTATTAAAATCGAATT
7406454 T-AATTATTATTAAATCGAATT
1 TAAATTATTA--AAATCGAATT
7406475 TAAATT
1 TAAATT
7406481 TAAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 9 0.41
22 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAATTATTAAAATCGAATT
Found at i:7406577 original size:10 final size:10
Alignment explanation
Indices: 7406562--7406591 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7406552 ATTTAATTAT
7406562 TATATTTTAA
1 TATATTTTAA
7406572 TATATTTTAA
1 TATATTTTAA
7406582 T-TATTTTAA
1 TATATTTTAA
7406591 T
1 T
7406592 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:7408185 original size:22 final size:23
Alignment explanation
Indices: 7408137--7408182 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
7408127 ATTATAATAT
7408137 ATAAAATATTTTTATATTTTTAA
1 ATAAAATATTTTTATATTTTTAA
7408160 ATAAAATAATTTTTA-ATTTTTAA
1 ATAAAAT-ATTTTTATATTTTTAA
7408183 TAATATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAAAATATTTTTATATTTTTAA
Found at i:7408245 original size:20 final size:20
Alignment explanation
Indices: 7408213--7408250 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7408203 TAAAATTACT
7408213 AAATAATAATAATTGTTAATC
1 AAATAATAATAATT-TTAATC
7408234 AAATAA-AATAATTTTAA
1 AAATAATAATAATTTTAA
7408251 ATTATAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATAATAATAATTTTAATC
Found at i:7409769 original size:14 final size:14
Alignment explanation
Indices: 7409750--7409779 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7409740 TTGAACTCAA
*
7409750 TTAAATTTTAATTT
1 TTAAATTTAAATTT
7409764 TTAAATTTAAATTT
1 TTAAATTTAAATTT
7409778 TT
1 TT
7409780 TTCGAGATAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAAATTTAAATTT
Found at i:7410100 original size:32 final size:32
Alignment explanation
Indices: 7410059--7410120 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
7410049 ATTATTTGAG
7410059 TTTTAATTTGATTCAATAATAATTAAATTATA
1 TTTTAATTTGATTCAATAATAATTAAATTATA
**
7410091 TTTTAATTTGATTCGTTAATAATTAAATTA
1 TTTTAATTTGATTCAATAATAATTAAATTA
7410121 AATTCAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (32 bp):
TTTTAATTTGATTCAATAATAATTAAATTATA
Found at i:7410135 original size:26 final size:26
Alignment explanation
Indices: 7410106--7410155 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7410096 ATTTGATTCG
*
7410106 TTAATAATTAAATTAAATTCAAATAA
1 TTAATAATCAAATTAAATTCAAATAA
*
7410132 TTAATAATCGAATTAAATTCAAAT
1 TTAATAATCAAATTAAATTCAAAT
7410156 GTTTTTGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAATAATCAAATTAAATTCAAATAA
Found at i:7411032 original size:63 final size:62
Alignment explanation
Indices: 7410964--7411094 Score: 162
Period size: 61 Copynumber: 2.1 Consensus size: 62
7410954 CGTTTTTTTC
* *
7410964 AAATAATTCC-CTTTAAAAAATATAAGAGGATTATTTGAGGTA-TTTTTGAATT-AAAAATGCTT
1 AAATAATTCCTCTTT--AAAATATAAGAGGATTATTTAAGGTATTTTTTG--TTCAAAAATGCCT
7411026 T
62 T
**
7411027 AAATAA-TCCTCTTTAAAATATATTAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTT
1 AAATAATTCCTCTTTAAAATATAAGAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTT
7411088 AAATAAT
1 AAATAAT
7411095 CATTTTCAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
60 2 0.03
61 39 0.65
62 9 0.15
63 10 0.17
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (62 bp):
AAATAATTCCTCTTTAAAATATAAGAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTT
Found at i:7411057 original size:61 final size:61
Alignment explanation
Indices: 7410980--7411095 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
7410970 TTCCCTTTAA
* *
7410980 AAAATATAAGAGGATTATTTGAGGTA-TTTTTGAATT-AAAAATGCTTTAAATAATCCTCTTT
1 AAAATATAAGAGGATTATTTAAGGTATTTTTTG--TTCAAAAATGCCTTAAATAATCCTCTTT
**
7411041 AAAATATATTAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTTAAATAATC
1 AAAATATAAGAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTTAAATAATC
7411096 ATTTTCAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 2 0.04
61 41 0.84
62 6 0.12
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (61 bp):
AAAATATAAGAGGATTATTTAAGGTATTTTTTGTTCAAAAATGCCTTAAATAATCCTCTTT
Found at i:7411144 original size:38 final size:39
Alignment explanation
Indices: 7411097--7411172 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 39
7411087 TAAATAATCA
*
7411097 TTTTCAATTTTTTGAAAG-ACATTATTTAAGGTGTTTTTC
1 TTTTCAATTTTTTG-AAGCACATTATTTAAGGCGTTTTTC
*
7411136 TTTT-AATTTTTTGAAGCACCTTATTTAAGGCGTTTTT
1 TTTTCAATTTTTTGAAGCACATTATTTAAGGCGTTTTT
7411173 GATTAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 3 0.09
38 27 0.79
39 4 0.12
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (39 bp):
TTTTCAATTTTTTGAAGCACATTATTTAAGGCGTTTTTC
Found at i:7414275 original size:106 final size:106
Alignment explanation
Indices: 7414090--7414298 Score: 382
Period size: 106 Copynumber: 2.0 Consensus size: 106
7414080 CATGGCCACT
7414090 CATGCCCATCTCTGTCAAAGATATGATTCCTGCAGCTGATAATTAAATTAGCTCTTACTTTAGTT
1 CATGCCCATCTCTGTCAAAGATATGATTCCTGCAGCTGATAATTAAATTAGCTCTTACTTTAGTT
* * * *
7414155 AAGTGTGTGTGTGTGTGTGTGTGTATATATATATATATATA
66 AAGTGTGTGTGTGTGTATATATATATATATATATATATATA
7414196 CATGCCCATCTCTGTCAAAGATATGATTCCTGCAGCTGATAATTAAATTAGCTCTTACTTTAGTT
1 CATGCCCATCTCTGTCAAAGATATGATTCCTGCAGCTGATAATTAAATTAGCTCTTACTTTAGTT
7414261 AAGTGTGTGTGTGTGTATATATATATATATATATATAT
66 AAGTGTGTGTGTGTGTATATATATATATATATATATAT
7414299 GTAAAATAGT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (106 bp):
CATGCCCATCTCTGTCAAAGATATGATTCCTGCAGCTGATAATTAAATTAGCTCTTACTTTAGTT
AAGTGTGTGTGTGTGTATATATATATATATATATATATATA
Found at i:7416114 original size:16 final size:17
Alignment explanation
Indices: 7416077--7416118 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
7416067 AAGACAGACT
7416077 TTTTTTCTGGAATACTA
1 TTTTTTCTGGAATACTA
7416094 TTTTTTCTGGAATACTA
1 TTTTTTCTGGAATACTA
7416111 TTTTTTCT
1 TTTTTTCT
7416119 CTTCCTCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (17 bp):
TTTTTTCTGGAATACTA
Found at i:7416307 original size:17 final size:18
Alignment explanation
Indices: 7416271--7416312 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7416261 TAAAAAAAAT
7416271 AAAAAA-TCAAATAGCCTA
1 AAAAAAGTCAAATAG-CTA
