Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009077.1 Hibiscus syriacus cultivar Beakdansim tig00112516_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: 204574
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:3249 original size:13 final size:14
Alignment explanation
Indices: 3220--3256 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
3210 GTCAAAGGAA
*
3220 GTCAACAGTCAACG
1 GTCAACGGTCAACG
3234 GTCAACGGTC-ACG
1 GTCAACGGTCAACG
3247 GTCAACGGTC
1 GTCAACGGTC
3257 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:3254 original size:7 final size:7
Alignment explanation
Indices: 3220--3256 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
3210 GTCAAAGGAA
*
3220 GTCAACA
1 GTCAACG
3227 GTCAACG
1 GTCAACG
3234 GTCAACG
1 GTCAACG
3241 GTC-ACG
1 GTCAACG
3247 GTCAACG
1 GTCAACG
3254 GTC
1 GTC
3257 GGGTCGGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:3263 original size:5 final size:5
Alignment explanation
Indices: 3253--3290 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
3243 CACGGTCAAC
* *
3253 GGTCG GGTCG GGTCG GGTCG GGTC- AGTCG GGTTG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
3291 AGACTGGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 3 0.11
5 25 0.89
ACGTcount: A:0.03, C:0.18, G:0.55, T:0.24
Consensus pattern (5 bp):
GGTCG
Found at i:3283 original size:14 final size:14
Alignment explanation
Indices: 3253--3292 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
3243 CACGGTCAAC
*
3253 GGTCGGGTCGGGTCG
1 GGTCGGGTC-AGTCG
3268 GGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
*
3282 GGTTGGGTCAG
1 GGTCGGGTCAG
3293 ACTGGTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.05, C:0.17, G:0.55, T:0.23
Consensus pattern (14 bp):
GGTCGGGTCAGTCG
Found at i:9036 original size:21 final size:21
Alignment explanation
Indices: 9008--9091 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
8998 GAGATATGAT
*
9008 TATGAAGAGATGTGATGTTAA
1 TATGAAGAGATGTGATATTAA
* * * *
9029 TGTGAAGAGATATAATGTTAA
1 TATGAAGAGATGTGATATTAA
* * *
9050 CATGAACAAATGTGATATTAA
1 TATGAAGAGATGTGATATTAA
9071 TATGAAGAGATGTGATATTAA
1 TATGAAGAGATGTGATATTAA
9092 CATAAAATTA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (21 bp):
TATGAAGAGATGTGATATTAA
Found at i:9298 original size:21 final size:19
Alignment explanation
Indices: 9267--9310 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
9257 GACGGGTGTG
*
9267 GGGTGCACACACATAATGC
1 GGGTGAACACACATAATGC
9286 GGGTGAACACACATAATGC
1 GGGTGAACACACATAATGC
9305 GGGTGA
1 GGGTGA
9311 CGTGAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (19 bp):
GGGTGAACACACATAATGC
Found at i:9525 original size:21 final size:21
Alignment explanation
Indices: 9496--9639 Score: 153
Period size: 21 Copynumber: 6.9 Consensus size: 21
9486 GATGAGATAT
*
9496 ATCTCTTCATATTAACATAAC
1 ATCTCTTCATATTAACATCAC
* * *
9517 ATCTATTCATGTTAATATCAC
1 ATCTCTTCATATTAACATCAC
*
9538 ATCTCTTCACATTAACATCAC
1 ATCTCTTCATATTAACATCAC
* * *
9559 ATTTCTTCCTATTAATATCAC
1 ATCTCTTCATATTAACATCAC
* *
9580 ATCTCTTCATGTTAACATAAC
1 ATCTCTTCATATTAACATCAC
* * * *
9601 ATATTTTCACATTAACATCAT
1 ATCTCTTCATATTAACATCAC
*
9622 ATCTCTTCATATTCACAT
1 ATCTCTTCATATTAACAT
9640 TTCATTAATG
Statistics
Matches: 96, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 96 1.00
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.41
Consensus pattern (21 bp):
ATCTCTTCATATTAACATCAC
Found at i:9555 original size:42 final size:42
Alignment explanation
Indices: 9496--9639 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
9486 GATGAGATAT
* *
9496 ATCTCTTCATATTAACATAACATCTATTCATGTTAATATCAC
1 ATCTCTTCATATTAACATAACATATATTCATATTAATATCAC
* * * * *
9538 ATCTCTTCACATTAACATCACATTTCTTCCTATTAATATCAC
1 ATCTCTTCATATTAACATAACATATATTCATATTAATATCAC
* * * * *
9580 ATCTCTTCATGTTAACATAACATATTTTCACATTAACATCAT
1 ATCTCTTCATATTAACATAACATATATTCATATTAATATCAC
*
9622 ATCTCTTCATATTCACAT
1 ATCTCTTCATATTAACAT
9640 TTCATTAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.41
Consensus pattern (42 bp):
ATCTCTTCATATTAACATAACATATATTCATATTAATATCAC
Found at i:9610 original size:63 final size:63
Alignment explanation
Indices: 9496--9639 Score: 189
Period size: 63 Copynumber: 2.3 Consensus size: 63
9486 GATGAGATAT
* * *
9496 ATCTCTTCATATTAACATAACATCTATTCATGTTAATATCACATCTCTTCACATTAACATCAC
1 ATCTCTTCATATTAACATAACATCTATTCATGTTAACATAACATATCTTCACATTAACATCAC
* * * * * * *
9559 ATTTCTTCCTATTAATATCACATCTCTTCATGTTAACATAACATATTTTCACATTAACATCAT
1 ATCTCTTCATATTAACATAACATCTATTCATGTTAACATAACATATCTTCACATTAACATCAC
*
9622 ATCTCTTCATATTCACAT
1 ATCTCTTCATATTAACAT
9640 TTCATTAATG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.41
Consensus pattern (63 bp):
ATCTCTTCATATTAACATAACATCTATTCATGTTAACATAACATATCTTCACATTAACATCAC
Found at i:11473 original size:73 final size:73
Alignment explanation
Indices: 11354--11495 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
11344 CTGTTGCGGA
* * *
11354 CCCTACATGTTTTCATATTGAATACTGTAATGTTATGGACCATATGTTCATATGATAATATATTA
1 CCCTACATGTTTGCATACTGAATACTGTAATGTTATGGACCATATGTTCATATGATAAAATATTA
11419 TGTACGTC
66 TGTACGTC
* * * * *
11427 CCCTACATGTTTGCATGCTGAATATTGTAATGTTATGGACTATATGTTCATCTGATAAAATATTT
1 CCCTACATGTTTGCATACTGAATACTGTAATGTTATGGACCATATGTTCATATGATAAAATATTA
11492 TGTA
66 TGTA
11496 ATGTTATGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (73 bp):
CCCTACATGTTTGCATACTGAATACTGTAATGTTATGGACCATATGTTCATATGATAAAATATTA
TGTACGTC
Found at i:11967 original size:30 final size:30
Alignment explanation
Indices: 11926--12018 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
11916 TGCTAGTGCT
*
11926 GAAAGTGGTGGTGTAGAAATGGATAATGCG
1 GAAATTGGTGGTGTAGAAATGGATAATGCG
* * *
11956 GAAATTGGTGGTGTAGAAATAGATACTGCT
1 GAAATTGGTGGTGTAGAAATGGATAATGCG
* * * * * *
11986 GAAATGGGTAGTGTTGAAAGGGACAATGAG
1 GAAATTGGTGGTGTAGAAATGGATAATGCG
12016 GAA
1 GAA
12019 GATAAGTCTA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (30 bp):
GAAATTGGTGGTGTAGAAATGGATAATGCG
Found at i:12949 original size:2 final size:2
Alignment explanation
Indices: 12944--12972 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12934 TATATGTGTG
12944 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
12973 TACTTTTCTA
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:17858 original size:9 final size:9
Alignment explanation
Indices: 17844--17911 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
17834 GACGGTTCAC
17844 ACCGGTTTT
1 ACCGGTTTT
17853 ACCGGTTTTT
1 ACCGG-TTTT
**
17863 AGCCGGTTCAC
1 A-CCGGTT-TT
17874 ACCGGTTTT
1 ACCGGTTTT
17883 ACCGGTTCTT
1 ACCGGTT-TT
* *
17893 AGCCGATTCT
1 A-CCGGTTTT
17903 ACCGGTTTT
1 ACCGGTTTT
17912 CAACCGGTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
9 18 0.39
10 18 0.39
11 10 0.22
ACGTcount: A:0.13, C:0.26, G:0.22, T:0.38
Consensus pattern (9 bp):
ACCGGTTTT
Found at i:17872 original size:30 final size:30
Alignment explanation
Indices: 17836--17921 Score: 120
Period size: 30 Copynumber: 2.8 Consensus size: 30
17826 ACAGAACCGA
*
17836 CGGTTCACACCGGTTTTACCGGTTTTTAGC
1 CGGTTCACACCGGTTTTACCGGTTCTTAGC
17866 CGGTTCACACCGGTTTTACCGGTTCTTAGC
1 CGGTTCACACCGGTTTTACCGGTTCTTAGC
* *
17896 CGATTC-TACCGGTTTTCAACCGGTTC
1 CGGTTCACACCGGTTTT--ACCGGTTC
17922 ATTGCAAAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 9 0.18
30 34 0.67
31 8 0.16
ACGTcount: A:0.14, C:0.29, G:0.22, T:0.35
Consensus pattern (30 bp):
CGGTTCACACCGGTTTTACCGGTTCTTAGC
Found at i:20318 original size:22 final size:22
Alignment explanation
Indices: 20290--20415 Score: 130
Period size: 22 Copynumber: 5.7 Consensus size: 22
20280 GTGAACCAGT
20290 TGAGCCGATCC-AGCCGACCGAC
1 TGAGCCGA-CCGAGCCGACCGAC
** *
20312 TGAGCCGACCGAGCCGACTAAT
1 TGAGCCGACCGAGCCGACCGAC
*
20334 TGAGCCGACCGAGCCGATCGA-
1 TGAGCCGACCGAGCCGACCGAC
* *
20355 TCGAGCCGACCGAGTCGATCGAC
1 T-GAGCCGACCGAGCCGACCGAC
* *
20378 CGAGCCGACCGAGCTGACCGAC
1 TGAGCCGACCGAGCCGACCGAC
* *
20400 CGAGCCGATCGAGCCG
1 TGAGCCGACCGAGCCG
20416 CTTGGACTGG
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
21 3 0.03
22 85 0.97
ACGTcount: A:0.23, C:0.37, G:0.31, T:0.10
Consensus pattern (22 bp):
TGAGCCGACCGAGCCGACCGAC
Found at i:20347 original size:9 final size:9
Alignment explanation
Indices: 20303--20415 Score: 54
Period size: 9 Copynumber: 11.9 Consensus size: 9
20293 GCCGATCCAG
20303 CCGA-CCGA
1 CCGAGCCGA
*
20311 CTGAGCCGA
1 CCGAGCCGA
20320 CCGAGCCGA
1 CCGAGCCGA
*
20329 CTAATTGAGCCGA
1 C----CGAGCCGA
20342 CCGAGCCGA
1 CCGAGCCGA
20351 TCGATCGAGCCGA
1 -C---CGAGCCGA
*
20364 CCGAGTCGA
1 CCGAGCCGA
*
20373 TCGA-CCGA
1 CCGAGCCGA
20381 GCCGA-CCGA
1 -CCGAGCCGA
*
20390 GCTGA-CCGA
1 -CCGAGCCGA
20399 CCGAGCCGA
1 CCGAGCCGA
*
20408 TCGAGCCG
1 CCGAGCCG
20416 CTTGGACTGG
Statistics
Matches: 83, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
8 9 0.11
9 56 0.67
10 1 0.01
12 1 0.01
13 16 0.19
ACGTcount: A:0.23, C:0.37, G:0.31, T:0.09
Consensus pattern (9 bp):
CCGAGCCGA
Found at i:20455 original size:14 final size:14
Alignment explanation
Indices: 20438--20471 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
20428 CGCCTGGACC
*
20438 GGACCGAACAACCT
1 GGACCGAACAACAT
20452 GGACCGAACAACAT
1 GGACCGAACAACAT
20466 GGACCG
1 GGACCG
20472 GACCAAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.32, G:0.26, T:0.06
Consensus pattern (14 bp):
GGACCGAACAACAT
Found at i:20557 original size:28 final size:28
Alignment explanation
Indices: 20525--20589 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
20515 CTTTGACTGG
*
20525 CTTTGACCGGATATTAAACGACCTTTGA
1 CTTTGACCGGACATTAAACGACCTTTGA
*
20553 CTTTGACCGGGCATTAAACGACCTTTGA
1 CTTTGACCGGACATTAAACGACCTTTGA
20581 CTTTGACCG
1 CTTTGACCG
20590 AGTATACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (28 bp):
CTTTGACCGGACATTAAACGACCTTTGA
Found at i:21853 original size:18 final size:18
Alignment explanation
Indices: 21827--21861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21817 TCGAAAGGAC
*
21827 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
21845 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
21862 CCGGATGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:25584 original size:4 final size:4
Alignment explanation
Indices: 25575--25617 Score: 59
Period size: 4 Copynumber: 10.0 Consensus size: 4
25565 ACCAGTTGAG
25575 CCGA CCGA CCGA GCCGA CCGA CCGAA CCGA CCGA GCCGA CCGA
1 CCGA CCGA CCGA -CCGA CCGA CCG-A CCGA CCGA -CCGA CCGA
