Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 56
Found at i:10027129 original size:13 final size:13
Alignment explanation
Indices: 10027111--10027135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10027101 CAAGCTACAA
10027111 TAGGGATAATGGG
1 TAGGGATAATGGG
10027124 TAGGGATAATGG
1 TAGGGATAATGG
10027136 ATTAAGTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (13 bp):
TAGGGATAATGGG
Found at i:10028188 original size:20 final size:21
Alignment explanation
Indices: 10028163--10028201 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10028153 AGCTGCTGGA
10028163 AACCGGTT-TAACCGGTTTTT
1 AACCGGTTCTAACCGGTTTTT
*
10028183 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
10028202 GATCAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTT
Found at i:10028260 original size:5 final size:5
Alignment explanation
Indices: 10028250--10028290 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
10028240 TGACCGGTCT
*
10028250 GACCC GACCC GACCC GACCC GACCGTT GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACC
10028291 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:10028282 original size:17 final size:17
Alignment explanation
Indices: 10028260--10028297 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10028250 GACCCGACCC
10028260 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
10028277 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
10028294 GACC
1 GACC
10028298 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:10029113 original size:13 final size:13
Alignment explanation
Indices: 10029095--10029119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10029085 TATGTCACAG
10029095 TGGAATTGAATTT
1 TGGAATTGAATTT
10029108 TGGAATTGAATT
1 TGGAATTGAATT
10029120 ACGATGGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TGGAATTGAATTT
Found at i:10035357 original size:10 final size:9
Alignment explanation
Indices: 10035332--10035411 Score: 52
Period size: 10 Copynumber: 8.3 Consensus size: 9
10035322 AACTGATTTA
10035332 ACCGGTTTG
1 ACCGGTTTG
10035341 ACCGGTTTCG
1 ACCGGTTT-G
* *
10035351 TCCGGTTCG
1 ACCGGTTTG
*
10035360 AACCGGTTCGG
1 -ACCGGTT-TG
10035371 ACCGGTTTCG
1 ACCGGTTT-G
* **
10035381 ATCGGTACG
1 ACCGGTTTG
10035390 AACCGGTTTG
1 -ACCGGTTTG
*
10035400 ACCGGTCTG
1 ACCGGTTTG
10035409 ACC
1 ACC
10035412 CGAACCGACC
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
9 21 0.39
10 32 0.59
11 1 0.02
ACGTcount: A:0.14, C:0.29, G:0.31, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:10035376 original size:30 final size:29
Alignment explanation
Indices: 10035331--10035405 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 29
10035321 AAACTGATTT
*
10035331 AACCGGTTTGACCGGTTTCG-TCCGGTTCG
1 AACCGGTTTGACCGGTTTCGAT-CGGTACG
*
10035360 AACCGGTTCGGACCGGTTTCGATCGGTACG
1 AACCGGTT-TGACCGGTTTCGATCGGTACG
10035390 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
10035406 CTGACCCGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 15 0.37
30 25 0.61
31 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.27
Consensus pattern (29 bp):
AACCGGTTTGACCGGTTTCGATCGGTACG
Found at i:10035440 original size:12 final size:12
Alignment explanation
Indices: 10035423--10035450 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10035413 GAACCGACCC
10035423 GACCCGACCGTT
1 GACCCGACCGTT
10035435 GACCCGACCGTT
1 GACCCGACCGTT
10035447 GACC
1 GACC
10035451 GTTGACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.43, G:0.25, T:0.14
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:10039144 original size:23 final size:23
Alignment explanation
Indices: 10039114--10039161 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
10039104 CTCCTAAAAC
10039114 CCTAAAAATTCTA-AAAA-ATAATT
1 CCTAAAAA--CTACAAAAGATAATT
10039137 CCTAAAAACTACAAAAGATAATT
1 CCTAAAAACTACAAAAGATAATT
10039160 CC
1 CC
10039162 CTTAATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 4 0.17
23 16 0.70
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (23 bp):
CCTAAAAACTACAAAAGATAATT
Found at i:10048315 original size:31 final size:31
Alignment explanation
Indices: 10048272--10048337 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
10048262 TATCATTACA
*
10048272 ACTCTATCTTTTC-AATGGCTAATA-TAGAATC
1 ACTCTATCTTTTCTAA-GGCTAA-ACTAGAACC
10048303 ACTCTAGT-TTTTCTAAGGCTAAACTAGAACC
1 ACTCTA-TCTTTTCTAAGGCTAAACTAGAACC
10048334 ACTC
1 ACTC
10048338 CCTCTTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 1 0.03
31 27 0.87
32 3 0.10
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (31 bp):
ACTCTATCTTTTCTAAGGCTAAACTAGAACC
Found at i:10048695 original size:20 final size:20
Alignment explanation
Indices: 10048672--10048725 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
10048662 ACTTTGGGGG
10048672 AAGTTTTGAAACTTTTATGA
1 AAGTTTTGAAACTTTTATGA
* * *
10048692 AAGTTTTAAAACTATTGTGA
1 AAGTTTTGAAACTTTTATGA
*
10048712 AAGTATTGAAACTT
1 AAGTTTTGAAACTT
10048726 CTAAACACAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (20 bp):
AAGTTTTGAAACTTTTATGA
Found at i:10060223 original size:46 final size:46
Alignment explanation
Indices: 10060155--10060450 Score: 466
Period size: 46 Copynumber: 6.4 Consensus size: 46
10060145 TAAACCGAAT
* * *
10060155 CCATAATTAAAATGCATCAACGGATGCAATAAGGCATAAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* *
10060201 CCATAATTAAAATACATGAACGGATGCATTAAGGCATAAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* *
10060247 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAATGACG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
*
10060293 CCATAATTAAAATGCTTGAACGGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
*
10060339 CCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* **
10060385 CCATAATTAAAATGCACGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
* *
10060431 CCATAACTAAAATGAATGAA