7416289 AAAAAAGTCAAATAG-TA
1 AAAAAAGTCAAATAGCTA
7416306 AAAAAAG
1 AAAAAAG
7416313 AAAAAAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 6 0.26
19 8 0.35
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (18 bp):
AAAAAAGTCAAATAGCTA
Found at i:7417289 original size:42 final size:42
Alignment explanation
Indices: 7417232--7417312 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
7417222 AGTTCTCATA
** *
7417232 TTTTTTAAGAAAACACTTTTATTACTTATTCTCCTATTTCTT
1 TTTTTTAAGAAAACACTTCCACTACTTATTCTCCTATTTCTT
*
7417274 TTTTTTAA-AGAAACACTTCCACTACTTATTCTCTTATTT
1 TTTTTTAAGA-AAACACTTCCACTACTTATTCTCCTATTT
7417313 TTTCTAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTTTTAAGAAAACACTTCCACTACTTATTCTCCTATTTCTT
Found at i:7417315 original size:37 final size:36
Alignment explanation
Indices: 7417266--7417364 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 36
7417256 CTTATTCTCC
*
7417266 TATT-TCTT-TTTTTTAAAGAAACACTTCCACTACT
1 TATTCTCTTATTTTTTTAAGAAACACTTCCACTACT
* *
7417300 TATTCTCTTATTTTTTCT-AGAAATCACTTTCACTATT
1 TATTCTCTTATTTTTT-TAAGAAA-CACTTCCACTACT
* *
7417337 TATTCTTTTTTTTTTTTAGAGAAACACT
1 TATTCTCTTATTTTTTTA-AGAAACACT
7417365 AATGTTATAG
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
34 4 0.07
35 4 0.07
36 12 0.22
37 29 0.54
38 5 0.09
ACGTcount: A:0.26, C:0.17, G:0.04, T:0.53
Consensus pattern (36 bp):
TATTCTCTTATTTTTTTAAGAAACACTTCCACTACT
Found at i:7417752 original size:40 final size:40
Alignment explanation
Indices: 7417708--7417889 Score: 165
Period size: 40 Copynumber: 4.5 Consensus size: 40
7417698 ATTTAAGATG
* * *
7417708 TTTCAGTGAATATTATTTTATGAAACAGGTGATAAAACTA
1 TTTCAGTGAAGATTATTTTATGAAACATGTGATAAGACTA
* * *
7417748 TTTCAGTGTGAAGGTTATTTTAT-AGAACATGTGTTAAGATTA
1 TTTCA--GTGAAGATTATTTTATGA-AACATGTGATAAGACTA
* *
7417790 TTTCAGTGAAGATTATTTTATGGAACAAGTGATAAGACT-
1 TTTCAGTGAAGATTATTTTATGAAACATGTGATAAGACTA
* * * *
7417829 GTTCTAAT-AAAAGTTATTTTAAGAAACATGTGATAAGACTA
1 TTTC-AGTGAAGA-TTATTTTATGAAACATGTGATAAGACTA
*
7417870 TTTCAATGAATG-TTATTTTA
1 TTTCAGTGAA-GATTATTTTA
7417890 GGGAACAACT
Statistics
Matches: 114, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
39 6 0.05
40 70 0.61
41 6 0.05
42 32 0.28
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (40 bp):
TTTCAGTGAAGATTATTTTATGAAACATGTGATAAGACTA
Found at i:7417873 original size:80 final size:81
Alignment explanation
Indices: 7417708--7417897 Score: 208
Period size: 80 Copynumber: 2.3 Consensus size: 81
7417698 ATTTAAGATG
* * * * * *
7417708 TTTCAGTGAATATTATTTTATGAAACAGGTGATAAAACTATTTCAGTGTGAAGGTTATTTTATAG
1 TTTCAGTGAAGATTATTTTATGGAACAAGTGATAAAACTATTTCAG-ATAAAAGTTATTTTATAG
* *
7417773 AACATGTGTTAAGATTA
65 AACATGTGATAAGACTA
* *
7417790 TTTCAGTGAAGATTATTTTATGGAACAAGTGATAAGACT-GTTCTA-ATAAAAGTTATTTTA-AG
1 TTTCAGTGAAGATTATTTTATGGAACAAGTGATAAAACTATTTC-AGATAAAAGTTATTTTATAG
7417852 AAACATGTGATAAGACTA
65 -AACATGTGATAAGACTA
* *
7417870 TTTCAATGAATG-TTATTTTAGGGAACAA
1 TTTCAGTGAA-GATTATTTTATGGAACAA
7417898 CTATTTATAG
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 2 0.02
80 51 0.55
81 4 0.04