25618 TTGAGCCGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 24 0.67
5 12 0.33
ACGTcount: A:0.26, C:0.47, G:0.28, T:0.00
Consensus pattern (4 bp):
CCGA
Found at i:25593 original size:9 final size:8
Alignment explanation
Indices: 25575--25617 Score: 59
Period size: 9 Copynumber: 5.0 Consensus size: 8
25565 ACCAGTTGAG
25575 CCGACCGA
1 CCGACCGA
25583 CCGAGCCGA
1 CCGA-CCGA
25592 CCGACCGAA
1 CCGACCG-A
25601 CCGACCGA
1 CCGACCGA
25609 GCCGACCGA
1 -CCGACCGA
25618 TTGAGCCGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.25
9 24 0.75
ACGTcount: A:0.26, C:0.47, G:0.28, T:0.00
Consensus pattern (8 bp):
CCGACCGA
Found at i:25603 original size:22 final size:22
Alignment explanation
Indices: 25578--25635 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
25568 AGTTGAGCCG
25578 ACCGACCGAGCCGACCGACCGA
1 ACCGACCGAGCCGACCGACCGA
**
25600 ACCGACCGAGCCGACCGATTGA
1 ACCGACCGAGCCGACCGACCGA
* *
25622 GCCGACTGAGCCGA
1 ACCGACCGAGCCGA
25636 TCGAGACGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.26, C:0.40, G:0.29, T:0.05
Consensus pattern (22 bp):
ACCGACCGAGCCGACCGACCGA
Found at i:25627 original size:13 final size:13
Alignment explanation
Indices: 25572--25617 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
25562 TGAACCAGTT
25572 GAGCCGACCGACC
1 GAGCCGACCGACC
25585 GAGCCGACCGACC
1 GAGCCGACCGACC
*
25598 GAACCGACCGAGCC
1 GAGCCGACCGA-CC
25612 GA-CCGA
1 GAGCCGA
25618 TTGAGCCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 27 0.87
14 4 0.13
ACGTcount: A:0.26, C:0.43, G:0.30, T:0.00
Consensus pattern (13 bp):
GAGCCGACCGACC
Found at i:25678 original size:19 final size:19
Alignment explanation
Indices: 25666--25718 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
25656 GGACTGGATC
25666 GCCTGGACCGGACCGAACA
1 GCCTGGACCGGACCGAACA
* * *
25685 GCCTGGACCGGAACAAACC
1 GCCTGGACCGGACCGAACA
*
25704 GCCTGGACCGAACCG
1 GCCTGGACCGGACCG
25719 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.26, C:0.38, G:0.30, T:0.06
Consensus pattern (19 bp):
GCCTGGACCGGACCGAACA
Found at i:25787 original size:28 final size:28
Alignment explanation
Indices: 25755--25818 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
25745 CTTTGACTGG
25755 CTTTGACCGGACATTAAACGACCTTTGA
1 CTTTGACCGGACATTAAACGACCTTTGA
*
25783 CTTTGACCGGGCATTAAACGACCTTTGA
1 CTTTGACCGGACATTAAACGACCTTTGA
25811 CTTTGACC
1 CTTTGACC
25819 CAGTATACCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (28 bp):
CTTTGACCGGACATTAAACGACCTTTGA
Found at i:34977 original size:22 final size:22
Alignment explanation
Indices: 34951--35016 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 22
34941 AAATGGTAAG
34951 TATGAAAATAAGCTTACGAGCT
1 TATGAAAATAAGCTTACGAGCT
*
34973 TATG--AATAATG-GTA--AG--
1 TATGAAAATAA-GCTTACGAGCT
*
34989 TATGTAAATAAGCTTACGAGCT
1 TATGAAAATAAGCTTACGAGCT
35011 TATGAA
1 TATGAA
35017 TAATGGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 16
0.63 0.06 0.31
Matches are distributed among these distances:
16 4 0.12
17 1 0.03
18 9 0.27
20 9 0.27
21 1 0.03
22 9 0.27
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (22 bp):
TATGAAAATAAGCTTACGAGCT
Found at i:35150 original size:47 final size:44
Alignment explanation
Indices: 34938--35164 Score: 235
Period size: 47 Copynumber: 5.3 Consensus size: 44
34928 TTTATTAGTT
34938 AATAAATGGTAAGTA--TG--AAAATAAGCTTACGAGCTTAT-G
1 AATAAATGGTAAGTATTTGATAAAATAAGCTTACGAGCTTATGG
34977 AAT-AATGGTAAGTA--TG-T-AAATAAGCTTACGAGCTTAT-G
1 AATAAATGGTAAGTATTTGATAAAATAAGCTTACGAGCTTATGG
* * * *
35015 AAT-AATGGAAAGTATATTGATAAATTAAGCTTTCGAGCGTATGG
1 AATAAATGGTAAGTAT-TTGATAAAATAAGCTTACGAGCTTATGG
*
35059 AATTTAAATGGCAAGTATGTTGATAAAATAAGCTTACGAGCTTATGG
1 AA--TAAATGGTAAGTAT-TTGATAAAATAAGCTTACGAGCTTATGG
* *
35106 AATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGATCTTATGG
1 AA--TAAATGGTAAGTA-TTTGATAAAATAAGCTTACGAGCTTATGG
*
35153 GATAAATGGTAA
1 AATAAATGGTAA
35165 AATATTTTAT
Statistics
Matches: 164, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 47 0.29
39 3 0.02
41 2 0.01
42 1 0.01
43 17 0.10
44 3 0.02
45 10 0.06
46 1 0.01
47 79 0.48
48 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (44 bp):
AATAAATGGTAAGTATTTGATAAAATAAGCTTACGAGCTTATGG
Found at i:37998 original size:18 final size:17
Alignment explanation
Indices: 37975--38056 Score: 62
Period size: 18 Copynumber: 4.5 Consensus size: 17
37965 ATTATATAAG
37975 AAAAAAAAATGAAGAAA
1 AAAAAAAAATGAAGAAA
*
37992 CAAAAAAAGAAAGAAGAAA
1 -AAAAAAA-AATGAAGAAA
38011 AAGAAAAGAAA--ATAGAAA
1 AA-AAAA-AAATGA-AGAAA
38029 AAGAAAGAAAATGAA-AAGA
1 AA-AAA-AAAATGAAGAA-A
38048 AAAAAAAAA
1 AAAAAAAAA
38057 CAGAAAATGA
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
17 5 0.09
18 28 0.51
19 20 0.36
20 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAAAAAAATGAAGAAA
Found at i:38016 original size:25 final size:24
Alignment explanation
Indices: 37972--38082 Score: 84
Period size: 25 Copynumber: 4.3 Consensus size: 24
37962 TATATTATAT
*
37972 AAGAAAAAAAAATGAAGAAACA-AAAA
1 AAGAAAAAGAAA--AAGAAA-AGAAAA
37998 AAGAAAGAAGAAAAAGAAAAGAAAA
1 AAGAAA-AAGAAAAAGAAAAGAAAA
*
38023 TAGAAAAAGAAAGAAAATGAAAAGAAAA
1 AAGAAAAAG--A-AAAA-GAAAAGAAAA
*
38051 AA-AAAACAGAAAATGAAAAGAAAA
1 AAGAAAA-AGAAAAAGAAAAGAAAA
38075 GAA-AAAAA
1 -AAGAAAAA
38083 TGAGAGATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
24 15 0.21
25 24 0.33
26 8 0.11
27 13 0.18
28 13 0.18
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (24 bp):
AAGAAAAAGAAAAAGAAAAGAAAA
Found at i:38019 original size:5 final size:5
Alignment explanation
Indices: 37996--38079 Score: 70
Period size: 5 Copynumber: 16.8 Consensus size: 5
37986 AAGAAACAAA
*
37996 AAAAG -AAAG AAGA- AAAAG AAAAG AAAATAG AAAA- AGAAAG AAAATG
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAA-AG AAAAG A-AAAG AAAA-G
*
38042 AAAAG AAAA- AAAA- AACAG AAAATG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAA
38080 AAATGAGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
4 15 0.23
5 32 0.48
6 17 0.26
7 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.17, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:38032 original size:24 final size:23
Alignment explanation
Indices: 37972--38080 Score: 84
Period size: 24 Copynumber: 4.6 Consensus size: 23
37962 TATATTATAT
* *
37972 AAGAAAAAAAAATGAAGAAACAAAAA
1 AAGAAAAAGAAA--AAGAAA-AGAAA
37998 AAGAAAGAAGAAAAAGAAAAGAAA
1 AAGAAA-AAGAAAAAGAAAAGAAA
38022 ATAGAAAAAG--AAAGAAAATG-AA
1 A-AGAAAAAGAAAAAGAAAA-GAAA
*
38044 AAGAAAAAAAAAACAGAAAATG-AA
1 AAGAAAAAGAAAA-AGAAAA-GAAA
38068 AAG-AAAAGAAAAA
1 AAGAAAAAGAAAAA
38081 AATGAGAGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
21 7 0.10
22 12 0.16
23 11 0.15
24 21 0.29
25 11 0.15
26 6 0.08
27 5 0.07
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (23 bp):
AAGAAAAAGAAAAAGAAAAGAAA
Found at i:38037 original size:28 final size:27
Alignment explanation
Indices: 37993--38082 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 27
37983 ATGAAGAAAC
*
37993 AAAAAAAGAAAG-AAGAAAAAGAAAAG
1 AAAAAAAAAAAGAAAGAAAAAGAAAAG
* *
38019 AAAATAGAAAAAGAAAGAAAATGAAAAG
1 AAAA-AAAAAAAGAAAGAAAAAGAAAAG
38047 AAAAAAAAAACAGAAA-ATGAAAAGAAAAG
1 AAAAAAAAAA-AGAAAGA--AAAAGAAAAG
38076 AAAAAAA
1 AAAAAAA
38083 TGAGAGATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 4 0.07
27 12 0.22
28 22 0.41
29 16 0.30
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAAAGAAAGAAAAAGAAAAG
Found at i:38081 original size:18 final size:17
Alignment explanation
Indices: 37996--38074 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
37986 AAGAAACAAA
*
37996 AAAAGAAAGAAGAAAAAG
1 AAAAGAAAAAAG-AAAAG
*
38014 AAAAGAAAATAGAAAA-
1 AAAAGAAAAAAGAAAAG
*
38030 AGAAAG-AAAATGAAAAG
1 A-AAAGAAAAAAGAAAAG
*
38047 AAAAAAAAAACAGAAAATG
1 AAAAGAAAAA-AGAAAA-G
38066 AAAAGAAAA
1 AAAAGAAAA
38075 GAAAAAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 12 0.24
17 13 0.27
18 15 0.31
19 9 0.18
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAG
Found at i:43472 original size:40 final size:39
Alignment explanation
Indices: 43417--43498 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 39
43407 AAGAAATAAT
43417 AATTTAGAATGTTATGGTGAAATAATTTAAGAAATTAAGA
1 AATTTAGAATGTTATGGTGAAATAATTTAAG-AATTAAGA
* * * **
43457 AATTTATAATTTTATGGTGAAATGATTTGCGAATTAAGA
1 AATTTAGAATGTTATGGTGAAATAATTTAAGAATTAAGA
43496 AAT
1 AAT
43499 AAAAATCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 11 0.30
40 26 0.70
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.38
Consensus pattern (39 bp):
AATTTAGAATGTTATGGTGAAATAATTTAAGAATTAAGA
Found at i:44032 original size:14 final size:15
Alignment explanation
Indices: 43996--44037 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43986 AATCTAGTAA
43996 TTTTAAAATATATAT
1 TTTTAAAATATATAT
*
44011 TTTATAAAATTTA-AT
1 TTT-TAAAATATATAT
44026 TTTTAAAA-ATAT
1 TTTTAAAATATAT
44038 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 5 0.22
15 8 0.35
16 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:45421 original size:31 final size:31
Alignment explanation
Indices: 45383--45535 Score: 306
Period size: 31 Copynumber: 4.9 Consensus size: 31
45373 TTAATTTAAG
45383 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
1 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
45414 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
1 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
45445 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
1 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
45476 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
1 TGATAAGTAGTTTGATATCGTTTAAGTAGTT
45507 TGATAAGTAGTTTGATATCGTTTAAGTAG
1 TGATAAGTAGTTTGATATCGTTTAAGTAG
45536 GTCTCGAATT
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 122 1.00
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.44
Consensus pattern (31 bp):
TGATAAGTAGTTTGATATCGTTTAAGTAGTT
Found at i:45422 original size:12 final size:12
Alignment explanation
Indices: 45405--45523 Score: 106
Period size: 12 Copynumber: 11.2 Consensus size: 12
45395 TGATATCGTT
45405 TAAGTAGTTTGA
1 TAAGTAGTTTGA
45417 TAAGTAGTTTGA
1 TAAGTAGTTTGA
*
45429 T-A-TCG-TT--
1 TAAGTAGTTTGA
45436 TAAGTAGTTTGA
1 TAAGTAGTTTGA
45448 TAAGTAGTTTGA
1 TAAGTAGTTTGA
*
45460 T-A-TCG-TT--
1 TAAGTAGTTTGA
45467 TAAGTAGTTTGA
1 TAAGTAGTTTGA
45479 TAAGTAGTTTGA
1 TAAGTAGTTTGA
*
45491 T-A-TCG-TT--
1 TAAGTAGTTTGA
45498 TAAGTAGTTTGA
1 TAAGTAGTTTGA
45510 TAAGTAGTTTGA