1 CCATAATTAAAATGCATGAA
10060451 ATGATGCCAT
Statistics
Matches: 232, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 232 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
Found at i:10060285 original size:20 final size:20
Alignment explanation
Indices: 10060215--10060431 Score: 85
Period size: 20 Copynumber: 9.7 Consensus size: 20
10060205 AATTAAAATA
*
10060215 CATGAACGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
* *
10060235 CATAAAAGGATGCCATAATTAAAATG
1 CATGAAAGGATG-C---ATT--AAGG
*
10060261 CATGAACGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
* * *
10060281 CATGAAATGACGCCATAATTAAAATG
1 CATGAAAGGATG-C---ATT--AAGG
* *
10060307 CTTGAACGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
*
10060327 CATGAAAGGATGCCATAATTAAAATG
1 CATGAAAGGATG-C---ATT--AAGG
10060353 CATGAACA-GATGCATTAAGG
1 CATGAA-AGGATGCATTAAGG
*
10060373 CATGAAAGGATGCCATAATTAAAATG
1 CATGAAAGGATG-C---ATT--AAGG
* *
10060399 CACGAAATGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
10060419 CATGAAAGGATGC
1 CATGAAAGGATGC
10060432 CATAACTAAA
Statistics
Matches: 146, Mismatches: 25, Indels: 52
0.65 0.11 0.23
Matches are distributed among these distances:
19 1 0.01
20 62 0.42
21 4 0.03
22 12 0.08
24 12 0.08
25 4 0.03
26 50 0.34
27 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGG
Found at i:10060318 original size:72 final size:72
Alignment explanation
Indices: 10060234--10060660 Score: 290
Period size: 72 Copynumber: 6.1 Consensus size: 72
10060224 ATGCATTAAG
* * * *
10060234 GCATAAAAGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAATGACGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10060299 TTAAAAT
66 TTAAAAT
* * * *
10060306 GCTTGAACGGATG-C---ATT--AAGGCATGAAAGGATGCCATAATTAAAATGCATGAACA-GAT
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATG-C---ATT--AAGGCATGAA-AGGAT
*
10060364 G-C---ATT--AAG
59 GCCATAATTAAAAT
* *
10060372 GCATGAAAGGATGCCATAATTAAAATGCACGAAATGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
*
10060437 CTAAAAT
66 TTAAAAT
* * *
10060444 GAATGAAATGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10060509 TTAAAAT
66 TTAAAAT
** * * * * *
10060516 GCATGAACTGATG-C---ATT--AAGGCATGAAAGGATACCA-TAA--C-TAAAATGCATGAACA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGAT-GCATTAAGGCATGAAA-GGATG-CCA
* * *
10060571 -AATGCATTAAG
63 TAAT-TA-AAAT
* * * * * * *
10060582 GCATGAATGGATGCCATAACTAAAATGTATGAAAAGATACATTAGGGCATGAAAGGATGCCATGA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10060647 TTAAAAT
66 TTAAAAT
10060654 GCATGAA
1 GCATGAA
10060661 CCGATGTATT
Statistics
Matches: 271, Mismatches: 48, Indels: 72
0.69 0.12 0.18
Matches are distributed among these distances:
63 4 0.01
64 8 0.03
65 4 0.01
66 69 0.25
67 6 0.02
68 12 0.04
70 10 0.04
71 6 0.02
72 137 0.51
73 4 0.01
74 7 0.03
75 4 0.01
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.22
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
TTAAAAT
Found at i:10060457 original size:118 final size:118
Alignment explanation
Indices: 10060328--10060568 Score: 419
Period size: 118 Copynumber: 2.0 Consensus size: 118
10060318 GCATTAAGGC
10060328 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAATT
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAATT
*
10060393 AAAATGCACGAAATGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGA
66 AAAATGCACGAAATGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGA
* **
10060446 ATGAAATGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATT
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAATT
* * *
10060511 AAAATGCATGAACTGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGC
66 AAAATGCACGAAATGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGA
10060564 ATGAA
1 ATGAA
10060569 CAAATGCATT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.22
Consensus pattern (118 bp):
ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAATT
AAAATGCACGAAATGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGA
Found at i:10060484 original size:164 final size:164
Alignment explanation
Indices: 10060282--10060615 Score: 562
Period size: 164 Copynumber: 2.0 Consensus size: 164
10060272 GCATTAAGGC
*
10060282 ATGAAATGACGCCATAATTAAAATGCTTGAACGGATGCATTAAGGCATGAAAGGATGCCATAATT
1 ATGAAATGACGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAATT
* * *
10060347 AAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCACGAA-ATGATG
66 AAAATGCATGAACAGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCACGAACA-AATG
10060411 CATTAAGGCATGAAAGGATGCCATAACTAAAATGA
130 CATTAAGGCATGAAAGGATGCCATAACTAAAATGA
* *
10060446 ATGAAATGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATT
1 ATGAAATGACGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAATT
* *
10060511 AAAATGCATGAACTGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGC
66 AAAATGCATGAACAGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCACGAACAAATGC
* *
10060576 ATTAAGGCATGAATGGATGCCATAACTAAAATGT
131 ATTAAGGCATGAAAGGATGCCATAACTAAAATGA
10060610 ATGAAA
1 ATGAAA
10060616 AGATACATTA
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
164 158 0.99
165 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (164 bp):
ATGAAATGACGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAATT
AAAATGCATGAACAGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCACGAACAAATGC
ATTAAGGCATGAAAGGATGCCATAACTAAAATGA
Found at i:10060496 original size:46 final size:46
Alignment explanation
Indices: 10060446--10060692 Score: 323
Period size: 46 Copynumber: 5.4 Consensus size: 46
10060436 ACTAAAATGA
* **
10060446 ATGAAATGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
*
10060492 ATGAAAGGATGCCATAATTAAAATGCATGAACTGATGCATTAAGGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
* * *
10060538 ATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