82 36 0.39
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (81 bp):
TTTCAGTGAAGATTATTTTATGGAACAAGTGATAAAACTATTTCAGATAAAAGTTATTTTATAGA
ACATGTGATAAGACTA
Found at i:7418059 original size:15 final size:14
Alignment explanation
Indices: 7418039--7418091 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
7418029 TTTGAAGCAC
7418039 AAGTTACTTCACTAA
1 AAGTTACTTCAC-AA
7418054 AAGTTA-TTCTACAA
1 AAGTTACTTC-ACAA
*
7418068 AAGATACTTCACCAA
1 AAGTTACTTCA-CAA
*
7418083 ATGTTACTT
1 AAGTTACTT
7418092 TACTGACAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (14 bp):
AAGTTACTTCACAA
Found at i:7419111 original size:14 final size:14
Alignment explanation
Indices: 7419075--7419113 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
7419065 TTTAATATAA
7419075 ATATAAAATTAAAT
1 ATATAAAATTAAAT
7419089 ATAT---A-TAAAT
1 ATATAAAATTAAAT
7419099 ATATAAAATTAAAT
1 ATATAAAATTAAAT
7419113 A
1 A
7419114 ATTAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
13 1 0.05
14 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAAATTAAAT
Found at i:7427288 original size:10 final size:10
Alignment explanation
Indices: 7427273--7427297 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7427263 ATTTCTTGCA
7427273 AGCTTTTCTT
1 AGCTTTTCTT
7427283 AGCTTTTCTT
1 AGCTTTTCTT
7427293 AGCTT
1 AGCTT
7427298 CTGCGGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.56
Consensus pattern (10 bp):
AGCTTTTCTT
Found at i:7429633 original size:14 final size:14
Alignment explanation
Indices: 7429614--7429640 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7429604 CATATCATAT
7429614 AATTTTATAATTAA
1 AATTTTATAATTAA
7429628 AATTTTATAATTA
1 AATTTTATAATTA
7429641 TTTATTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATTTTATAATTAA
Found at i:7430025 original size:17 final size:18
Alignment explanation
Indices: 7430003--7430051 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
7429993 TTTTTTGTAA
*
7430003 TTTATTAAATTAATTA-T
1 TTTATTAAATTAATGATT
7430020 TTTATTATTAATT-ATGATT
1 TTTATTA--AATTAATGATT
7430039 TTTATTAAATTAA
1 TTTATTAAATTAA
7430052 AATATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 12 0.44
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTATTAAATTAATGATT
Found at i:7430588 original size:28 final size:28
Alignment explanation
Indices: 7430557--7430612 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7430547 GCCAAACAAG
7430557 AACCAACAAAACAA-GAGAAAATCAAACA
1 AACCAACAAAA-AATGAGAAAATCAAACA
7430585 AACCAACAAAAAATGAGAAAATCAAACA
1 AACCAACAAAAAATGAGAAAATCAAACA
7430613 GAACAGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.68, C:0.20, G:0.07, T:0.05
Consensus pattern (28 bp):
AACCAACAAAAAATGAGAAAATCAAACA
Found at i:7431343 original size:10 final size:10
Alignment explanation
Indices: 7431324--7431414 Score: 71
Period size: 10 Copynumber: 9.2 Consensus size: 10
7431314 GGTGTTCTTC
7431324 AAATTTTTAA
1 AAATTTTTAA
*
7431334 AAAATTTT-A
1 AAATTTTTAA
**
7431343 AAATTTTTTT
1 AAATTTTTAA
*
7431353 GAATTTTTATA
1 AAATTTTTA-A
7431364 AAA-TTTTAA
1 AAATTTTTAA
*
7431373 AACTTTTT-A