1 TAAGTAGTTTGA
45522 TA
1 TA
45524 TCGTTTAAGT
Statistics
Matches: 86, Mismatches: 6, Indels: 30
0.70 0.05 0.25
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 12 0.14
10 12 0.14
11 3 0.03
12 53 0.62
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (12 bp):
TAAGTAGTTTGA
Found at i:45535 original size:19 final size:19
Alignment explanation
Indices: 45386--45511 Score: 105
Period size: 19 Copynumber: 7.7 Consensus size: 19
45376 ATTTAAGTGA
45386 TAAGTAGTTTGATATCGTT
1 TAAGTAGTTTGATATCGTT
45405 TAAGTAGTTTG--A-----
1 TAAGTAGTTTGATATCGTT
45417 TAAGTAGTTTGATATCGTT
1 TAAGTAGTTTGATATCGTT
45436 TAAGTAGTTTG--A-----
1 TAAGTAGTTTGATATCGTT
45448 TAAGTAGTTTGATATCGTT
1 TAAGTAGTTTGATATCGTT
45467 TAAGTAGTTTG--A-----
1 TAAGTAGTTTGATATCGTT
45479 TAAGTAGTTTGATATCGTT
1 TAAGTAGTTTGATATCGTT
45498 TAAGTAGTTTGATA
1 TAAGTAGTTTGATA
45512 AGTAGTTTGA
Statistics
Matches: 86, Mismatches: 0, Indels: 42
0.67 0.00 0.33
Matches are distributed among these distances:
12 33 0.38
14 3 0.03
17 3 0.03
19 47 0.55
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.45
Consensus pattern (19 bp):
TAAGTAGTTTGATATCGTT
Found at i:48033 original size:21 final size:21
Alignment explanation
Indices: 48006--48057 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
47996 ACAATTATGG
48006 AAATGTGAACTTTGAACAAAT
1 AAATGTGAACTTTGAACAAAT
* * *
48027 GAATGTGAACTTTGAACCAGT
1 AAATGTGAACTTTGAACAAAT
48048 AAATGTGAAC
1 AAATGTGAAC
48058 AGACTATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
AAATGTGAACTTTGAACAAAT
Found at i:48263 original size:23 final size:23
Alignment explanation
Indices: 48233--48298 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
48223 TCGGTGTAAT
48233 CTATGTGGCACTTTGGTGCAAAA
1 CTATGTGGCACTTTGGTGCAAAA
48256 CTATGTGGTCA-TTTGG-G-ACAAA
1 CTATGTGG-CACTTTGGTGCA-AAA
*
48278 -TATGTGGCACTTCGGTGCAAA
1 CTATGTGGCACTTTGGTGCAAA
48299 TTACGAGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 7 0.19
23 14 0.38
24 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (23 bp):
CTATGTGGCACTTTGGTGCAAAA
Found at i:52211 original size:22 final size:20
Alignment explanation
Indices: 52186--52225 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52176 ATGTTTGTTT
52186 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
52208 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
52226 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:52302 original size:19 final size:19
Alignment explanation
Indices: 52278--52344 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
52268 AGTTAATATG
52278 AATGCAAATAAACTAATGA
1 AATGCAAATAAACTAATGA
* * *
52297 AATGCATTATAAGTA-TGATGCCG
1 AATGCA-AATAA--ACTAATG--A
52320 AATGCAAATAAACTAATGA
1 AATGCAAATAAACTAATGA
52339 AATGCA
1 AATGCA
52345 TTATAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 12 0.33
20 5 0.14
21 8 0.22
22 5 0.14
23 6 0.17
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (19 bp):
AATGCAAATAAACTAATGA
Found at i:52336 original size:42 final size:42
Alignment explanation
Indices: 52277--52360 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
52267 GAGTTAATAT
52277 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGATGCC
1 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGATGCC
*
52319 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGCTGCC
1 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGATGCC
52361 TTGATGTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (42 bp):
GAATGCAAATAAACTAATGAAATGCATTATAAGTATGATGCC
Found at i:52500 original size:15 final size:15
Alignment explanation
Indices: 52477--52512 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52467 ACTAATATTC
* *
52477 TTATCATAATATATA
1 TTATAATAACATATA
52492 TTATAATAACATATA
1 TTATAATAACATATA
52507 TTATAA
1 TTATAA
52513 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TTATAATAACATATA
Found at i:56656 original size:43 final size:42
Alignment explanation
Indices: 56591--56675 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 42
56581 GAGTTAATAT
56591 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGCTGCC
1 GAATGCAAATAAACTAATGAAATGCATTATAAGTATGCTGCC
56633 GAATGCAAATAAAACTAATGAAATGCATTATAAGTATGCTGCC
1 GAATGCAAAT-AAACTAATGAAATGCATTATAAGTATGCTGCC
56676 TTGATGTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 10 0.24
43 32 0.76
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (42 bp):
GAATGCAAATAAACTAATGAAATGCATTATAAGTATGCTGCC
Found at i:56815 original size:15 final size:15
Alignment explanation
Indices: 56792--56827 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
56782 ACTAATATTC
* *
56792 TTATCATAATATATA
1 TTATAATAACATATA
56807 TTATAATAACATATA
1 TTATAATAACATATA
56822 TTATAA
1 TTATAA
56828 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TTATAATAACATATA
Found at i:59153 original size:76 final size:76
Alignment explanation
Indices: 59054--59265 Score: 243
Period size: 76 Copynumber: 2.8 Consensus size: 76
59044 CAGTATACTA
* * * *
59054 GTGTAAGTCAA-GTTTCAGTTTCACTCCTTGACTTATGTGAAAAGTTTAGTGCTGGAATTACGTA
1 GTGTAAGTCAATG-TTAAGTTTCACTACTAGAATTATGTGAAAAGTTTAGTGCTGGAATTACGTA
59118 TTCATTTCACTG
65 TTCATTTCACTG
* * * * *
59130 GT-TCAAGTCAATGTTAAGTTTCACTACTAGAATTAGGTGATAAA-TTTAATGATAGAATTATGT
1 GTGT-AAGTCAATGTTAAGTTTCACTACTAGAATTATGTGA-AAAGTTTAGTGCTGGAATTACGT
*
59193 ATTCATTTCGCTG
64 ATTCATTTCACTG
* * *
59206 GTGTAAGTCAATGTTAAGTTTCACTGC-AGGAATTATGTGATAAGTTTAGTGCAGGAATTA
1 GTGTAAGTCAATGTTAAGTTTCACTACTA-GAATTATGTGAAAAGTTTAGTGCTGGAATTA
59266 TGTGATAAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
75 4 0.04
76 104 0.92
77 5 0.04
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (76 bp):
GTGTAAGTCAATGTTAAGTTTCACTACTAGAATTATGTGAAAAGTTTAGTGCTGGAATTACGTAT
TCATTTCACTG
Found at i:59261 original size:25 final size:25
Alignment explanation
Indices: 59220--59290 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
59210 AAGTCAATGT
*
59220 TAAGTTTCACTGCAGGAATTATGTGA
1 TAAGTTT-AGTGCAGGAATTATGTGA
59246 TAAGTTTAGTGCAGGAATTATGTGA
1 TAAGTTTAGTGCAGGAATTATGTGA
*
59271 TAAGTTTAGTGCTGGAATTA
1 TAAGTTTAGTGCAGGAATTA
59291 CGTATTCATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (25 bp):
TAAGTTTAGTGCAGGAATTATGTGA
Found at i:59273 original size:101 final size:101
Alignment explanation
Indices: 59159--59366 Score: 281
Period size: 101 Copynumber: 2.1 Consensus size: 101
59149 TTCACTACTA
* * *
59159 GAATTAGGTGATAAATTTAATGATAGAATTATGTATTCATTTCGCTGGTGTAAGTCAATGTTAAG
1 GAATTAGGTGATAAATTTAATGATAGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAG
* *
59224 TTTCACTGCAGGAATTATGTGATAAGTTTAGTGCAG
66 TTTCACTACAGGAATTATGTGATAAGTTTAGCGCAG
* * * * * *
59260 GAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTATAAGTTAATGTTAAG
1 GAATTAGGTGATAAATTTAATGATAGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAG
* ** *
59325 TTTCATTATTGGAATTATGTGATAAGTTTAGCGCTG
66 TTTCACTACAGGAATTATGTGATAAGTTTAGCGCAG
59361 GAATTA
1 GAATTA
59367 CGTATTCATT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (101 bp):
GAATTAGGTGATAAATTTAATGATAGAATTACGTATTCATTTCACTGGTATAAGTCAATGTTAAG
TTTCACTACAGGAATTATGTGATAAGTTTAGCGCAG
Found at i:59340 original size:76 final size:76
Alignment explanation
Indices: 59259--59551 Score: 406
Period size: 76 Copynumber: 3.9 Consensus size: 76
59249 GTTTAGTGCA
* *
59259 GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTATAAGTTAATGTTAA
1 GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAA
* * *
59324 GTTTCATTATT
66 ATTTCACTGTT
* *
59335 GGAATTATGTGATAAGTTTAGCGCTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAA
1 GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAA
59400 ATTTCACTGTT
66 ATTTCACTGTT
* * * * *
59411 GAAATGATGTGATAAGTTTAGTGCTTGAATTACGTAGTCATTTCACTGGTGTAAGTCAATGATAA
1 GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAA
**
59476 ATTTCACTGCA
66 ATTTCACTGTT
* ** * * *
59487 GCAATTATGTGATAAGTTTAGTGCTATAATTACATATTCATTTCACTGATGTAAGTCAATATTAA
1 GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAA
59552 GCTTCAAAGT
Statistics
Matches: 192, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 192 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (76 bp):
GGAATTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAA
ATTTCACTGTT
Found at i:59386 original size:177 final size:177
Alignment explanation
Indices: 59086--59434 Score: 511
Period size: 177 Copynumber: 2.0 Consensus size: 177
59076 ACTCCTTGAC
59086 TTATGTGAAAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTTCAAGTCAATGTTAAGTTT
1 TTATGTGAAAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTTCAAGTCAATGTTAAGTTT
* * *
59151 CACTACTAGAATTAGGTGATAAATTTAATGATAGAATTATGTATTCATTTCGCTGGTGTAAGTCA
66 CACTACTAGAATTAGGTGATAAATTTAACGATAGAATTACGTATTCATTTCACTGGTGTAAGTCA
* * *
59216 ATGTTAAGTTTCACTGCAGGAATTATGTGATAAGTTTAGTGCAGGAA
131 ATGTTAAATTTCACTGCAGAAATGATGTGATAAGTTTAGTGCAGGAA
* *
59263 TTATGTGATAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTAT-AAGTTAATGTTAAGTT
1 TTATGTGAAAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGT-TCAAGTCAATGTTAAGTT
* * * * * * * * *
59327 TCATTATTGGAATTATGTGATAAGTTTAGCGCTGGAATTACGTATTCATTTTACTGGTGTAAGTC
65 TCACTACTAGAATTAGGTGATAAATTTAACGATAGAATTACGTATTCATTTCACTGGTGTAAGTC
**
59392 AATGTTAAATTTCACTGTTGAAATGATGTGATAAGTTTAGTGC
130 AATGTTAAATTTCACTGCAGAAATGATGTGATAAGTTTAGTGC
59435 TTGAATTACG
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
177 151 0.99
178 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (177 bp):
TTATGTGAAAAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTTCAAGTCAATGTTAAGTTT
CACTACTAGAATTAGGTGATAAATTTAACGATAGAATTACGTATTCATTTCACTGGTGTAAGTCA
ATGTTAAATTTCACTGCAGAAATGATGTGATAAGTTTAGTGCAGGAA
Found at i:59674 original size:134 final size:134
Alignment explanation
Indices: 59424--59685 Score: 346
Period size: 134 Copynumber: 2.0 Consensus size: 134
59414 ATGATGTGAT
* *
59424 AAGTTTAGTGCTTGAATTACGTAGTCATTTCACTGGTGTAAGTCAATGATAAATTTCACTGCAGC
1 AAGTTTAGTGCTTGAATTACATAGTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGCAGC
*
59489 AATTATGTGATAAGTTTAGTGCTATAATTACATATTCATTTCACTGATGTAAGTCAATATTAAGC
66 AATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTAAGTCAATATTAAGC
59554 TTCA
131 TTCA
* * * * ** *
59558 AAGTTTAGTG-TTGGAGTTACATATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGTTGCTG
1 AAGTTTAGTGCTT-GAATTACATAGTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGCAG
* * * * * * * *
59622 GAATTATGTGATAAGTTTATTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATTTTAA
65 CAATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTAAGTCAATATTAA
59686 ATTTCATTGC
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 2 0.02
134 107 0.98
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (134 bp):
AAGTTTAGTGCTTGAATTACATAGTCATTTCACTGATGTAAGTCAATGATAAATTTCACTGCAGC
AATTATGTGATAAGTTTAGTGCTAGAATTACATATTCATTTCACTGATGTAAGTCAATATTAAGC
TTCA
Found at i:59696 original size:76 final size:76
Alignment explanation
Indices: 59558--60112 Score: 707
Period size: 76 Copynumber: 7.3 Consensus size: 76
59548 TTAAGCTTCA
* * * * **
59558 AAGTTTAGTGTTGGAGTTACATATTCATTTCACTGATGTAAGTCAATGTTAAGTTTCGTTGCTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
59623 AATTATGTGAT
66 AATTATGTGAT
* * * * * *
59634 AAGTTTATTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATTTTAAATTTCATTGCTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
59699 AATTATGTGAT
66 AATTATGTGAT
*
59710 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGA
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
59775 AATTATGTGAT
66 AATTATGTGAT
** * * *
59786 AAGTTTAGTGCTGGAATTACGTATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTCATTACTGG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
59851 AATTATGTGAT
66 AATTATGTGAT
* * * * * * * *
59862 AAGTTTAGCGCTGGAATTACTTATTCATTTTACTGGTGTAACTCAATGTTAAATTTGACTACTGA
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
*
59927 AATGATGTGAT
66 AATTATGTGAT
* * *
59938 AAGTTTAGTGCTTGAATTATGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGA
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
* *
60003 AATCATGTCAT
66 AATTATGTGAT
* * * * * * *
60014 AAGTTTAGTGCTAGAATTACATATTCGTTTCACTAGTGTATGTCAATGTTAAATTTCACTGCTAG
1 AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
*
60079 AATTGTGATGTGTTT
66 AA-T-T-ATGTG-AT
60094 AA-TTTAGTGCTGGAATTAC
1 AAGTTTAGTGCTGGAATTAC
60113 ATGTTAATGT
Statistics
Matches: 418, Mismatches: 57, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
76 394 0.94
77 1 0.00
79 20 0.05
80 3 0.01
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (76 bp):
AAGTTTAGTGCTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTGCTGG
AATTATGTGAT
Found at i:59788 original size:26 final size:25
Alignment explanation
Indices: 59687--59880 Score: 89
Period size: 25 Copynumber: 7.7 Consensus size: 25
59677 CAATTTTAAA
*
59687 TTTCATTGCTGGAATTATGTGATAAG
1 TTTCACTGCTGGAATTATGT-ATAAG
* * *
59713 TTT-AGTGCTGGAATTACGTATTCA-
1 TTTCACTGCTGGAATTATGTA-TAAG
* * *
59737 TTTCACTGGTGTAAGTCAATGT-TAAG
1 TTTCACTGCTGGAA-T-TATGTATAAG
*
59763 TTTCACTGCTGAAATTATGTGATAAG
1 TTTCACTGCTGGAATTATGT-ATAAG
* * *
59789 TTT-AGTGCTGGAATTACGTATTCA-
1 TTTCACTGCTGGAATTATGTA-TAAG
** * *
59813 TTTCGTTGGTGTAAGTTAATGT-TAAG
1 TTTCACTGCTGGAA-TT-ATGTATAAG
* *
59839 TTTCATTACTGGAATTATGTGATAAG
1 TTTCACTGCTGGAATTATGT-ATAAG
59865 TTT-AGC-GCTGGAATTA
1 TTTCA-CTGCTGGAATTA
59881 CTTATTCATT
Statistics
Matches: 125, Mismatches: 28, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
24 16 0.13
25 61 0.49
26 42 0.34
27 6 0.05
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (25 bp):
TTTCACTGCTGGAATTATGTATAAG
Found at i:60501 original size:69 final size:69
Alignment explanation
Indices: 60271--60504 Score: 224
Period size: 69 Copynumber: 3.4 Consensus size: 69
60261 CATGAGCCTT
* * * * **
60271 GAAGGATTAGAGTGACTCGCAAGGGAGCACCTAATCGTGATTATGC-TTGGTTACTCGCACGAAA
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTAT-CTTTGGTGACTTGCACGGGA
60335 GCCCC
65 GCCCC
* * * ** * ** *
60340 TAAGGA--ATAGTGACTAACACTGGAGCACCTAATTGTAATTATCTCGGGTGACTTGCACAGGAG
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATCTTTGGTGACTTGCACGGGAG
60403 CCCC
66 CCCC
* ** * *
60407 GAAGGATTAGTGTGACTTGCCAGGGAGCACCTAATCGTAATTAT-TTTGATAGACTTGCACGGGA
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATCTTTGGT-GACTTGCACGGGA
**
60471 GATCC
65 GCCCC
60476 GAAGGATTAGAGTGACTCACAAGGGAGCA
1 GAAGGATTAGAGTGACTCACAAGGGAGCA
60505 TATTATCGTA
Statistics
Matches: 127, Mismatches: 34, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
66 1 0.01
67 50 0.39
68 3 0.02
69 73 0.57
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (69 bp):
GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATCTTTGGTGACTTGCACGGGAG
CCCC
Found at i:70341 original size:18 final size:19
Alignment explanation
Indices: 70301--70341 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
70291 TACTTAAATT
*
70301 TCTTTTATTTATTTAATCA
1 TCTTTTATTTATTTAAACA
70320 -CTTTTA-TTATTTAAACA
1 TCTTTTATTTATTTAAACA
70337 TCTTT
1 TCTTT
70342 CTTCCAAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (19 bp):
TCTTTTATTTATTTAAACA
Found at i:86538 original size:71 final size:71
Alignment explanation
Indices: 86422--86564 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
86412 AAGATTAAGG
86422 CCATCCAACCTAATCAATAAAGATAGAAAAATCACACTATTGCCAAGATTGATACGTGTTTATCA
1 CCATCCAACCTAATCAATAAAGATAGAAAAATCACACTATTGCCAAGATTGATACGTGTTTATCA
86487 AGAAGA
66 AGAAGA
86493 CCATCCAACCTAATCAATAAAGATAGAAAAATCACACTATTGCCAAGATTGATACGTGTTTATCA
1 CCATCCAACCTAATCAATAAAGATAGAAAAATCACACTATTGCCAAGATTGATACGTGTTTATCA
86558 AGAAGA
66 AGAAGA
86564 C
1 C
86565 TTGTTTCCCA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (71 bp):
CCATCCAACCTAATCAATAAAGATAGAAAAATCACACTATTGCCAAGATTGATACGTGTTTATCA
AGAAGA
Found at i:86861 original size:85 final size:85
Alignment explanation
Indices: 86733--87000 Score: 242
Period size: 85 Copynumber: 3.2 Consensus size: 85
86723 TGACTTAGCA
* * * * * * * *
86733 TCCTTCAGATAAAGGATCGAGATCATTC-CGAGATTTGGTGTCCTTCAGATAATGAAGCAAATCA
1 TCCTTTAGAGAAAGGAGCAAGATCATTCTCCA-ATTTGGAGTCCTTCAGAGAAAGAAGCAAATCA
86797 ACCATTGATTATGACTTGGTG
65 ACCATTGATTATGACTTGGTG
* ** *
86818 TCCTTTAGAGAAAGGAGC-A-A-CATTGCTACCCAATTTGGCGTCCTTTTGAGAAAGAAGCATAT
1 TCCTTTAGAGAAAGGAGCAAGATCATT-CT--CCAATTTGGAGTCCTTCAGAGAAAGAAGCAAAT
*
86880 CAACCTTTGATTACT-ACTTGGCT-
63 CAACCATTGATTA-TGACTTGG-TG
* * * * * * * *
86903 TCCTTTAGAGAAATGTGCAAGATCATTCTTCGATTTGGAATCATTCAGAGAAAGAAACAGATCAA
1 TCCTTTAGAGAAAGGAGCAAGATCATTCTCCAATTTGGAGTCCTTCAGAGAAAGAAGCAAATCAA
*
86968 CCATTGATTACGACTTGGTG
66 CCATTGATTATGACTTGGTG
86988 TCCTTTAGAGAAA
1 TCCTTTAGAGAAA
87001 ATAACAAGAT
Statistics
Matches: 148, Mismatches: 24, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
82 4 0.03
83 2 0.01
84 2 0.01
85 128 0.86
86 5 0.03
87 3 0.02
88 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
TCCTTTAGAGAAAGGAGCAAGATCATTCTCCAATTTGGAGTCCTTCAGAGAAAGAAGCAAATCAA
CCATTGATTATGACTTGGTG
Found at i:87009 original size:85 final size:85
Alignment explanation
Indices: 86775--87068 Score: 228
Period size: 85 Copynumber: 3.5 Consensus size: 85
86765 ATTTGGTGTC
* * * * * *
86775 CTTCAGATAATGAAGCAAATCAACCATTGATTATGACTTGG-TGTCCTTTAGAGAAAGGAGC-A-
1 CTTCAGAGAAAGAAGCAGATCAACCATTGATTACGACTTGGCT-TCCTTTAGAGAAATGAACAAG
* * *
86837 A-CATTGCTACCCAATTTGGCG-T
65 ATCATT-CT--TCGATTTTGCGAT
** * * * **
86859 CCTTTTGAGAAAGAAGCATATCAACCTTTGATTACTACTTGGCTTCCTTTAGAGAAATGTGCAAG
1 -CTTCAGAGAAAGAAGCAGATCAACCATTGATTACGACTTGGCTTCCTTTAGAGAAATGAACAAG
86924 ATCATTCTTCGA-TTTG-GAAT
65 ATCATTCTTCGATTTTGCG-AT
*
86944 CATTCAGAGAAAGAAACAGATCAACCATTGATTACGACTTGG-TGTCCTTTAGAGAAAAT-AACA
1 C-TTCAGAGAAAGAAGCAGATCAACCATTGATTACGACTTGGCT-TCCTTTAGAG-AAATGAACA
** * *
87007 AGATTTTTCTTTGATTTTGCGTT
63 AGATCATTCTTCGATTTTGCGAT
* * *
87030 CTTCAAAGAAAGGAGCAGATCAACCATTGATAACGACTT
1 CTTCAGAGAAAGAAGCAGATCAACCATTGATTACGACTT
87069 CGCATCCCCA
Statistics
Matches: 169, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
83 1 0.01
84 5 0.03
85 143 0.85
86 12 0.07
87 4 0.02
88 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (85 bp):
CTTCAGAGAAAGAAGCAGATCAACCATTGATTACGACTTGGCTTCCTTTAGAGAAATGAACAAGA
TCATTCTTCGATTTTGCGAT
Found at i:88260 original size:27 final size:26
Alignment explanation
Indices: 88194--88260 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
88184 CCCCAAATCA
*
88194 AAAATACCTTGAATTCCAAAATTACC
1 AAAATACCATGAATTCCAAAATTACC
* *
88220 AAAACACCACTGAATTCCAAAATTATC
1 AAAATACCA-TGAATTCCAAAATTACC
88247 AAAATACACATGAA
1 AAAATAC-CATGAA
88261 CTTCAACCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.20
27 26 0.74
28 2 0.06
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAATACCATGAATTCCAAAATTACC
Found at i:88876 original size:2 final size:2
Alignment explanation
Indices: 88869--88896 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
88859 CCTCCTGAAC
88869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88897 CTTTATGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93682 original size:19 final size:19
Alignment explanation
Indices: 93658--93704 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
93648 TACCTTTTTG
93658 CATTGCATTTTGCACTACA
1 CATTGCATTTTGCACTACA
93677 CATTGCATTTTGCACTACA
1 CATTGCATTTTGCACTACA
93696 CATTGCATT
1 CATTGCATT
93705 ACATTCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGCATTTTGCACTACA
Found at i:94770 original size:44 final size:44
Alignment explanation
Indices: 94707--94795 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
94697 AAATCTCTTT
94707 ACATCAACTCCCTGACTGTCCAGAAACACGAAGATGCAACTAAA
1 ACATCAACTCCCTGACTGTCCAGAAACACGAAGATGCAACTAAA
* * * *
94751 ACATCAACTCCCCTG-CTGTCTAGAAATATGAAGATGCCACTAAA
1 ACATCAACT-CCCTGACTGTCCAGAAACACGAAGATGCAACTAAA
94795 A
1 A
94796 TAGACCTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.19
Consensus pattern (44 bp):
ACATCAACTCCCTGACTGTCCAGAAACACGAAGATGCAACTAAA
Found at i:95932 original size:83 final size:84
Alignment explanation
Indices: 95690--96023 Score: 304
Period size: 83 Copynumber: 4.0 Consensus size: 84
95680 AAAATAACGC
* * * *
95690 AATAAGGTTCATCTATAGTGCCGTTTTTTCAACAAATACCGCAA-AAAGTAGTACTTTAGCGGCA
1 AATAAGGTTCATCTATAGTGGCATTTTTTCAACAAACACCGCAACAATGTAGTACTTTAGCGGCA
* **
95754 TTTTTATATAAACG-CTAT
66 TTTTTATACAAACGTCGCT
* * * ** * * **
95772 AATAAGGTTCTTATATAGTGGTATTTTTTTCAACAAACGTCGAAACAGA-GTATTA-TGTTATTG
1 AATAAGGTTCATCTATAGTGGCA-TTTTTTCAACAAACACCGCAACA-ATGTAGTACT-TTAGCG
*
95835 GCATTTTTATACAAACGCCGCT
63 GCATTTTTATACAAACGTCGCT
* * * * *
95857 AA-AGGGTTCATCTATAGTGGCATTTTTTCAACAAACATCGCAACAATGGAGTACTTTAGCAGCG
1 AATAAGGTTCATCTATAGTGGCATTTTTTCAACAAACACCGCAACAATGTAGTACTTTAGCGGCA
* *
95921 TTTTTATACAAACATTG-T
66 TTTTTATACAAACGTCGCT
* * * *
95939 AATAAGGTTCATCTATAGTGGCATTTTTTTAATAAACACCGCAAC-ATAATAGTACTTTAGCGGT