* * * * * *
10060584 ATGAATGGATGCCATAACTAAAATGTATGAAAAGATACATTAGGGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
* * * *
10060630 ATGAAAGGATGCCATGATTAAAATGCATGAACCGATGTATTAATGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
* *
10060676 ATGAAAAGATACCATAA
1 ATGAAAGGATGCCATAA
10060693 CTGAAATTAA
Statistics
Matches: 174, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 174 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (46 bp):
ATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGC
Found at i:10060608 original size:210 final size:210
Alignment explanation
Indices: 10060243--10060660 Score: 674
Period size: 210 Copynumber: 2.0 Consensus size: 210
10060233 GGCATAAAAG
*
10060243 GATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAATGACGCCATAATTAAAATGC
1 GATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGACGCCATAATTAAAATGC
* * * *
10060308 TTGAACGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGG
66 ATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGG
* * *
10060373 CATGAAAGGATGCCATAATTAAAATGCACGAAATGATGCATTAAGGCATGAAAGGATGCCATAAC
131 CATGAAAGGATGCCATAACTAAAATGCACGAAAAGATACATTAAGGCATGAAAGGATGCCATAAC
10060438 TAAAATGAATGAAAT
196 TAAAATGAATGAAAT
* *
10060453 GATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGC
1 GATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGACGCCATAATTAAAATGC
*
10060518 ATGAACTGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGG
66 ATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGG
* * * * * *
10060583 CATGAATGGATGCCATAACTAAAATGTATGAAAAGATACATTAGGGCATGAAAGGATGCCATGAT
131 CATGAAAGGATGCCATAACTAAAATGCACGAAAAGATACATTAAGGCATGAAAGGATGCCATAAC
*
10060648 TAAAATGCATGAA
196 TAAAATGAATGAA
10060661 CCGATGTATT
Statistics
Matches: 190, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
210 190 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (210 bp):
GATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGACGCCATAATTAAAATGC
ATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGG
CATGAAAGGATGCCATAACTAAAATGCACGAAAAGATACATTAAGGCATGAAAGGATGCCATAAC
TAAAATGAATGAAAT
Found at i:10060706 original size:138 final size:138
Alignment explanation
Indices: 10060453--10060706 Score: 382
Period size: 138 Copynumber: 1.8 Consensus size: 138
10060443 TGAATGAAAT
* ** *
10060453 GATGCCATAATTAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGC
1 GATGCCATAACTAAAATGCATGAAAAGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGC
* * *
10060518 ATGAACTGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACAAATGCATTAAGG
66 ATGAACCGATGCATTAAGGCATGAAAAGATACCATAACTAAAATGAATGAACAAATGCATTAAGG
10060583 CATGAATG
131 CATGAATG
* * *
10060591 GATGCCATAACTAAAATGTATGAAAAGATACATTAGGGCATGAAAGGATGCCATGATTAAAATGC
1 GATGCCATAACTAAAATGCATGAAAAGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGC
* * * *
10060656 ATGAACCGATGTATTAATGCATGAAAAGATACCATAACTGAAATTAATGAA
66 ATGAACCGATGCATTAAGGCATGAAAAGATACCATAACTAAAATGAATGAA
10060707 TAATTACTAA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (138 bp):
GATGCCATAACTAAAATGCATGAAAAGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGC
ATGAACCGATGCATTAAGGCATGAAAAGATACCATAACTAAAATGAATGAACAAATGCATTAAGG
CATGAATG
Found at i:10067025 original size:37 final size:37
Alignment explanation
Indices: 10066981--10067339 Score: 360
Period size: 37 Copynumber: 9.7 Consensus size: 37
10066971 TTCAAAAAAA
*
10066981 TTTAAAAACTATATATTATACATATTTTCAAAAATGT
1 TTTAAAAACTATATATTATATATATTTTCAAAAATGT
*
10067018 TTTAAAAAACTACATA--ATATATATTTTCAAAAATGT
1 TTT-AAAAACTATATATTATATATATTTTCAAAAATGT
10067054 TTTAAAAACTATATATTATATATATTTTC-AAAATGTT
1 TTTAAAAACTATATATTATATATATTTTCAAAAATG-T
* * *
10067091 TTTAAAAACTATATAATATATAAATGTTTTCAAAAATAT
1 TTTAAAAACTATAT-AT-TATATATATTTTCAAAAATGT
* * *
10067130 TTTCAAAGCTAAATATTATAT-TAGTTTTC-AAAATGAT
1 TTTAAAAACTATATATTATATATA-TTTTCAAAAATG-T
* *
10067167 TTTAAAAACTATATATTATATATATATTCTAAAATGT
1 TTTAAAAACTATATATTATATATATTTTCAAAAATGT
* * * *
10067204 TTTAAAAATTATATACTATATA-GTTTTCAAAAATAT
1 TTTAAAAACTATATATTATATATATTTTCAAAAATGT
* *
10067240 TTTAGAAAA-TATATATTATATACATTTTC-AATATGT
1 TTTA-AAAACTATATATTATATATATTTTCAAAAATGT
* *
10067276 TTTAAAAACTATATA-TATTATACGTGTTTTCAAAAACCG-
1 TTTAAAAACTATATATTA-TATA--TATTTTCAAAAA-TGT
** *
10067315 TTTGCAAACTATATAATATATATAT
1 TTTAAAAACTATATATTATATATAT
10067340 ATATATATAT
Statistics
Matches: 269, Mismatches: 33, Indels: 40
0.79 0.10 0.12
Matches are distributed among these distances:
35 17 0.06
36 79 0.29
37 94 0.35
38 28 0.10
39 43 0.16
40 8 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (37 bp):
TTTAAAAACTATATATTATATATATTTTCAAAAATGT
Found at i:10067164 original size:76 final size:72
Alignment explanation
Indices: 10066971--10067291 Score: 321
Period size: 76 Copynumber: 4.4 Consensus size: 72
10066961 GTCAAAAACA
* * * *
10066971 TTCAAAAA-AATTTAAAAACTATATATTATACATATTTTCAAAAATGTTTTAAAAAACTACATAA
1 TTCAAAAATATTTTAAAAACTATATATTATA-TTATTTTC-AAAATGTTTTTAAAAACTATATAA
10067035 TATAT-ATT
64 TATATAATT
*
10067043 TTCAAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTTAAAAACTATATAAT
1 TTCAAAAATATTTTAAAAACTATATATTATAT-TATTTTCAAAATGTTTTTAAAAACTATATAAT
10067108 ATATAAATGTT
65 ATAT-AA--TT
* * * * *
10067119 TTCAAAAATATTTTCAAAGCTAAATATTATATTAGTTTTCAAAATGATTTTAAAAACTATATATT
1 TTCAAAAATATTTTAAAAACTATATATTATATTA-TTTTCAAAATGTTTTTAAAAACTATATAAT
*
10067184 ATATATATA
65 ATATA-ATT
* * * * *
10067193 TTCTAAAATGTTTTAAAAATTATATACTATA-TAGTTTTCAAAAAT-ATTTTAGAAAA-TATATA
1 TTCAAAAATATTTTAAAAACTATATATTATATTA-TTTTC-AAAATGTTTTTA-AAAACTATATA
*
10067255 TTATATACATT
63 ATATATA-ATT
* *
10067266 TTC-AATATGTTTTAAAAACTATATAT
1 TTCAAAAATATTTTAAAAACTATATAT
10067292 ATTATACGTG
Statistics
Matches: 215, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
72 55 0.26
73 59 0.27
74 35 0.16