1 AAATTTTTAA
*
7431382 GAATTTTTCAA
1 AAATTTTT-AA
*
7431393 AAAATTTTAA
1 AAATTTTTAA
*
7431403 AACTTTTTAA
1 AAATTTTTAA
7431413 AA
1 AA
7431415 TCTTTTTGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
9 18 0.29
10 35 0.56
11 9 0.15
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (10 bp):
AAATTTTTAA
Found at i:7431367 original size:29 final size:29
Alignment explanation
Indices: 7431325--7431420 Score: 138
Period size: 29 Copynumber: 3.2 Consensus size: 29
7431315 GTGTTCTTCA
* *
7431325 AATTTTTAAAAAATTTTAAAATTTTTTTG
1 AATTTTTAAAAAATTTTAAAACTTTTTAG
*
7431354 AATTTTTATAAAATTTTAAAACTTTTTAG
1 AATTTTTAAAAAATTTTAAAACTTTTTAG
*
7431383 AATTTTTCAAAAAATTTTAAAACTTTTTAA
1 AATTTTT-AAAAAATTTTAAAACTTTTTAG
7431413 AATCTTTT
1 AAT-TTTT
7431421 TGAAATTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 33 0.55
30 23 0.38
31 4 0.07
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (29 bp):
AATTTTTAAAAAATTTTAAAACTTTTTAG
Found at i:7431420 original size:10 final size:9
Alignment explanation
Indices: 7431324--7431430 Score: 70
Period size: 10 Copynumber: 10.9 Consensus size: 9
7431314 GGTGTTCTTC
7431324 AAATTTTTAA
1 AAATTTTT-A
*
7431334 AAAATTTTA
1 AAATTTTTA
*
7431343 AAATTTTTTT
1 AAA-TTTTTA
*
7431353 GAATTTTTA
1 AAATTTTTA
*
7431362 TAAAATTTTA
1 -AAATTTTTA
7431372 AAACTTTTTA
1 AAA-TTTTTA
*
7431382 GAATTTTTCAA
1 AAATTTTT--A
*
7431393 AAAATTTTA
1 AAATTTTTA
7431402 AAACTTTTTA
1 AAA-TTTTTA
*
7431412 AAATCTTTTTG
1 AAA--TTTTTA
7431423 AAATTTTT
1 AAATTTTT
7431431 TTTAATAATG
Statistics
Matches: 77, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
9 26 0.34
10 35 0.45
11 16 0.21
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (9 bp):
AAATTTTTA
Found at i:7431498 original size:13 final size:13
Alignment explanation
Indices: 7431466--7431499 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
7431456 TATTTTTTTA
7431466 ATTTATA-TAAAT
1 ATTTATATTAAAT
7431478 ATTT-TATTAAAT
1 ATTTATATTAAAT
7431490 ATTTATATTA
1 ATTTATATTA
7431500 CATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 13 0.65
13 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTATATTAAAT
Found at i:7435318 original size:2 final size:2
Alignment explanation
Indices: 7435313--7435341 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7435303 CGCGTGTATG
7435313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7435342 TATGAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7437107 original size:28 final size:30
Alignment explanation
Indices: 7437062--7437119 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
7437052 ATAACTCAAA
7437062 TATTTTATTTAAAAAAGAT-AT-TATAGTT
1 TATTTTATTTAAAAAAGATAATATATAGTT
*
7437090 TATTCTTATTT-AAGAAGATAATATATAGTT
1 TATT-TTATTTAAAAAAGATAATATATAGTT
7437120 GAGCATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 11 0.42
29 8 0.31
30 7 0.27
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (30 bp):
TATTTTATTTAAAAAAGATAATATATAGTT
Found at i:7437944 original size:20 final size:22
Alignment explanation
Indices: 7437887--7437944 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 22