1 AATAAGGTTCATCTATAGTGGCATTTTTTCAACAAACACCGCAACAAT-GTAGTACTTTAGCGGC
** *
96003 GCTTTTATTCAAACGTCGCT
65 ATTTTTATACAAACGTCGCT
96023 A
1 A
96024 TAGGCACTAC
Statistics
Matches: 200, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
82 24 0.12
83 126 0.63
84 45 0.22
85 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (84 bp):
AATAAGGTTCATCTATAGTGGCATTTTTTCAACAAACACCGCAACAATGTAGTACTTTAGCGGCA
TTTTTATACAAACGTCGCT
Found at i:97158 original size:76 final size:75
Alignment explanation
Indices: 97015--97250 Score: 265
Period size: 76 Copynumber: 3.1 Consensus size: 75
97005 CGCGTACATT
* * * * * * *** *
97015 AGTTTCCCTACTGGAATTAGGTGATAAGTTAAAAATGCTGGAATTCTGTATTCATTTTTTTGTTG
1 AGTTTCACTACAGGAATTATGTGATAAGTT--TAGTGCTGGAATT-AGTATTCATTTCACTGATG
*
97080 TAAGTTAATGTTA
63 TAAGTCAATGTTA
* *
97093 AGTTTCACTGCAGGAATTATGTGATAAGTTTAGTGCTGGAATTAGGTATTCATTTCACTGGTGTA
1 AGTTTCACTACAGGAATTATGTGATAAGTTTAGTGCTGGAATTA-GTATTCATTTCACTGATGTA
97158 AGTCAATGTTA
65 AGTCAATGTTA
* * ** *
97169 AATTTCACTACGGGAATTATGTGATAAGTTTAGTGCTATAATTAGTATTCATTTCACTGATGCAA
1 AGTTTCACTACAGGAATTATGTGATAAGTTTAGTGCTGGAATTAGTATTCATTTCACTGATGTAA
97234 GTCAATGTTA
66 GTCAATGTTA
*
97244 AGCTTCA
1 AGTTTCA
97251 AAGTTTAGTG
Statistics
Matches: 136, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
75 34 0.25
76 76 0.56
78 26 0.19
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (75 bp):
AGTTTCACTACAGGAATTATGTGATAAGTTTAGTGCTGGAATTAGTATTCATTTCACTGATGTAA
GTCAATGTTA
Found at i:97377 original size:76 final size:76
Alignment explanation
Indices: 97251--97766 Score: 701
Period size: 76 Copynumber: 6.8 Consensus size: 76
97241 TTAAGCTTCA
* * ** * **
97251 AAGTTTAGTGTTGGAGTCACGTATTCATTTCACTAATGTAAGTCAATGTTAAGTTTCATTGTTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
*
97316 AATTAAGTGAT
66 AATTATGTGAT
* * * *
97327 AAGTTTAGTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCATTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
*
97392 AATTATGGGAT
66 AATTATGTGAT
* *
97403 AAGTTTAGTGTTGGAATTACATATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTATTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
97468 AATTATGTGAT
66 AATTATGTGAT
* ** * * * *
97479 AAGTTTAGTGTTGGAATTATGTATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTAATTACTAG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
*
97544 AATTATTTGAT
66 AATTATGTGAT
* * * *
97555 AAGTTTAGTGCTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCACTACTGA
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
*
97620 AATGATGTGAT
66 AATTATGTGAT
* *
97631 AAGTTTAGTGCTT-GAATTATGTATTCACTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTG
1 AAGTTTAGTG-TTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTG
* * *
97695 AAATCATGTCAT
65 GAATTATGTGAT
* *
97707 AAGTTTAGTGCTAGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACT
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACT
97767 GATAGAATTG
Statistics
Matches: 389, Mismatches: 49, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
75 1 0.00
76 387 0.99
77 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (76 bp):
AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGG
AATTATGTGAT
Found at i:97481 original size:26 final size:25
Alignment explanation
Indices: 97452--97500 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
97442 AAGTCAATGT
97452 TAAGTTTCACTATTGGAATTATGTGA
1 TAAGTTT-ACTATTGGAATTATGTGA
* *
97478 TAAGTTTAGTGTTGGAATTATGT
1 TAAGTTTACTATTGGAATTATGT
97501 ATTCATTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (25 bp):
TAAGTTTACTATTGGAATTATGTGA
Found at i:98914 original size:43 final size:43
Alignment explanation
Indices: 98844--99334 Score: 561
Period size: 43 Copynumber: 11.4 Consensus size: 43
98834 GAGCATGCAA
* * * *
98844 AAACGGGAAGGACTTA-CCTTTGCACATAGAAAAAGAGCCTGGG
1 AAACGGTAAGGTCTTATCC-TTGCACATAGCAAAGGAGCCTGGG
* * * *
98887 AAACGATAAGGTCTTATCCTTACACATAGCAAATGAGCCTTGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* ** *
98930 AAATGGTAAGGTCTTATCCTTGCACATAAAAAAGGAGCCTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* *
98973 AAACGGTAAGGTCTTATCCTTGCACATAGCAAATGAGCCTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* *
99016 AAACGGTAATGTCTTATCCTTGCATATAGCAAAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * * *
99059 AAACAGTAAGGTCTTATCCTTGCACATAGTAAATGAGCTTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* *
99102 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCTTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * *
99145 AAACGGTAAGGTGTAATCCTTGAATATAGCAAAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * *
99188 AAAACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTAGG
1 -AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * *
99232 AAACGGTTAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * * * **
99275 TAACGGTAAGGACTTACCCTTGCACATAACAGAGGAGCCTCTAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCT-GGG
*
99319 TAACGGTAAGGTCTTA
1 AAACGGTAAGGTCTTA
99335 CAAGTCATAG
Statistics
Matches: 390, Mismatches: 55, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
43 337 0.86
44 53 0.14
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (43 bp):
AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
Found at i:100228 original size:17 final size:17
Alignment explanation
Indices: 100199--100231 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
100189 GAGTTTCCAG
100199 ACTTATCCAAATCATTT
1 ACTTATCCAAATCATTT
100216 ACTTAATCC-AATCATT
1 ACTT-ATCCAAATCATT
100232 GACGTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ACTTATCCAAATCATTT
Found at i:102541 original size:69 final size:69
Alignment explanation
Indices: 102468--102641 Score: 179
Period size: 69 Copynumber: 2.5 Consensus size: 69
102458 CTCGTACGAA
* * * * *
102468 AGCCCCTAAGGAATAGAGTGACTCACACGGGAGCATCTAGTCATAATTATTTCGGGTGACTTGCA
1 AGCCCCTAAGGATTAGAGTGACTCACAAGGGAGCATCTAATCATAATTATTTCAGGTGACTCGCA
102533 AAGG
66 AAGG
* ** ** * * * *
102537 AGCCCCGAAGGATTAGAGTGACTTGCTTGGGAGCACCTAATCGTAATTATTTTAGTTGACTCGCA
1 AGCCCCTAAGGATTAGAGTGACTCACAAGGGAGCATCTAATCATAATTATTTCAGGTGACTCGCA
**
102602 CGGG
66 AAGG
*
102606 AG-CTCTGAAGGATTAGAGTGACTCACAAGGGAGCAT
1 AGCCCCT-AAGGATTAGAGTGACTCACAAGGGAGCAT
102642 ATTATCGTAT
Statistics
Matches: 82, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
68 2 0.02
69 80 0.98
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (69 bp):
AGCCCCTAAGGATTAGAGTGACTCACAAGGGAGCATCTAATCATAATTATTTCAGGTGACTCGCA
AAGG
Found at i:104151 original size:13 final size:14
Alignment explanation
Indices: 104115--104153 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
104105 TTGACCCGAT
104115 TGAGTCAACTCGCAC
1 TGAGTCAACTCG-AC
104130 TGAGTCAACTCG-C
1 TGAGTCAACTCGAC
*
104143 TGGGTCAACTC
1 TGAGTCAACTC
104154 ATTGACTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAGTCAACTCGAC
Found at i:104181 original size:23 final size:24
Alignment explanation
Indices: 104146--104191 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
104136 AACTCGCTGG
* *
104146 GTCAACTCATTGA-CTTTGACCGA
1 GTCAACCCATTGATCGTTGACCGA
*
104169 GTCAACCCGTTGATCGTTGACCG
1 GTCAACCCATTGATCGTTGACCG
104192 TTGAATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (24 bp):
GTCAACCCATTGATCGTTGACCGA
Found at i:112147 original size:402 final size:410
Alignment explanation
Indices: 111360--112163 Score: 990
Period size: 402 Copynumber: 2.0 Consensus size: 410
111350 GGGTTACAGG
111360 TTAAGGAAAAACTATTGTTCAAAAAAGGACATGGGAGATGGTTTAAGCTGGGGTATACTCTTCTC
1 TTAAGGAAAAACTATTGTTCAAAAAAGGACATGGGAGATGGTTTAAGCTGGGGTATACTCTTCTC
*
111425 GAAGAATATATGGAGTATTTGGAGGAACAGAAACGAAAGGGTCTTCAAAGAGAATGGAGAAAATT
66 GAAGAATATATGGAGTATTT-G-GGAACAGAAAC--AAGGGTCTTCAAAGAGAATGGAGAAAATC
* * *
111490 CAAGTCGAGTGGCACATTATGCACATAAGCTGGAAATGGATAGTAGATCAGCATTGATGACAACA
127 CAAGTCGAGTGGCAAATTACGCACATAAGCTGGAAAGGGATAGTAGATCAGCATTGATGACAACA
* * * * * ** *
111555 TACAGACTTGTGATAAGAGAACTGGTTTGGGAAGATAGATGAAACCTTTGGCAAGTTGTTGGATC
192 TACAAACTCGTGACAAGAGAACTAGTTTGGGAAGATAGATAAAACCTTCAGCAAGTTGCTGGATC
* *
111620 AACAACACGGATGGGAGGTGCAAAGTAACCATGGAGTTGGCAACAACGGGAGGAATAATCAGGGA
257 AACAACACGGATGGGAGGTGCAAAGCAACCATGGAGTTAGCAACAACGGGAGGAATAATCAGGGA
* * * * *
111685 CGAGAATGGTGATTGGATAGATGGGTTTATGTTGAAAATTGGTAGAACAAACAACACCTCCGCAA
322 CAAAAATGGCGATTGGATAGATGGCTTTATGTTGAAAATTGGCAGAACAAACAACACCTCCGCAA
111750 AACTATGGGGAGACAGACAGGGGC
387 AACTATGGGGAGACAGACAGGGGC
* * * *
111774 TTAAGGGAAAACTATTGTTCAAAGATA-GACATGGG-GATTGTTTAAGTTGGGGTATACTCTTCT
1 TTAAGGAAAAACTATTGTTCAAA-AAAGGACATGGGAGATGGTTTAAGCTGGGGTATACTCTTCT
** * * * *
111837 CGGTGACA-ATATGGAGTCTTT-GG-A-AG-ATC-A-GGTCTTCGAAGAGAA-GAGCGAAAATCC
65 CGAAGA-ATATATGGAGTATTTGGGAACAGAAACAAGGGTCTTCAAAGAGAATG-GAGAAAATCC
* * * *
111894 AAGTCGGGTGGCAAATTACGCACATAAGCTGGCAAGGGATACG-GGATCAGCGTTGATGACAACA
128 AAGTCGAGTGGCAAATTACGCACATAAGCTGGAAAGGGATA-GTAGATCAGCATTGATGACAACA
* * * * *
111958 TACAAACTCGTGACGATAGAGCTAGTTTGGGTAAGATATATAAAATCTTCAGCAAGTTGCTGGAT
192 TACAAACTCGTGACAAGAGAACTAGTTTGGG-AAGATAGATAAAACCTTCAGCAAGTTGCTGGAT
* * * *
112023 CATCAACATGGAT-GG-GGTGTAAAGCAACCACT-GAGTTAGCAA-AAGCGGGAGGAGTAATCAG
256 CAACAACACGGATGGGAGGTGCAAAGCAACCA-TGGAGTTAGCAACAA-CGGGAGGAATAATCAG
*
112084 GGACAAAAATGGCGATTGGATAGGTGGCTTTATGTTGAAAATTGGCAGAACAAACAACACCTCCG
319 GGACAAAAATGGCGATTGGATAGATGGCTTTATGTTGAAAATTGGCAGAACAAACAACACCTCCG
** *
112149 CGGAGCTATGGGGAG
384 CAAAACTATGGGGAG
112164 CCTATCAAAG
Statistics
Matches: 337, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
401 2 0.01
402 109 0.32
403 104 0.31
404 40 0.12
407 2 0.01
408 2 0.01
409 1 0.00
410 2 0.01
413 42 0.12
414 31 0.09
415 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (410 bp):
TTAAGGAAAAACTATTGTTCAAAAAAGGACATGGGAGATGGTTTAAGCTGGGGTATACTCTTCTC
GAAGAATATATGGAGTATTTGGGAACAGAAACAAGGGTCTTCAAAGAGAATGGAGAAAATCCAAG
TCGAGTGGCAAATTACGCACATAAGCTGGAAAGGGATAGTAGATCAGCATTGATGACAACATACA
AACTCGTGACAAGAGAACTAGTTTGGGAAGATAGATAAAACCTTCAGCAAGTTGCTGGATCAACA
ACACGGATGGGAGGTGCAAAGCAACCATGGAGTTAGCAACAACGGGAGGAATAATCAGGGACAAA
AATGGCGATTGGATAGATGGCTTTATGTTGAAAATTGGCAGAACAAACAACACCTCCGCAAAACT
ATGGGGAGACAGACAGGGGC
Found at i:116463 original size:69 final size:69
Alignment explanation
Indices: 116390--116559 Score: 214
Period size: 69 Copynumber: 2.5 Consensus size: 69
116380 CTCGCATGAA
* * *
116390 AGCCCCTAAGGAATAGAGTGACTTATACGGGAGAACCTAATCATAATTATTTCGGGTGACTTGCA