75 3 0.01
76 63 0.29
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (72 bp):
TTCAAAAATATTTTAAAAACTATATATTATATTATTTTCAAAATGTTTTTAAAAACTATATAATA
TATAATT
Found at i:10067298 original size:36 final size:37
Alignment explanation
Indices: 10066981--10067311 Score: 303
Period size: 36 Copynumber: 8.9 Consensus size: 37
10066971 TTCAAAAAAA
*
10066981 TTTAAAAACTATATAT-TATACATATTTTCAAAAATGT
1 TTTAAAAACTATATATAT-TATATATTTTCAAAAATGT
*
10067018 TTTAAAAAACTACATA-A-TATATATTTTCAAAAATGT
1 TTT-AAAAACTATATATATTATATATTTTCAAAAATGT
10067054 TTTAAAAACTATATAT-TATATATATTTTC-AAAATGTT
1 TTTAAAAACTATATATAT-TATATATTTTCAAAAATG-T
* * *
10067091 TTTAAAAACTATATAATATATAAATGTTTTCAAAAATAT
1 TTTAAAAACTATAT-ATAT-TATATATTTTCAAAAATGT
* *
10067130 TTTCAAAGCTA-A-ATATTATATTAGTTTTC-AAAATGAT
1 TTTAAAAACTATATATATTATA-TA-TTTTCAAAAATG-T
* *
10067167 TTTAAAAACTATATAT-TATATATATATTCTAAAATGT
1 TTTAAAAACTATATATAT-TATATATTTTCAAAAATGT
* *
10067204 TTTAAAAA-T-TATATACTATATAGTTTTCAAAAATAT
1 TTTAAAAACTATATATATTATATA-TTTTCAAAAATGT
* *
10067240 TTTAGAAAA-TATATAT-TATATACATTTTC-AATATGT
1 TTTA-AAAACTATATATAT-TATATATTTTCAAAAATGT
*
10067276 TTTAAAAACTATATATATTATACGTGTTTTCAAAAA
1 TTTAAAAACTATATATATTATA--TATTTTCAAAAA
10067312 CCGTTTGCAA
Statistics
Matches: 243, Mismatches: 25, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
35 29 0.12
36 72 0.30
37 68 0.28
38 39 0.16
39 30 0.12
40 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTAAAAACTATATATATTATATATTTTCAAAAATGT
Found at i:10067328 original size:75 final size:73
Alignment explanation
Indices: 10067047--10067341 Score: 200
Period size: 76 Copynumber: 4.0 Consensus size: 73
10067037 TATATTTTCA
* * * **** * *
10067047 AAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTTAAAAACTATATAATATAT
1 AAAATGTTTTAAAAATTATATACTATATA-GTTTTCAAAAACAGTTTAGAAACTATATATTATAT
* * *
10067112 AAATGTTTTCA
65 ACA--TATTCT
* * ** * * ** * *
10067123 AAAATATTTTCAAAGCTAAATATTATATTAGTTTTCAAAATGATTTTAAAAACTATATATTATAT
1 AAAATGTTTTAAAAATTATATACTATA-TAGTTTTCAAAAACAGTTTAGAAACTATATATTATAT
*
10067188 ATATATTCT
65 ACATATTCT
* * *
10067197 AAAATGTTTTAAAAATTATATACTATATAGTTTTCAAAAATATTTTAGAAAATATATATTATATA
1 AAAATGTTTTAAAAATTATATACTATATAGTTTTCAAAAACAGTTTAGAAACTATATATTATATA
*
10067262 CATTTTC-
66 CATATTCT
* * * *
10067269 AATATGTTTTAAAAACTATATA-TATTATACGTGTTTTCAAAAACCGTTT-GCAAACTATATAAT
1 AAAATGTTTTAAAAATTATATACTA-TATA---GTTTTCAAAAACAGTTTAG-AAACTATATATT
*
10067332 ATATATATAT
61 ATATACATAT
10067342 ATATATATAT
Statistics
Matches: 182, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
71 2 0.01
72 24 0.13
73 39 0.21
74 26 0.14
75 32 0.18
76 57 0.31
77 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.44
Consensus pattern (73 bp):
AAAATGTTTTAAAAATTATATACTATATAGTTTTCAAAAACAGTTTAGAAACTATATATTATATA
CATATTCT
Found at i:10067335 original size:2 final size:2
Alignment explanation
Indices: 10067324--10067366 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
10067314 GTTTGCAAAC
*
10067324 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10067365 TA
1 TA
10067367 AAATGAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10068107 original size:84 final size:84
Alignment explanation
Indices: 10067982--10068603 Score: 666
Period size: 84 Copynumber: 7.4 Consensus size: 84
10067972 GTTTGTCTCT
* * * ** * * * **
10067982 GAGCTGAGTGTAATCGAACTCAAAGGTCTTCAGCTGGCAGATAGCCCTTCTCGACTTAAGCTACA
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
*
10068047 CTGTAAAT-AGTGTGCCTTG
66 CTGCAAATGA-TGTGCCTTG
* * * * * *
10068066 GAGCTGAGCGTAGTTGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
10068131 CTGTAAATGATGTGCACTCG
66 CTGCAAATGATGTGC-CTTG
* * * * ** *
10068151 AAGCTGAGTGTAATCAAACTCGTGGGTC--TT--TGGCAGATAGCCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
10068212 CTACAAATGATATGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * *
10068231 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
10068296 CTGTAAATGATGTTCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * *
10068315 GAGTTAAGCGTAGTCGAACTCGAAGGTC-TTTGAATGGCAGATAACCTTTCTCGATTTAAGCTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG-GTGGCAGATAACCCTTCTCGACTTAAGTTAT
*
10068379 GTTGCAAATGATGTGCCCTT-
65 GCTGCAAATGATGTG-CCTTG
* ** * * *
10068399 GAGTTGAGCGTAGTCGAACTCGAAGGAATTTTGTTGGAAGATAGCCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
* *
10068464 CTGCAAATGATATGCCTTA
66 CTGCAAATGATGTGCCTTG
*
10068483 GAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTAT
10068548 GCTGCAAATGATGTGCCTTG
65 GCTGCAAATGATGTGCCTTG
*
10068568 GAGCTGATCGTAGTCGAACTCGAAGG-CTTTTGGTGG
1 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGG
10068604 GCACGATTCC
Statistics
Matches: 445, Mismatches: 82, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
80 26 0.06
81 38 0.09
82 1 0.00
83 12 0.03
84 266 0.60
85 102 0.23
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATG
CTGCAAATGATGTGCCTTG
Found at i:10069155 original size:219 final size:217
Alignment explanation
Indices: 10068711--10069350 Score: 898
Period size: 219 Copynumber: 3.0 Consensus size: 217
10068701 CAAACATTTA
* * * * *
10068711 TGTTGTTTCGAGGCCAAAATCCTTTGTCGTGAAGTTGAAATTGACTCT--A--AAACT-AGAAAG
1 TGTTGTCTCGAGTCCAATATCCTTCGT-GTGAAGTTGAAATTGGCTCTGAATGAAACTGA-AAAG
* *
10068771 TTGTTTGTTGACAGCCAGTCGCCCCTTCGCTGCGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
64 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
* * *
10068836 TACTTCGTTGTGAAGTTAAAATTGACTCTGAATG-------AAGTTGTTTGTTGACAGTCAATCG
129 TACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAGTTGTTTGTTGACAGTCAGTCG
10068894 CCCCTTCGCTGTGAAGTTGAGCTTG
194 -CCCTTCGCTGTGAAGTTGAGCTTG
10068919 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGT
*
10068984 TGTTTGTTGACAGTCAGTCG-CCTTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATAT
65 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATAT
* *
10069048 TCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTAAAAAGTTGTTTGTTGACAGTCAGTCG
130 ACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAAAGTTGTTTGTTGACAGTCAGTCG
*
10069113 ACACTTCGCTGTGAAGTTGAGCTTG
194 -CCCTTCGCTGTGAAGTTGAGCTTG
*
10069138 TGTTGTCTCGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGT
* * * *
10069203 TATTTGTTGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCTAATAT
65 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATAT
* *
10069268 CCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTC-G-C-
130 ACTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAAAGTTGTTTGTTGACAGTCAGTCG
*
10069330 CCCTTTGCTGTGAAGTTGAGC
194 CCCTTCGCTGTGAAGTTGAGC
10069351 AACCACCATC
Statistics
Matches: 389, Mismatches: 28, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
208 41 0.11
209 1 0.00
210 1 0.00
211 71 0.18
212 29 0.07
213 1 0.00
216 19 0.05
218 1 0.00
219 129 0.33
220 96 0.25
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (217 bp):
TGTTGTCTCGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGTT
GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATA
CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAGTTGTTTGTTGACAGTCAGTCGCC
CTTCGCTGTGAAGTTGAGCTTG
Found at i:10069180 original size:110 final size:109
Alignment explanation
Indices: 10068870--10069350 Score: 788
Period size: 110 Copynumber: 4.4 Consensus size: 109
10068860 ACTCTGAATG
*
10068870 AAGTTGTTTGTTGACAGTCAATCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
1 AAGTTGTTTGTTGACAGTCAGTCG-CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
10068935 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
65 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
*
10068980 AAGTTGTTTGTTGACAGTCAGTCGCCTTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
1 AAGTTGTTTGTTGACAGTCAGTCGCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
* *
10069045 TATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTAAA
66 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
*
10069089 AAGTTGTTTGTTGACAGTCAGTCGACACTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
1 AAGTTGTTTGTTGACAGTCAGTCG-CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
* *
10069154 ATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
65 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
* * * *
10069199 AAGTTATTTGTTGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCTA
1 AAGTTGTTTGTTGACAGTCAGTCG-CCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCA
*
10069264 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAA
65 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
* *
10069309 AAGTTATTTGTTGACAGTC-G-C-CCCTTTGCTGTGAAGTTGAGC
1 AAGTTGTTTGTTGACAGTCAGTCGCCCTTCGCTGTGAAGTTGAGC
10069351 AACCACCATC
Statistics
Matches: 351, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
106 19 0.05
108 1 0.00
109 107 0.30
110 224 0.64
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (109 bp):
AAGTTGTTTGTTGACAGTCAGTCGCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAA
TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAA
Found at i:10069412 original size:329 final size:316
Alignment explanation
Indices: 10068760--10069358 Score: 855
Period size: 329 Copynumber: 1.9 Consensus size: 316
10068750 ATTGACTCTA
* * *
10068760 AAACTAGAAAGTTGTTTGTTGACAGCCAGTCGCCCCTTCGCTGCGAAGTTGAGCTTGTGTTGTCT
1 AAACTAAAAAGTTGTTTGTTGACAGCCAGTCGACACTTCGCTGCGAAGTTGAGCTTGTGTTGTCT
*
10068825 CGAGTCCAATATACTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAGTTGTTTGTTGACAGTCA
66 CGAGTCCAATATACTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAGTTATTTGTTGACAGTCA
* *
10068890 ATCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
131 ATCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGTGAAGTT
* * *
10068955 GAAATTGGCTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCTTTCGCTGTGAAGT
196 GAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCCCCTTTCGCTGTGAAGT
*** * * *
10069020 TGAGCTTGTGTTGTCTCGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAATG
261 TGAGC-----TAACCACCAGTCCAATATTCTTCGCTGTGAAGTCGAAATTGGCTCTGAATG
* *
10069081 AAACTAAAAAGTTGTTTGTTGACAGTCAGTCGACACTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
1 AAACTAAAAAGTTGTTTGTTGACAGCCAGTCGACACTTCGCTGCGAAGTTGAGCTTGTGTTGTCT
* * *
10069146 CGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGTTATTTGTT
66 CGAGTCCAATATACTTCGTTGTGAAGTTAAAATTGACTC----TG-AA-TG--AAGTTATTTGTT
* *
10069211 GACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCTAATATCCTTCGCT
123 GACAGTCAATCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCT
10069276 GTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTC-G-CCCCTTT-GC
188 GTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCCCCTTTCGC
10069338 TGTGAAGTTGAGC-AACCACCA
253 TGTGAAGTTGAGCTAACCACCA
10069359 TCAATTTTCT
Statistics
Matches: 249, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
320 3 0.01
321 96 0.39
325 2 0.01
326 17 0.07
327 8 0.03
328 1 0.00
329 122 0.49
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (316 bp):
AAACTAAAAAGTTGTTTGTTGACAGCCAGTCGACACTTCGCTGCGAAGTTGAGCTTGTGTTGTCT
CGAGTCCAATATACTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAGTTATTTGTTGACAGTCA
ATCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGTGAAGTT
GAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGACAGTCAGTCCCCTTTCGCTGTGAAGT
TGAGCTAACCACCAGTCCAATATTCTTCGCTGTGAAGTCGAAATTGGCTCTGAATG
Found at i:10070572 original size:19 final size:19
Alignment explanation
Indices: 10070550--10070589 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10070540 AGATAATGAT
10070550 CATCATTGAACGTCTTAAA
1 CATCATTGAACGTCTTAAA
10070569 CATCATTGAACGTCTTAAA
1 CATCATTGAACGTCTTAAA
10070588 CA
1 CA