7437877 TAGATAATTG
* * *
7437887 ATAACTTAATAATTATTCATTA
1 ATAACTTAATAAGTAATCAGTA
*
7437909 AAAACTTAA-AAGTAATCAGT-
1 ATAACTTAATAAGTAATCAGTA
7437929 ATAACTTAATAA-TAAT
1 ATAACTTAATAAGTAAT
7437945 TATCGATACC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 12 0.40
21 10 0.33
22 8 0.27
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAAGTAATCAGTA
Found at i:7437957 original size:21 final size:22
Alignment explanation
Indices: 7437933--7437974 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7437923 ATCAGTATAA
*
7437933 CTTAATAAT-AATTATCGATAC
1 CTTAATAATAAATTATAGATAC
*
7437954 CTTAATAGTAAATTATAGATA
1 CTTAATAATAAATTATAGATA
7437975 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
CTTAATAATAAATTATAGATAC
Found at i:7438062 original size:22 final size:22
Alignment explanation
Indices: 7438037--7438106 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
7438027 TCAATAATTG
7438037 ATAACTTAGTAACAAATCAATA
1 ATAACTTAGTAACAAATCAATA
* * *
7438059 ATAACATAATAATAAAT-ACATA
1 ATAACTTAGTAACAAATCA-ATA
*
7438081 ATAACTTAGT-ACTAAATCAATT
1 ATAACTTAGTAAC-AAATCAATA
7438103 ATAA
1 ATAA
7438107 TATAATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
21 2 0.05
22 35 0.92
23 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (22 bp):
ATAACTTAGTAACAAATCAATA
Found at i:7438135 original size:44 final size:44
Alignment explanation
Indices: 7438039--7438149 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 44
7438029 AATAATTGAT
* *
7438039 AACTTAGTAAC-AAATCAATAATAACATAATAATAAATACATAAT
1 AACTTAGT-ACTAAATCAATTATAACATAATAATAAATACATAAC
* * * *
7438083 AACTTAGTACTAAATCAATTATAATATAATTATAAATGCTTAAC
1 AACTTAGTACTAAATCAATTATAACATAATAATAAATACATAAC
* *
7438127 AA-TATAGTAGTAAATCAAATATA
1 AACT-TAGTACTAAATCAATTATA
7438150 TTTTAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
43 3 0.05
44 54 0.95
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (44 bp):
AACTTAGTACTAAATCAATTATAACATAATAATAAATACATAAC
Found at i:7439932 original size:22 final size:19
Alignment explanation
Indices: 7439907--7439963 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
7439897 CATAATTGAT
7439907 AATTTAATAGTTAATCATTAAA
1 AATTTAATAG-TAA--ATTAAA
* *
7439929 AATTTAAAAGTAAATTAAT
1 AATTTAATAGTAAATTAAA
*
7439948 AATTTAATAATAAATT
1 AATTTAATAGTAAATT
7439964 CATGATAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 19 0.61
21 3 0.10
22 9 0.29
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTTAATAGTAAATTAAA
Found at i:7439951 original size:19 final size:19
Alignment explanation
Indices: 7439900--7439963 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
7439890 AGTAGTACAT
* *
7439900 AATTGATAATTTAATAGTTA
1 AATTAATAATTTAAAAG-TA
*
7439920 ATCATTAAAAATTTAAAAGTA
1 A--ATTAATAATTTAAAAGTA
7439941 AATTAATAATTTAATAA-TA
1 AATTAATAATTTAA-AAGTA
7439960 AATT
1 AATT
7439964 CATGATAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 18 0.49
20 3 0.08
21 3 0.08
22 13 0.35
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (19 bp):
AATTAATAATTTAAAAGTA
Done.