1 AGCCCCGAAGGATTAGAGTGACTTATACGGGAGAACCTAATCATAATTACTTCGGGTGACTTGCA
116455 CAGG
66 CAGG
* ** * **
116459 AGCCCCGAAGGATTAGAGTAACTTGCACGGGAGCACCTAATCATAATTACTTCGTTTGACTTGCA
1 AGCCCCGAAGGATTAGAGTGACTTATACGGGAGAACCTAATCATAATTACTTCGGGTGACTTGCA
*
116524 CGGG
66 CAGG
** * *
116528 AGCTTCGAAGGATTAGAGTGACTCATAAGGGA
1 AGCCCCGAAGGATTAGAGTGACTTATACGGGA
116560 ACATATTATC
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (69 bp):
AGCCCCGAAGGATTAGAGTGACTTATACGGGAGAACCTAATCATAATTACTTCGGGTGACTTGCA
CAGG
Found at i:132719 original size:18 final size:18
Alignment explanation
Indices: 132696--132730 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
132686 TTCCATCCGG
*
132696 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
132714 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
132731 GTCCTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:139870 original size:23 final size:23
Alignment explanation
Indices: 139838--139887 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
139828 TAAATGCTAA
139838 ATAA-ATATAAATAGTTATGTAT
1 ATAATATATAAATAGTTATGTAT
* *
139860 ATAATATATAAATATTTATTTAT
1 ATAATATATAAATAGTTATGTAT
139883 ATAAT
1 ATAAT
139888 GGTGTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
ATAATATATAAATAGTTATGTAT
Found at i:140870 original size:31 final size:31
Alignment explanation
Indices: 140825--140929 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 31
140815 TGGGGCCTAT
* *
140825 GGGCCTA-CCAAGAAAGTTCTCAGGGCCACG
1 GGGCCTACCCAAGAAAGATCTCAGGGCCACA
* * **
140855 GGGCCTATCCAAGAAAGATCTCAGGACCGTA
1 GGGCCTACCCAAGAAAGATCTCAGGGCCACA
*
140886 GGGCCTACCCAAGAATGATCTCAGGGCCACA
1 GGGCCTACCCAAGAAAGATCTCAGGGCCACA
140917 GGGCCTACCCAAG
1 GGGCCTACCCAAG
140930 TTCGGTATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
30 7 0.11
31 57 0.89
ACGTcount: A:0.29, C:0.30, G:0.28, T:0.13
Consensus pattern (31 bp):
GGGCCTACCCAAGAAAGATCTCAGGGCCACA
Found at i:145157 original size:28 final size:28
Alignment explanation
Indices: 145125--145188 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
145115 GTTGAATGAA
*
145125 ATTTAGGGACCAAGCCCTAAATTTCATC
1 ATTTAGGGACCAAGCCCTAAATTTCACC
145153 ATTTAGGGACCAAGCCCTAAATTTCACC
1 ATTTAGGGACCAAGCCCTAAATTTCACC
145181 ATTTAGGG
1 ATTTAGGG
145189 TCTGCATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (28 bp):
ATTTAGGGACCAAGCCCTAAATTTCACC
Found at i:146096 original size:135 final size:135
Alignment explanation
Indices: 145856--146119 Score: 350
Period size: 135 Copynumber: 2.0 Consensus size: 135
145846 CTGTTGACCG
*
145856 TTGACTTTGACCAAAAAGTCAAAATTTTTAAAAAGTCATATTTTATGTTTTTCGACGTCCTGAGT
1 TTGACTTTGACCAAAAAATCAAAATTTTTAAAAAGTCATATTTTATGTTTTTCGACGTCCTGAGT
* * ** * *
145921 CCGAATCTGAAGTCCGTTTTGCTAAATTTGAACCCAAAAGCCTCGAAATTGTAAGTCAAACCCGT
66 CCGAATCCGAAGTCCGTTTTGCCAAATTCCAACCCAAAAGCCTCCAAATTATAAGTCAAACCCGT
145986 TGACT
131 TGACT
** * *
145991 TTGACTTTGACCAAAAAATCAATTTTTTTTGAAAAGTCATATTTTAT-TTTTTTGACGTCCTGAG
1 TTGACTTTGACCAAAAAATCAA-AATTTTTAAAAAGTCATATTTTATGTTTTTCGACGTCCTGAG
* * * *** *
146055 TTCGATTCCGAAGTCCGTTTTTCCAAATTCCAACTTGAAAGCCTCCAAATTATCAGTCAAACCCG
65 TCCGAATCCGAAGTCCGTTTTGCCAAATTCCAACCCAAAAGCCTCCAAATTATAAGTCAAACCCG
146120 AACATGCATA
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
135 89 0.81
136 21 0.19
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (135 bp):
TTGACTTTGACCAAAAAATCAAAATTTTTAAAAAGTCATATTTTATGTTTTTCGACGTCCTGAGT
CCGAATCCGAAGTCCGTTTTGCCAAATTCCAACCCAAAAGCCTCCAAATTATAAGTCAAACCCGT
TGACT
Found at i:152046 original size:76 final size:76
Alignment explanation
Indices: 151867--152156 Score: 307
Period size: 76 Copynumber: 3.8 Consensus size: 76
151857 TTAAGCTTCA
* * * * * * ** **
151867 AAGTTTAGTGTTGGAGTTACGTATTCATTTCACAGATATAAGTCAATGTTAAGTTTCGTTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGCTAAATTTCACTGCTAA
*
151932 AATTATGTAAT
66 AATCATGTAAT
*
151943 AAG-TT-GTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGCTAAATTTCACTGCTAA
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGCTAAATTTCACTGCTAA
** *
152006 AAAGATGTGAT
66 AATCATGTAAT
* * * * *
152017 AAGTTTAGTGCTT-GAATTACGTATTCATTTCACTAGTGTAAGTCAATGTTAAGTTTCACTACTG
1 AAGTTTAGTG-TTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGCTAAATTTCACTGCTA
*
152081 AAATCATGTCAT
65 AAATCATGTAAT
* * * * * *
152093 AAGTTTAGTGCTAGAATTGCGTATTCATTTCACTGGTGTAAATCAATTCTACATTTCACTGCTA
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGCTAAATTTCACTGCTA
152157 GAATTGTGAT
Statistics
Matches: 177, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
74 58 0.33
75 5 0.03
76 112 0.63
77 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (76 bp):
AAGTTTAGTGTTGGAATTACGTATTCATTTCACTGGTGTAAGTCAATGCTAAATTTCACTGCTAA
AATCATGTAAT
Found at i:152173 original size:150 final size:150
Alignment explanation
Indices: 151867--152156 Score: 395
Period size: 150 Copynumber: 1.9 Consensus size: 150
151857 TTAAGCTTCA
* ** * *
151867 AAGTTTAGTGTTGGAGTTACGTATTCATTTCACAGATATAAGTCAATGTTAAGTTTCGTTGCTGG
1 AAGTTTAGTGTTGGAATTACGTATTCATTTCACAGATATAAGTCAATGTTAAGTTTCACTACTGA
* * * * *
151932 AATTATGTAATAAGTTGTGTTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGCTAAATTT
66 AATCATGTAATAAGTTGTGCTAGAATTACGTATTCATTTCACTGGTGTAAATCAATGCTAAATTT
151997 CACTGCTAAAAAGATGTGAT
131 CACTGCTAAAAAGATGTGAT
*
152017 AAGTTTAGTGCTT-GAATTACGTATTCATTTCACTAG-TGTAAGTCAATGTTAAGTTTCACTACT
1 AAGTTTAGTG-TTGGAATTACGTATTCATTTCAC-AGATATAAGTCAATGTTAAGTTTCACTACT
* * * *
152080 GAAATCATGTCATAAGTTTAGTGCTAGAATTGCGTATTCATTTCACTGGTGTAAATCAATTCTAC
64 GAAATCATGTAATAAG-TT-GTGCTAGAATTACGTATTCATTTCACTGGTGTAAATCAATGCTAA
152145 ATTTCACTGCTA
127 ATTTCACTGCTA
152157 GAATTGTGAT
Statistics
Matches: 121, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
150 65 0.54
151 6 0.05
152 50 0.41
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (150 bp):
AAGTTTAGTGTTGGAATTACGTATTCATTTCACAGATATAAGTCAATGTTAAGTTTCACTACTGA
AATCATGTAATAAGTTGTGCTAGAATTACGTATTCATTTCACTGGTGTAAATCAATGCTAAATTT
CACTGCTAAAAAGATGTGAT
Found at i:152531 original size:31 final size:31
Alignment explanation
Indices: 152462--152542 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 31
152452 TCATAATTAT
* *
152462 TTCGGGTGACTTGCACGGGAGCCCTGAAGGA
1 TTCGAGTGACTTGCACGGGAGCCCCGAAGGA
152493 ---GAGTGACTTGCACGGGAGCCCCGAAGGA
1 TTCGAGTGACTTGCACGGGAGCCCCGAAGGA
152521 TTCGAGTGACTTGCACGGGAGC
1 TTCGAGTGACTTGCACGGGAGC
152543 ACCTAATCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 26 0.58
31 19 0.42
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.17
Consensus pattern (31 bp):
TTCGAGTGACTTGCACGGGAGCCCCGAAGGA
Found at i:154497 original size:76 final size:76
Alignment explanation
Indices: 154402--154664 Score: 296
Period size: 76 Copynumber: 3.4 Consensus size: 76
154392 AATGATGGAA
* * * * * *
154402 TTAGTGTTGGAATTACGTATTCAAATCACTGGTGTAAGTTAATGATAAGTTTCATTATTGGAATA
1 TTAGTGCTGGAATTACGTATTCAATTCACTGGTGTAAGTAAATGATAAATTTCAATGTTGGAATA
154467 ATGTGATAAGT
66 ATGTGATAAGT
* * * * * * *
154478 TTAGCGCTGGAATTACGTATTCATTTTACTGGTGTAAGTCAATGTTAAATTTCAATGTTGAAATG
1 TTAGTGCTGGAATTACGTATTCAATTCACTGGTGTAAGTAAATGATAAATTTCAATGTTGGAATA
154543 ATGTGATAAGT
66 ATGTGATAAGT
* * **
154554 TTAGTGCTTGAATTACGTATTC-ATTACACTGATGTAAGTCAAATGATAAATTT-AACTGCGGGA
1 TTAGTGCTGGAATTACGTATTCAATT-CACTGGTGTAAGT-AAATGATAAATTTCAA-TGTTGGA
*
154617 ATTATGTGATAAGT
63 ATAATGTGATAAGT
* * *
154631 TTAGTTCTTGAATTACGTATTCATTTCACTGGTG
1 TTAGTGCTGGAATTACGTATTCAATTCACTGGTG
154665 GAGTTGGACA
Statistics
Matches: 157, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
75 2 0.01
76 97 0.62
77 56 0.36
78 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (76 bp):
TTAGTGCTGGAATTACGTATTCAATTCACTGGTGTAAGTAAATGATAAATTTCAATGTTGGAATA
ATGTGATAAGT
Found at i:164411 original size:20 final size:20
Alignment explanation
Indices: 164386--164425 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
164376 GCTACTTAGT
164386 TATTCTCTCGAACACTAAGC
1 TATTCTCTCGAACACTAAGC
164406 TATTCTCTCGAACACTAAGC
1 TATTCTCTCGAACACTAAGC
164426 AATCTCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (20 bp):
TATTCTCTCGAACACTAAGC
Found at i:166956 original size:85 final size:86
Alignment explanation
Indices: 166798--167075 Score: 219
Period size: 85 Copynumber: 3.3 Consensus size: 86
166788 CATTGATCGT
* * * * * ** * * **
166798 GACTTAGCATCCTTCAGATAAAGGAGCAAGATCATTC-CGAGATTTGGTGTCCTTCA-GATAATT
1 GACTTGGCGTCCTTTAGAGAAAGGAGCAAGATCATTCTC-CGATTTGGCATCATTCAGGAGAAAG
*
166861 AAGCAAATCAATCATTGATTAC
65 AAGCAAATCAACCATTGATTAC
* * **
166883 GACTTGGTC-TCCTTTAGAGAAAGGAGC-A-A-CATTGCTACCCGATTTGGCGTCCTT-TTGAGA
1 GACTTGG-CGTCCTTTAGAGAAAGGAGCAAGATCATT-CT--CCGATTTGGCATCATTCAGGAGA
* * * *
166943 AAGGAGCATATCAACCTTTGATTAT
62 AAGAAGCAAATCAACCATTGATTAC
* * * * * *
166968 TACTTGGCTTCCTTTAGAGAAATGTGCAAGATCATTCTCTGATTTGGTATCATTCAGGAGAAAGA
1 GACTTGGCGTCCTTTAGAGAAAGGAGCAAGATCATTCTCCGATTTGGCATCATTCAGGAGAAAGA
*
167033 AGCAGATCAACCATTGATTAC
66 AGCAAATCAACCATTGATTAC
167054 GACTTGGCGTCCTTTAGAGAAA
1 GACTTGGCGTCCTTTAGAGAAA
167076 ATAAGAAGAT
Statistics
Matches: 153, Mismatches: 29, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
82 4 0.03
83 2 0.01
84 2 0.01
85 90 0.59
86 48 0.31
87 3 0.02
88 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (86 bp):
GACTTGGCGTCCTTTAGAGAAAGGAGCAAGATCATTCTCCGATTTGGCATCATTCAGGAGAAAGA
AGCAAATCAACCATTGATTAC
Found at i:167085 original size:86 final size:85
Alignment explanation
Indices: 166862--167135 Score: 222
Period size: 85 Copynumber: 3.2 Consensus size: 85
166852 CAGATAATTA
* * ** *
166862 AGCAAATCAATCATTGATTACGACTTGGTC-TCCTTTAGAGAAAGGAGC-A-A-CATTGCTACCC
1 AGCAGATCAACCATTGATTACGACTTGG-CGTCCTTTAGAGAAATAAGCAAGATCATT-CT--CT
* **
166923 GATTTGGCG-TCCTTTTGAGAAAGG
62 GATTTTGCGAT-CTTCAGAGAAAGG
* * ** * **
166947 AGCATATCAACCTTTGATTATTACTTGGCTTCCTTTAGAGAAATGTGCAAGATCATTCTCTGA-T
1 AGCAGATCAACCATTGATTACGACTTGGCGTCCTTTAGAGAAATAAGCAAGATCATTCTCTGATT
*
167011 TTG-GTATCATTCAGGAGAAAGA
66 TTGCG-ATC-TTCA-GAGAAAGG
** *
167033 AGCAGATCAACCATTGATTACGACTTGGCGTCCTTTAGAGAAAATAAG-AAGATTGTTCTTTGAT
1 AGCAGATCAACCATTGATTACGACTTGGCGTCCTTTAGAG-AAATAAGCAAGATCATTCTCTGAT
* *
167097 TTTGCGGTCTTCAAAGAAAGG
65 TTTGCGATCTTCAGAGAAAGG
167118 AGCAGATCAACCATTGAT
1 AGCAGATCAACCATTGAT
167136 AATGACTTCG
Statistics
Matches: 153, Mismatches: 25, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
83 1 0.01
84 5 0.03
85 69 0.45
86 59 0.39