10070590 AAAAGTATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (19 bp):
CATCATTGAACGTCTTAAA
Found at i:10072326 original size:8 final size:8
Alignment explanation
Indices: 10072293--10072366 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
10072283 TTAACTATTA
10072293 AATAAAAT
1 AATAAAAT
*
10072301 AAACAAAAT
1 -AATAAAAT
*
10072310 AATAGAAT
1 AATAAAAT
*
10072318 ACTAAAAT
1 AATAAAAT
10072326 AAT-AAAT
1 AATAAAAT
*
10072333 CAAATAATAAA
1 --AATAA-AAT
10072344 AATAAAAAT
1 AAT-AAAAT
10072353 AATAAAA-
1 AATAAAAT
10072360 AATAAAA
1 AATAAAA
10072367 GAGGAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 11 0.21
8 18 0.35
9 18 0.35
10 3 0.06
11 2 0.04
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.20
Consensus pattern (8 bp):
AATAAAAT
Found at i:10072338 original size:28 final size:27
Alignment explanation
Indices: 10072298--10072358 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
10072288 TATTAAATAA
*
10072298 AATAAACAAAATAAT-AGAATACTAAAAT
1 AATAAACAAAATAATAAAAATA--AAAAT
10072326 AATAAATC-AAATAATAAAAATAAAAAT
1 AATAAA-CAAAATAATAAAAATAAAAAT
10072353 AATAAA
1 AATAAA
10072359 AAATAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.37
28 13 0.43
29 6 0.20
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (27 bp):
AATAAACAAAATAATAAAAATAAAAAT
Found at i:10072338 original size:37 final size:34
Alignment explanation
Indices: 10072291--10072365 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 34
10072281 AATTAACTAT
*
10072291 TAAATAAAATAA-ACAAAATAATAGAATACTAAAATAA
1 TAAATAAAATAATA-AAAATAA-A-AATAATAAAA-AA
*
10072328 TAAATCAAATAATAAAAATAAAAATAATAAAAAA
1 TAAATAAAATAATAAAAATAAAAATAATAAAAAA
10072362 TAAA
1 TAAA
10072366 AGAGGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 6 0.17
35 9 0.26
36 1 0.03
37 18 0.51
38 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.21
Consensus pattern (34 bp):
TAAATAAAATAATAAAAATAAAAATAATAAAAAA
Found at i:10072352 original size:15 final size:16
Alignment explanation
Indices: 10072334--10072366 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10072324 ATAATAAATC
10072334 AAATAAT-AAAAATAA
1 AAATAATAAAAAATAA
10072349 AAATAATAAAAAATAA
1 AAATAATAAAAAATAA
10072365 AA
1 AA
10072367 GAGGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAATAAAAAATAA
Found at i:10072419 original size:32 final size:30
Alignment explanation
Indices: 10072341--10072420 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 30
10072331 ATCAAATAAT
10072341 AAAAATAAAAATAATAAAAAATAAAAGAGGA
1 AAAAATAAAAA-AATAAAAAATAAAAGAGGA
* *
10072372 AAAAATTAAATAAATAAAAAATAAGTCA-AGGA
1 AAAAA-TAAAAAAATAAAAAATAA--AAGAGGA
10072404 AAAAATAATAAAAATAA
1 AAAAATAA-AAAAATAA
10072421 GAGAATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 20 0.48
32 21 0.50
33 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (30 bp):
AAAAATAAAAAAATAAAAAATAAAAGAGGA
Found at i:10072458 original size:26 final size:27
Alignment explanation
Indices: 10072405--10072465 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
10072395 AGTCAAGGAA
10072405 AAAATAATAAAAATAAGAGAATATATAT
1 AAAA-AATAAAAATAAGAGAATATATAT
*
10072433 AAAAAATAAAAA-AGGA-AATATAATAT
1 AAAAAATAAAAATAAGAGAATAT-ATAT
10072459 AAAAAAT
1 AAAAAAT
10072466 GGTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 5 0.16
26 14 0.45
27 8 0.26
28 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (27 bp):
AAAAAATAAAAATAAGAGAATATATAT
Found at i:10073771 original size:3 final size:3
Alignment explanation
Indices: 10073763--10073802 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
10073753 AAAAAGCATA
*
10073763 AAT AAT AAT AAGA AAT AA- AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10073803 TATTATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:10073914 original size:37 final size:37
Alignment explanation
Indices: 10073861--10074219 Score: 333
Period size: 37 Copynumber: 9.7 Consensus size: 37
10073851 CAAAATGTTT
* * * *
10073861 TTTTAAAAAATTATATATTATACATAATTTCAAAAACG
1 TTTT-AAAAACTATATATTATATATATTTTCAAAAATG
10073899 TTTTAAAAACTATATA--ATATATATTTTCAAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
10073934 TTTTAAAAACTATATATTATATATATTTTC-AAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* *
10073970 TTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATG
1 -TTTTAAAAACTATAT-AT-TATATATATTTTCAAAAATG
*
10074010 TTTTCAAAACTATATATTATATA-AGTTTTC-AAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAAATG
* *
10074046 ATTTT-AAAACTATATATTATATATATTTTCTAAAATA
1 -TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* * * **
10074083 TTTTAAAAATTATATACTATATA-GTTTTCAAAAAAA
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* * * * *
10074119 ATTTAGAAACTATATATTATATACATTTT-TAACATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAAATG
* * *
10074155 TTTTTAAAAACTGTATA-TATATACGTGTTTTCAAAAACCG
1 -TTTTAAAAACTATATATTATATA--TATTTTCAAAAA-TG
** *
10074195 -TTTGCAAACTATATAATATATATAT
1 TTTTAAAAACTATATATTATATATAT
10074220 ATATATATAT
Statistics
Matches: 267, Mismatches: 36, Indels: 37
0.79 0.11 0.11
Matches are distributed among these distances:
35 32 0.12
36 77 0.29
37 93 0.35
38 24 0.09
39 34 0.13
40 7 0.03
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (37 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAAATG
Found at i:10073955 original size:112 final size:113
Alignment explanation
Indices: 10073815--10074177 Score: 329
Period size: 112 Copynumber: 3.3 Consensus size: 113
10073805 TTATATATAT
* * * * * * *
10073815 AAAAATATTCTAAAAAATATGTAATATATAAATTTCCAAAATGTTTTTTTAAAAAAT-TAT-ATA
1 AAAAATGTTTTAAAAACTATATATTATATATATTTCCAAAATG--TTTTTAAAAACTATATAATA
*
10073878 TTATACATAATTTCAAAAACGTTTTAAAAACTATATAATATAT-A-TTTTC
64 -TATAAATAATTTCAAAAACGTTTTAAAAACTATATAATATATAAGTTTTC
*
10073927 AAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTTAAAAACTATATAATATA
1 AAAAATGTTTTAAAAACTATATATTATATATATTTCCAAAATGTTTTTAAAAACTATATAATATA
** * * *
10073992 TAAATGTTTTCAAAAATGTTTTCAAAACTATATATTATATAAGTTTTC
66 TAAATAATTTCAAAAACGTTTTAAAAACTATATAATATATAAGTTTTC
* * * *
10074040 -AAAATGATTTT-AAAACTATATATTATATATATTTTCTAAAAT-ATTTTAAAAATTATATACTA
1 AAAAATG-TTTTAAAAACTATATATTATATATA-TTTCCAAAATGTTTTTAAAAACTATATAATA
* *** * *
10074102 TAT-AGT--TTTCAAAAAAAATTTAGAAACTATATATTATATACA-TTTT-
64 TATAAATAATTTCAAAAACGTTTTAAAAACTATATAATATATA-AGTTTTC
* * *
10074148 TAACATGTTTTTAAAAACTGTATA-TATATA
1 AAAAATG-TTTTAAAAACTATATATTATATA
10074178 CGTGTTTTCA
Statistics
Matches: 214, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
109 48 0.22
110 22 0.10
111 41 0.19
112 86 0.40
113 17 0.08
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (113 bp):
AAAAATGTTTTAAAAACTATATATTATATATATTTCCAAAATGTTTTTAAAAACTATATAATATA
TAAATAATTTCAAAAACGTTTTAAAAACTATATAATATATAAGTTTTC
Found at i:10074010 original size:12 final size:12
Alignment explanation
Indices: 10073993--10074018 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10073983 TATAATATAT
10073993 AAATGTTTTCAA
1 AAATGTTTTCAA
10074005 AAATGTTTTCAA
1 AAATGTTTTCAA
10074017 AA
1 AA
10074019 CTATATATTA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAATGTTTTCAA
Found at i:10074040 original size:148 final size:144
Alignment explanation
Indices: 10073815--10074217 Score: 393
Period size: 148 Copynumber: 2.7 Consensus size: 144
10073805 TTATATATAT
* * * ** *
10073815 AAAAATATTCTAAAAAATATGTAATATATAAATTTCCAAAATGTTTTTTTAAAAAATTATATATT
1 AAAAAAATT-TAAAAACTATATAATATATAAATTTTTAAAATG--TTTTT-AAAAACTATATATT
*
10073880 ATACATAA--TTTCAAAAACGTTTTAAAAACTATATAATATATATTTTCAAAAATGTTTTAAAAA
62 AT--ATAAGTTTTCAAAAACGTTTT-AAAACTATATAATATATATTTTCAAAAATATTTTAAAAA
*
10073943 CTATATATTATATATATTTTCA
124 CTATATACTATATA-ATTTTCA
**** *
10073965 AAATGTTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATG-TTTTCAAAACTATATATTA
1 AAAAAAATTTAAAAACTATATAATATATAAAT-TTTT--AAAATGTTTTTAAAAACTATATATTA
* * *
10074029 TATAAGTTTTC-AAAATGATTTTAAAACTATATATTATATATATTTTCTAAAATATTTTAAAAAT
63 TATAAGTTTTCAAAAACG-TTTTAAAACTATATA--ATATATATTTTCAAAAATATTTTAAAAAC
*
10074093 TATATACTATATAGTTTTCA
125 TATATACTATATAATTTTCA
* * * * *
10074113 AAAAAAATTTAGAAACTATATATTATATACATTTTTAACATGTTTTTAAAAACTGTATA-TATAT
1 AAAAAAATTTAAAAACTATATAATATATAAATTTTTAAAATGTTTTTAAAAACTATATATTATAT
* **
10074177 ACGTGTTTTCAAAAACCGTTTGCAAACTATATAATATATAT
66 A--AGTTTTCAAAAA-CGTTTTAAAACTATATAATATATAT
10074218 ATATATATAT
Statistics
Matches: 211, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
145 11 0.05
146 26 0.12
147 26 0.12
148 70 0.33
149 64 0.30
150 8 0.04
152 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (144 bp):
AAAAAAATTTAAAAACTATATAATATATAAATTTTTAAAATGTTTTTAAAAACTATATATTATAT
AAGTTTTCAAAAACGTTTTAAAACTATATAATATATATTTTCAAAAATATTTTAAAAACTATATA
CTATATAATTTTCA
Found at i:10074055 original size:36 final size:36
Alignment explanation
Indices: 10073800--10074177 Score: 301
Period size: 37 Copynumber: 10.3 Consensus size: 36
10073790 AATAATAATA
* * * *
10073800 ATATATTATAT-A-TATAAAAAT-ATTCTAAAAAAT
1 ATATATTATATAATTTTCAAAATGATTTTAAAAACT
* * * * *
10073833 ATGTAATATATAAATTTCCAAAATGTTTTTTTAAAAAATT
1 ATATATTATAT-AATTTTCAAAATG--ATTTT-AAAAACT
*
10073873 ATATATTATACATAA-TTTCAAAAACG-TTTTAAAAACT
1 ATATATTAT--ATAATTTTC-AAAATGATTTTAAAAACT
*
10073910 ATATAATATAT-ATTTTCAAAAATG-TTTTAAAAACT
1 ATATATTATATAATTTTC-AAAATGATTTTAAAAACT
*
10073945 ATATATTATATATATTTTCAAAATGTTTTTAAAAACT
1 ATATATTATATA-ATTTTCAAAATGATTTTAAAAACT
* *
10073982 ATATAATATATAAATGTTTTCAAAAATG-TTTTCAAAACT
1 ATATATTATAT-AA--TTTTC-AAAATGATTTTAAAAACT
10074021 ATATATTATATAAGTTTTCAAAATGATTTT-AAAACT
1 ATATATTATATAA-TTTTCAAAATGATTTTAAAAACT
*
10074057 ATATATTATATATATTTTCTAAAAT-ATTTTAAAAATT
1 ATATATTATATA-ATTTTC-AAAATGATTTTAAAAACT
* * ** * *
10074094 ATATACTATATAGTTTTCAAAAAAAATTTAGAAACT
1 ATATATTATATAATTTTCAAAATGATTTTAAAAACT
* * *
10074130 ATATATTATATACATTTTTAACATGTTTTTAAAAACT
1 ATATATTATATA-ATTTTCAAAATGATTTTAAAAACT
*
10074167 GTATA-TATATA
1 ATATATTATATA
10074178 CGTGTTTTCA
Statistics
Matches: 285, Mismatches: 36, Indels: 45
0.78 0.10 0.12
Matches are distributed among these distances:
33 9 0.03
34 1 0.00
35 38 0.13
36 77 0.27
37 94 0.33
38 7 0.02
39 28 0.10
40 22 0.08
41 7 0.02
42 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (36 bp):
ATATATTATATAATTTTCAAAATGATTTTAAAAACT
Found at i:10074206 original size:184 final size:184
Alignment explanation
Indices: 10073867--10074216 Score: 479
Period size: 184 Copynumber: 1.9 Consensus size: 184
10073857 GTTTTTTTAA
* *
10073867 AAAATTATATATTATACATAATTTCAAAAACGTTTTAAAAACTATATAATATATATTTTCAAAAA
1 AAAACTATATATTATACATAATTTCAAAAACATTTTAAAAACTATATAATATATATTTTCAAAAA
*** *
10073932 TGTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTTAAAAACTATATAATATATAAAT
66 AAATTTAAAAACTATATATTATATACATTTTCAAAATGTTTTTAAAAACTATATAATATATAAAT
* * *
10073997 GTTTTCAAAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGATTTT
131 GTTTTCAAAAACGTTTGCAAAACTATATAATATATAAGTTTTCAAAATGATTTT
* * * * * *
10074051 AAAACTATATATTATATATATTTTCTAAAATATTTTAAAAATTATATACTATATAGTTTTCAAAA
1 AAAACTATATATTATACATAATTTCAAAAACATTTTAAAAACTATATAATATATA-TTTTCAAAA
* * * * **
10074116 AAAATTTAGAAACTATATATTATATACATTTTTAACATGTTTTTAAAAACTGTAT-ATATATACG
65 AAAATTTAAAAACTATATATTATATACATTTTCAAAATGTTTTTAAAAACTATATAATATATAAA
10074180 TGTTTTCAAAAACCGTTTGC-AAACTATATAATATATA
130 TGTTTTCAAAAA-CGTTTGCAAAACTATATAATATATA
10074217 TATATATATA
Statistics
Matches: 143, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
184 82 0.57
185 61 0.43
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (184 bp):
AAAACTATATATTATACATAATTTCAAAAACATTTTAAAAACTATATAATATATATTTTCAAAAA
AAATTTAAAAACTATATATTATATACATTTTCAAAATGTTTTTAAAAACTATATAATATATAAAT
GTTTTCAAAAACGTTTGCAAAACTATATAATATATAAGTTTTCAAAATGATTTT