87 14 0.09
88 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (85 bp):
AGCAGATCAACCATTGATTACGACTTGGCGTCCTTTAGAGAAATAAGCAAGATCATTCTCTGATT
TTGCGATCTTCAGAGAAAGG
Found at i:168311 original size:27 final size:27
Alignment explanation
Indices: 168281--168344 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
168271 AAAAATACTT
* *
168281 TGAATTCTAAAATTACCAAAACACCCC
1 TGAATTCAAAAATTACCAAAACACCCA
* *
168308 TGAATTCAAAAATTATCAAAATACCCA
1 TGAATTCAAAAATTACCAAAACACCCA
168335 TGAACTTCAA
1 TGAA-TTCAA
168345 CCTGATCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (27 bp):
TGAATTCAAAAATTACCAAAACACCCA
Found at i:170538 original size:22 final size:23
Alignment explanation
Indices: 170487--170541 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
170477 TTTTTACATT
**
170487 TATTTATTTATTATGAGTATTTG
1 TATTTATTTATTATGAGTATTCC
* *
170510 TATTTATTTATTTTGTG-ATTCC
1 TATTTATTTATTATGAGTATTCC
170532 TATTTATTTA
1 TATTTATTTA
170542 ACTCATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.64
Consensus pattern (23 bp):
TATTTATTTATTATGAGTATTCC
Found at i:171579 original size:97 final size:97
Alignment explanation
Indices: 171413--171608 Score: 392
Period size: 97 Copynumber: 2.0 Consensus size: 97
171403 GGAAGACTGT
171413 CATTAGTTTCTAATAAATTGGTAACCTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATA
1 CATTAGTTTCTAATAAATTGGTAACCTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATA
171478 GAAGCTCAAACTCTTAAATTTCCAAATTAAAA
66 GAAGCTCAAACTCTTAAATTTCCAAATTAAAA
171510 CATTAGTTTCTAATAAATTGGTAACCTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATA
1 CATTAGTTTCTAATAAATTGGTAACCTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATA
171575 GAAGCTCAAACTCTTAAATTTCCAAATTAAAA
66 GAAGCTCAAACTCTTAAATTTCCAAATTAAAA
171607 CA
1 CA
171609 AAGCGTAACC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (97 bp):
CATTAGTTTCTAATAAATTGGTAACCTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATA
GAAGCTCAAACTCTTAAATTTCCAAATTAAAA
Found at i:171589 original size:50 final size:50
Alignment explanation
Indices: 171438--171589 Score: 124
Period size: 50 Copynumber: 3.1 Consensus size: 50
171428 AATTGGTAAC
171438 CTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATAGAAGCTCAAA
1 CTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATAGAAGCTCAAA
* * * * * * *
171488 CTCTTAAATTTCCAAATTAAAACAT--TAG-T-TTCTAA-TAAATTG--G-T-AAC
1 CTCTTCAA-----AAATTACATCATGGTGGATAAT-TAATTAAATAGAAGCTCAAA
171535 CTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATAGAAGCTCAAA
1 CTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATAGAAGCTCAAA
171585 CTCTT
1 CTCTT
171590 AAATTTCCAA
Statistics
Matches: 73, Mismatches: 14, Indels: 30
0.62 0.12 0.26
Matches are distributed among these distances:
42 10 0.14
44 2 0.03
45 4 0.05
46 7 0.10
47 9 0.12
48 2 0.03
49 2 0.03
50 14 0.19
51 7 0.10
52 4 0.05
53 2 0.03
55 10 0.14
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (50 bp):
CTCTTCAAAAATTACATCATGGTGGATAATTAATTAAATAGAAGCTCAAA
Found at i:179763 original size:44 final size:44
Alignment explanation
Indices: 179713--179797 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
179703 CTCTTTACAT
*
179713 CAACT-CCATGACTGTCCAGAAATACT-AAGATGCAACTAAAACAG
1 CAACTCCCAT-ACTATCCAGAAATA-TGAAGATGCAACTAAAACAG
* * *
179757 CAACTCCCCTACTATCTAGAAATATGAAGATGCCACTAAAA
1 CAACTCCCATACTATCCAGAAATATGAAGATGCAACTAAAA
179798 TAGACGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 31 0.89
45 3 0.09
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (44 bp):
CAACTCCCATACTATCCAGAAATATGAAGATGCAACTAAAACAG
Found at i:181007 original size:83 final size:83
Alignment explanation
Indices: 180686--181012 Score: 266
Period size: 83 Copynumber: 3.9 Consensus size: 83
180676 TTTAGCGGCG
* * * * *
180686 TTTTTATAAAAATACCACAATAAGGTTCATCTATAGT-GCTGTTTTTTCAACAAATACCGCAA-A
1 TTTTTATACAAACACTATAATAAGGTTCATCTATAGTGGC-ATTTTTTCAACAAATACCGCAACA
* *
180749 AAGTAGTACTTTAGCAGCG
65 AAGTAGTACTTTAGTAGCA
* ** * * * * * * ** **
180768 TTTTTATATAAATGCTATAACAGGGTTCTTATATAGTGGTATTTTTTTTAACAAATGTCAAAACA
1 TTTTTATACAAACACTATAATAAGGTTCATCTATAGTGGCA-TTTTTTCAACAAATACCGCAACA
* * *
180833 GAGTATTA-TGTTAGTGGCA
65 AAGTAGTACT-TTAGTAGCA
* ** * * **
180852 TTTTTATACAAACGCCCCTAA-AGGGTTCATCTATAGTGGCATTTGTTCAACAAATGTCGCAACA
1 TTTTTATACAAAC-ACTATAATAAGGTTCATCTATAGTGGCATTTTTTCAACAAATACCGCAACA
* *
180916 ACGGAGTACTTTAGTAGCA
65 AAGTAGTACTTTAGTAGCA
* * *
180935 TTTTTATACAAACATTGTAATAAGGTTCATCTATAGTGGCATTTTTTCAACAAACACCGCAACAA
1 TTTTTATACAAACACTATAATAAGGTTCATCTATAGTGGCATTTTTTCAACAAATACCGCAACAA
*
181000 AATAGTACTTTAG
66 AGTAGTACTTTAG
181013 CGGTGCTTTT
Statistics
Matches: 189, Mismatches: 49, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
82 32 0.17
83 111 0.59
84 42 0.22
85 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (83 bp):
TTTTTATACAAACACTATAATAAGGTTCATCTATAGTGGCATTTTTTCAACAAATACCGCAACAA
AGTAGTACTTTAGTAGCA
Found at i:182181 original size:76 final size:76
Alignment explanation
Indices: 182093--182781 Score: 476
Period size: 76 Copynumber: 9.3 Consensus size: 76
182083 ATTTTGTTGT
* *
182093 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTGGAATTATGTATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
*
182158 CATTTCACTGG
66 CATTTCACTGA
* * ** *
182169 TGTAAGTCAATGTTAAATTTCACTTCAGGAATTATGTGATAAGTTTAGTGCTATAATTACGTATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
182234 CATTTCACTGA
66 CATTTCACTGA
* * * * * * * *
182245 TGCAAGTTAATATTAAGCTTCA----AAG-TTTAGTGTTGGAGTCA-TTTA-T--T-CATTTCAC
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTA-TG-T-GA-TAAGTTTAGTGCTAGAATT-AC
* ** *
182300 -TATTGTAAGTCAATG-
61 GTATT-CATTTCACTGA
* * *
182315 T-TAAGTT-TTGTT--G-TT-------GGAATTATGTGATAAGTTTAGTGTTGGAATTACGTATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
* *
182368 CATTTTACTGG
66 CATTTCACTGA
* * * ** * * * *
182379 TATAAGTCAATGTTAAATTTCATTGCTGGAATTATGTGATAAGTTTAGTGTTGGAATTACATATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
*
182444 CATTTCACTGG
66 CATTTCACTGA
* * * ** * * *
182455 TGCAAGTCAATGTTAAGTTTCACTGTTGGAATTATGTGATAAGTTTATTGTTGGAATTACGTATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
** *
182520 CATTTCGTTGG
66 CATTTCACTGA
** * * *
182531 TGTAAGTTAATGTTAAGTTTCATTAG-TGGAATTATTTGATAAGTTTAGTGCTAGAATTTCGTAT
1 TGTAAGTTAATGTTAAGTTTCA-CGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
* *
182595 TCATTTTA-TTA
65 TCATTTCACTGA
* ** * * * *
182606 GTGTAAGTTAATGTTAAATTTCACTACTGAAATGATGTGATAAGTTTAGTGCTTGAATTACGTAT
1 -TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTAT
*
182671 TCATTTCACTGG
65 TCATTTCACTGA
* ** * * * * * *
182683 TGTAAGTCAATGTTAAGTTTCACTACTGAAATCATGTCATAGGTTTAGTGCTAGAACTACGTATT
1 TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
*
182748 CATTTCACTGG
66 CATTTCACTGA
*
182759 TGTAAGTCAATGTTAAGTTTCAC
1 TGTAAGTTAATGTTAAGTTTCAC
182782 TGATAGAATT
Statistics
Matches: 502, Mismatches: 81, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.00
60 6 0.01
61 2 0.00
62 3 0.01
63 11 0.02
64 8 0.02
65 7 0.01
66 5 0.01
68 3 0.01
69 7 0.01
70 8 0.02
71 12 0.02
72 4 0.01
73 2 0.00
74 6 0.01
75 3 0.01
76 411 0.82
77 2 0.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (76 bp):
TGTAAGTTAATGTTAAGTTTCACGGCAGGAATTATGTGATAAGTTTAGTGCTAGAATTACGTATT
CATTTCACTGA
Found at i:182537 original size:228 final size:228
Alignment explanation
Indices: 182288--182780 Score: 675
Period size: 228 Copynumber: 2.2 Consensus size: 228
182278 TGGAGTCATT
** **
182288 TATTCATTTCACTATTGTAAGTCAATGTTAAGTTTTGTT-GTTGGAATTATGTGATAAGTTTAGT
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTAG-TGGAATTATGTGATAAGTTTAGT
* * * * * * *
182352 GTTGGAATTACGTATTCATTTTACTGGTATAAGTCAATGTTAAATTTCATTGCTGGAATTATGTG
65 GCTAGAATTACGTATTCATTTTACTAGTATAAGTCAATGTTAAATTTCACTACTGAAATGATGTG
**
182417 ATAAGTTTAGTG-TTGGAATTACATATTCATTTCACTGGTGCAAGTCAATGTTAAGTTTCACTGT
130 ATAAGTTTAGTGCTT-GAATTACATATTCATTTCACTGGTGCAAGTCAATGTTAAGTTTCACTAC
* * * * * * *
182481 TGGAATTATGTGATAAGTTTATTGTTGGAATTACG
194 TGAAATCATGTCATAAGTTTAGTGCTAGAACTACG
** * *
182516 TATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTCATTAGTGGAATTATTTGATAAGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTAGTGGAATTATGTGATAAGTTTAGTG
* * * *
182581 CTAGAATTTCGTATTCATTTTATTAGTGTAAGTTAATGTTAAATTTCACTACTGAAATGATGTGA
66 CTAGAATTACGTATTCATTTTACTAGTATAAGTCAATGTTAAATTTCACTACTGAAATGATGTGA
* *
182646 TAAGTTTAGTGCTTGAATTACGTATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTG
131 TAAGTTTAGTGCTTGAATTACATATTCATTTCACTGGTGCAAGTCAATGTTAAGTTTCACTACTG
*
182711 AAATCATGTCATAGGTTTAGTGCTAGAACTACG
196 AAATCATGTCATAAGTTTAGTGCTAGAACTACG
182744 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCA
182781 CTGATAGAAT
Statistics
Matches: 229, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
228 226 0.99
229 3 0.01
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (228 bp):
TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCATTAGTGGAATTATGTGATAAGTTTAGTG
CTAGAATTACGTATTCATTTTACTAGTATAAGTCAATGTTAAATTTCACTACTGAAATGATGTGA
TAAGTTTAGTGCTTGAATTACATATTCATTTCACTGGTGCAAGTCAATGTTAAGTTTCACTACTG
AAATCATGTCATAAGTTTAGTGCTAGAACTACG
Found at i:182782 original size:76 final size:76
Alignment explanation
Indices: 182288--182782 Score: 612
Period size: 76 Copynumber: 6.5 Consensus size: 76
182278 TGGAGTCATT
** *** **
182288 TATTCATTTCACTATTGTAAGTCAATGTTAAGTTTTGTTGTTGGAATTATGTGATAAGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
*
182353 TTGGAATTACG
66 CTGGAATTACG
* * * * *
182364 TATTCATTTTACTGGTATAAGTCAATGTTAAATTTCATTGCTGGAATTATGTGATAAGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
* *
182429 TTGGAATTACA
66 CTGGAATTACG
* ** *
182440 TATTCATTTCACTGGTGCAAGTCAATGTTAAGTTTCACTGTTGGAATTATGTGATAAGTTTATTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
*
182505 TTGGAATTACG
66 CTGGAATTACG
** * * * *
182516 TATTCATTTCGTTGGTGTAAGTTAATGTTAAGTTTCATTAGTGGAATTATTTGATAAGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
* *
182581 CTAGAATTTCG
66 CTGGAATTACG
* * * * * * *
182592 TATTCATTTTATTAGTGTAAGTTAATGTTAAATTTCACTACTGAAATGATGTGATAAGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
*
182657 CTTGAATTACG
66 CTGGAATTACG
* * * *
182668 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGAAATCATGTCATAGGTTTAGTG
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
* *
182733 CTAGAACTACG
66 CTGGAATTACG
182744 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACT
1 TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACT
182783 GATAGAATTG
Statistics
Matches: 369, Mismatches: 50, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 369 1.00
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (76 bp):
TATTCATTTCACTGGTGTAAGTCAATGTTAAGTTTCACTACTGGAATTATGTGATAAGTTTAGTG
CTGGAATTACG
Found at i:182863 original size:16 final size:16
Alignment explanation
Indices: 182842--182885 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
182832 TGATTAAGCG
182842 CTGAATGATTCAAATA
1 CTGAATGATTCAAATA
*
182858 CTGAATGATTCAAATG
1 CTGAATGATTCAAATA
182874 CTGAATGATTCA
1 CTGAATGATTCA
182886 GAGGATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (16 bp):
CTGAATGATTCAAATA
Found at i:183859 original size:43 final size:43
Alignment explanation
Indices: 183806--184296 Score: 552
Period size: 43 Copynumber: 11.4 Consensus size: 43
183796 GAGCATGCAA
* * * *
183806 AAACGGTAAGGACTTA-CCTTTGCACATAGAAAAAGAGCTTGGG
1 AAACGGTAAGGTCTTATCC-TTGCACATAGCAAAGGAGCCTGGG
* * *
183849 AAACGATAAGGTCTTATCCTTACACATAGCAAAGGAGCCTTGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * *
183892 AAATGGTAAGGTCTTATCCTTGCACATAACAAAGGAGCCTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
** * *
183935 AAACGGTAAGGTCTTATCCTTTTACATAGCAAATGAGCCTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* *
183978 AAATGGTAATGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * * *
184021 AAACGGTAAGGTCTTACCCTTGTACATAGGAAAGGAGCTTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
** * *
184064 AAATAGTAAGGTCTTATCCTTGTACATAGCAAAGGAGCCTGAG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
*
184107 AAACGGTAAGGTCTTATCCTTGTACATAGCAAAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * * *
184150 AAAACGGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTAGG
1 -AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * *
184194 AAACGGTTAGGACTTACCCTTGCACATAGTAAAGGAGCCTGGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
* * * * * * *
184237 TAATGGTAAGGACTTACCCTTGCACATAACAGAGGAGCCTCTGG
1 AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCT-GGG
* *
184281 TAACGGTAAGGACTTA
1 AAACGGTAAGGTCTTA
184297 CAAGTCATAG
Statistics
Matches: 389, Mismatches: 56, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
43 333 0.86
44 56 0.14
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (43 bp):
AAACGGTAAGGTCTTATCCTTGCACATAGCAAAGGAGCCTGGG
Found at i:185258 original size:17 final size:17
Alignment explanation
Indices: 185229--185261 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
185219 GAGTTTTCGG
185229 ACTTATCCAAATCATTT
1 ACTTATCCAAATCATTT
185246 ACTTAATCC-AATCATT
1 ACTT-ATCCAAATCATT
185262 GATGTTGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
ACTTATCCAAATCATTT
Found at i:186675 original size:20 final size:20
Alignment explanation
Indices: 186645--186697 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
186635 TGACTTTTTT
**
186645 GTCAA-AGTCAACGGTCAAA
1 GTCAATAGTCAACAATCAAA
*
186664 GTCAATAGTCAACAATTAAA
1 GTCAATAGTCAACAATCAAA
*
186684 GTCAATGGTCAACA
1 GTCAATAGTCAACA
186698 GCGGTCAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
GTCAATAGTCAACAATCAAA
Found at i:187711 original size:69 final size:69
Alignment explanation
Indices: 187466--187701 Score: 267
Period size: 69 Copynumber: 3.4 Consensus size: 69
187456 CATGAGCTTT
* * * * **
187466 GAAGGATTAGAGTGACTCATAAGAGAGCACCTAATCGTGATTATTCTTGGTT-ACTCGCACGAAA
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATT-TCGGTTGACTCGCACGGGA
187530 GCCCC
65 GCCCC
* * * * * * * * *
187535 TAAGGAATAGAGTGACTCACACGGGAGCATCTAGTCATAATTATTTCGGGTGACTTGCACAGGAG
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATTTCGGTTGACTCGCACGGGAG
187600 CCCC
66 CCCC
** ** *
187604 GAAGGATTAGAGTGACTTGCTTGGGAGCACCTAATCGTAATTATTTCAGTTGACTCGCACGGGAG
1 GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATTTCGGTTGACTCGCACGGGAG
*
187669 CTCC
66 CCCC
187673 GAAGGATTAGAGTGACTCACAAGGGAGCA
1 GAAGGATTAGAGTGACTCACAAGGGAGCA
187702 TATTATCGTA
Statistics
Matches: 133, Mismatches: 33, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
68 4 0.03
69 129 0.97
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (69 bp):
GAAGGATTAGAGTGACTCACAAGGGAGCACCTAATCGTAATTATTTCGGTTGACTCGCACGGGAG
CCCC
Found at i:192029 original size:23 final size:24
Alignment explanation
Indices: 191994--192039 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
191984 AACTCATTGG
* *
191994 GTCAACTCATTGA-CTTTGACCGA
1 GTCAACCCATTGATCGTTGACCGA
*
192017 GTCAACCCGTTGATCGTTGACCG
1 GTCAACCCATTGATCGTTGACCG
192040 TTAACTTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (24 bp):
GTCAACCCATTGATCGTTGACCGA
Found at i:196313 original size:353 final size:353
Alignment explanation
Indices: 195637--196349 Score: 1006
Period size: 353 Copynumber: 2.0 Consensus size: 353
195627 CAGATGCATA
*
195637 TCAACAGAAATTACATAAAAACAGAGCTTAATTAAAAAAAACGGATAGAATCGGGTGATAAATCA
1 TCAACAGAAATTACATAAAAACAGAGCTTAATTAAAAAAAACAGATAGAATCGGGTGATAAATCA
* * *
195702 GTCAAAAACAACTTACCGATTTGAGTTTGGCGAAACGGACTCCAAAAACAGATTCAGGACATCGA
66 GTCAAAAACAACTTACCGATTTGAGTTTGGCGAAACAGACCCCAAAAACAGAATCAGGACATCGA
* ** *
195767 AAACATAAAATATGACTTTTCAAAAATTTTGAATTTTCGGTCAAAGTTAACGGGTTTGACTGGCA
131 AAACATAAAATATGACTTTTCAAAAATTTTGAATTTTCGGTCAAAGTCAACAAGTTTGACTAGCA
** * * *
195832 ATTTCGAGGCCTTCGGGTCCGAATTTCGAAAAACAGACTGCGGAATCAGACTCAAAATATCAAAA
196 ATTTAAAGGCCTTCAGGTCCAAATTTCGAAAAACAGACTGCGGAATCAGACTCAAAACATCAAAA
* * * * * *
195897 AACGTCAAGATATGTATAATCGGTCAAAGCAAAAGGTCTTTTAGTTCCCGGTCAACGCCGGTCAA
261 AACATCAAGATAGGTATAATCGGTCAAAGCAAAAGGTCGTTTAATGCCCGGTCAACACCGGTCAA
*
195962 AGTTC-TGATCAATAGTGGTCAACGCCGG
326 AGTTCTTG-TCAATAGTGGTCAACGCCAG
* *** *
195990 TCAACA-ATATTACATAAAAA-ATGGAGCTTAATTCTGAAAAATAGATAGAATCGGGTGATAAAT
1 TCAACAGAAATTACATAAAAACA--GAGCTTAATTAAAAAAAACAGATAGAATCGGGTGATAAAT
* * * *
196053 CAGTCAAAAATAACTTACCGGTTTGAGTTTGGCGAAACAGACCCCAAAAAGAGAATCAGGACGTC
64 CAGTCAAAAACAACTTACCGATTTGAGTTTGGCGAAACAGACCCCAAAAACAGAATCAGGACATC
* *
196118 GAAAACATAAAATATGTCTTTTCAAAATTTTTGAATTTTTC-GTCAAAGTCAACAAGTTTGACTA
129 GAAAACATAAAATATGACTTTTCAAAAATTTTGAA-TTTTCGGTCAAAGTCAACAAGTTTGACTA
* * * *
196182 GCAATTTAAAGGCCTTCAGGTCCAAATTTTCGAAAAACAGATTTCGGAATCGGACTCAGAACATC
193 GCAATTTAAAGGCCTTCAGGTCCAAA-TTTCGAAAAACAGACTGCGGAATCAGACTCAAAACATC
*
196247 GAAAAACAT-AAGATAGGTATAATCGGTCAAAGTC-AAAGGTCGTTTAATGCCCGGTCAACACCG
257 AAAAAACATCAAGATAGGTATAATCGGTCAAAG-CAAAAGGTCGTTTAATGCCCGGTCAACACCG
196310 GTCAAAGTTCTTGTCAATAGTGGTCAACGCCAG
321 GTCAAAGTTCTTGTCAATAGTGGTCAACGCCAG
196343 TCAACAG
1 TCAACAG
196350 TCAACGCAGG
Statistics
Matches: 317, Mismatches: 36, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
351 1 0.00
352 13 0.04
353 255 0.80
354 48 0.15
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (353 bp):
TCAACAGAAATTACATAAAAACAGAGCTTAATTAAAAAAAACAGATAGAATCGGGTGATAAATCA
GTCAAAAACAACTTACCGATTTGAGTTTGGCGAAACAGACCCCAAAAACAGAATCAGGACATCGA
AAACATAAAATATGACTTTTCAAAAATTTTGAATTTTCGGTCAAAGTCAACAAGTTTGACTAGCA
ATTTAAAGGCCTTCAGGTCCAAATTTCGAAAAACAGACTGCGGAATCAGACTCAAAACATCAAAA
AACATCAAGATAGGTATAATCGGTCAAAGCAAAAGGTCGTTTAATGCCCGGTCAACACCGGTCAA
AGTTCTTGTCAATAGTGGTCAACGCCAG
Found at i:196354 original size:17 final size:17
Alignment explanation
Indices: 196332--196368 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
196322 GTCAATAGTG
196332 GTCAACGCCA-GTCAACA
1 GTCAACG-CAGGTCAACA
196349 GTCAACGCAGGTCAACA
1 GTCAACGCAGGTCAACA
196366 GTC
1 GTC
196369 GATCATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.14
Consensus pattern (17 bp):
GTCAACGCAGGTCAACA
Found at i:198865 original size:24 final size:24
Alignment explanation
Indices: 198805--198866 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
198795 TTGAATTATA
*
198805 TTATGATACCTAACATGGATTCTG
1 TTATGATACCTGACATGGATTCTG
* *
198829 TTCTAATACCTGACATGGATTCTG
1 TTATGATACCTGACATGGATTCTG
*
198853 TTATGATATCTGAC
1 TTATGATACCTGAC
198867 CTGAATTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (24 bp):
TTATGATACCTGACATGGATTCTG
Found at i:198878 original size:24 final size:24
Alignment explanation
Indices: 198796--198883 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 24
198786 ATTTCTTATT
* *
198796 TGAATTATATTATGATACCTAACA
1 TGAATTATGTTATGATACCTGACA
* * * *
198820 TGGATTCTGTTCTAATACCTGACA
1 TGAATTATGTTATGATACCTGACA
* * * *
198844 TGGATTCTGTTATGATATCTGACC
1 TGAATTATGTTATGATACCTGACA
*
198868 TGAATTATGTTTTGAT
1 TGAATTATGTTATGAT
198884 TTTTTATATA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (24 bp):
TGAATTATGTTATGATACCTGACA
Found at i:201778 original size:76 final size:75
Alignment explanation
Indices: 201687--201851 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 75
201677 TTAAACTCAA
* *
201687 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATATGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATA-GGTTTTAGT
201751 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * *
201763 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
*
201828 TTTAATTAGG
66 TTTAATTAAG
*
201838 ATTTAGAATATTAT
1 ATTTAGGATATTAT
201852 ATTATTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 38 0.48
76 41 0.52
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.57
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:203241 original size:47 final size:45
Alignment explanation
Indices: 203171--203296 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
203161 TATAAAATCT
*
203171 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
203216 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
203263 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
203297 GCATTGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:203445 original size:40 final size:40
Alignment explanation
Indices: 203401--203562 Score: 281
Period size: 40 Copynumber: 4.0 Consensus size: 40
203391 ACCGTAGTGC
203401 TACACATAAGGTCGTGCCCACCATATACACCGAAGAT-TAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAG-TGTAT
*
203441 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
203481 TACAAATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
203521 TACACATAAGGTCTTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
203561 TA
1 TA
203563 TAAACCTGCA
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.99
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Done.