Found at i:10074209 original size:75 final size:73
Alignment explanation
Indices: 10073900--10074191 Score: 236
Period size: 73 Copynumber: 4.0 Consensus size: 73
10073890 TCAAAAACGT
* * * * * * *
10073900 TTTAAAAACTATATA--ATATATATTTTCAAAAATGTTTTAAAAACTATATATTATATATATTTT
1 TTTAGAAACTATATATTATATACATTTTCTAAAATATTTTAAAAATTATATACTATATA-GTTTT
****
10073963 CAAAATGTT
65 CAAAAAAAA
* * * * * * * *
10073972 TTTAAAAACTATATAATATATAAATGTTTTCAAAAATGTTTTCAAAACTATATATTATATAAGTT
1 TTTAGAAACTATATATTATATACA--TTTTCTAAAATATTTTAAAAATTATATACTATAT-AGTT
** *
10074037 TTCAAAATGAT
63 TTCAAAAAAAA
*
10074048 TTTA-AAACTATATATTATATATATTTTCTAAAATATTTTAAAAATTATATACTATATAGTTTTC
1 TTTAGAAACTATATATTATATACATTTTCTAAAATATTTTAAAAATTATATACTATATAGTTTTC
10074112 AAAAAAAA
66 AAAAAAAA
* *
10074120 TTTAGAAACTATATATTATATACATTTT-TAACATGTTTTTAAAAACTGTATATA-TATACGT-G
1 TTTAGAAACTATATATTATATACATTTTCTAAAAT-ATTTTAAAAA-T-TATATACTATA--TAG
10074182 TTTTCAAAAA
61 TTTTCAAAAA
10074192 CCGTTTGCAA
Statistics
Matches: 192, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
72 36 0.19
73 60 0.31
74 11 0.06
75 34 0.18
76 50 0.26
77 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (73 bp):
TTTAGAAACTATATATTATATACATTTTCTAAAATATTTTAAAAATTATATACTATATAGTTTTC
AAAAAAAA
Found at i:10074215 original size:2 final size:2
Alignment explanation
Indices: 10074204--10074360 Score: 235
Period size: 2 Copynumber: 79.0 Consensus size: 2
10074194 GTTTGCAAAC
10074204 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10074245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
10074287 TA TA TA TA TG CA TG TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
10074329 TG TA TG TA TG TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10074361 AAATGAAATA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
1 1 0.01
2 137 0.99
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10074218 original size:148 final size:149
Alignment explanation
Indices: 10073815--10074219 Score: 373
Period size: 149 Copynumber: 2.7 Consensus size: 149
10073805 TTATATATAT
* * * ** *
10073815 AAAAATATTCTAAAAAATATGTAATATATAAA--TTTCCAAAATGTTTTTTTAAAAAATTATATA
1 AAAAAAATT-TAAAAACTATATAATATATAAATGTTTTAAAAATG--TTTTTAAAAACTTATATA
** * *
10073878 TTATACATAATTTCAAAAACGTTTTAAAAACTATAT-A-ATATATATTTTCAAAAATGTTTTAAA
63 -TATAC-TGTTTTCAAAAACGATTTAAAAACTATATAATATATATATTTTCAAAAATATTTTAAA
*
10073941 AACTATATATTATATATATTTTCA
126 AACTATATACTATATATATTTTCA
**** *
10073965 AAATGTTTTTAAAAACTATATAATATATAAATGTTTTCAAAAATG-TTTTCAAAACTATATATTA
1 AAAAAAATTTAAAAACTATATAATATATAAATGTTTT-AAAAATGTTTTTAAAAACT-TATA-TA
* * * * *
10074029 TATA-AGTTTTC-AAAATGATTTTAAAACTATATATTATATATATTTTCTAAAATATTTTAAAAA
63 TATACTGTTTTCAAAAACGATTTAAAAACTATATAATATATATATTTTCAAAAATATTTTAAAAA
* *
10074092 TTATATACTATATA-GTTTTCA
128 CTATATACTATATATATTTTCA
* * * *
10074113 AAAAAAATTTAGAAACTATATATTATATACAT-TTTT-AACATGTTTTTAAAAACTGTATATATA
1 AAAAAAATTTAAAAACTATATAATATATAAATGTTTTAAAAATGTTTTTAAAAACT-TATATATA
**
10074176 TACGTGTTTTCAAAAACCG-TTTGCAAACTATATAATATATATAT
65 TAC-TGTTTTCAAAAA-CGATTTAAAAACTATATAATATATATAT
10074220 ATATATATAT
Statistics
Matches: 207, Mismatches: 36, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
145 11 0.05
146 14 0.07
147 28 0.14
148 61 0.29
149 68 0.33
150 14 0.07
151 5 0.02
152 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (149 bp):
AAAAAAATTTAAAAACTATATAATATATAAATGTTTTAAAAATGTTTTTAAAAACTTATATATAT
ACTGTTTTCAAAAACGATTTAAAAACTATATAATATATATATTTTCAAAAATATTTTAAAAACTA
TATACTATATATATTTTCA
Found at i:10075466 original size:19 final size:19
Alignment explanation
Indices: 10075406--10075472 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 19
10075396 CCAATTTTAG
*
10075406 GGTTTTTGCCTTTTCTTCTTAA
1 GGTTTTTGCCTTTTC--CAT-A
* *
10075428 AGTTTTTGCCTTTT-CGTA
1 GGTTTTTGCCTTTTCCATA
10075446 GGTTTTTGCCTTTTCCATA
1 GGTTTTTGCCTTTTCCATA
*
10075465 GGGTTTTG
1 GGTTTTTG
10075473 ACATGTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.36
19 12 0.31
22 13 0.33
ACGTcount: A:0.09, C:0.16, G:0.19, T:0.55
Consensus pattern (19 bp):
GGTTTTTGCCTTTTCCATA
Found at i:10075772 original size:37 final size:37
Alignment explanation
Indices: 10075722--10075834 Score: 217
Period size: 37 Copynumber: 3.1 Consensus size: 37
10075712 GGGAACCTTC
*
10075722 CATACATCTAGTATGATCAATTATCAGGTGATGAAAT
1 CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
10075759 CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
1 CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
10075796 CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
1 CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
10075833 CA
1 CA
10075835 ACTTTGGCTA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (37 bp):
CATACATCTAGTATGATCAATTATCAGGTGATGGAAT
Found at i:10076019 original size:28 final size:28
Alignment explanation
Indices: 10075979--10076035 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
10075969 CATTTACGTG
10075979 TGCTACACATGCTTTTGGAGGGGGAGGA
1 TGCTACACATGCTTTTGGAGGGGGAGGA
10076007 TGCTACACATGCTTTTGGAGGGGGAGGA
1 TGCTACACATGCTTTTGGAGGGGGAGGA
10076035 T
1 T
10076036 CCAAAACTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.39, T:0.26
Consensus pattern (28 bp):
TGCTACACATGCTTTTGGAGGGGGAGGA
Found at i:10080563 original size:20 final size:20
Alignment explanation
Indices: 10080518--10080563 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10080508 GACCAACAAA
*
10080518 ATCGCAATGCGATCGTTAAT
1 ATCGCAACGCGATCGTTAAT
* *
10080538 -TCGCAACGCGATCTTTATT
1 ATCGCAACGCGATCGTTAAT
10080557 ATCGCAA
1 ATCGCAA
10080564 ATCAGTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGATCGTTAAT
Found at i:10080713 original size:20 final size:20
Alignment explanation
Indices: 10080690--10080769 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
10080680 ATCGCAATGA
10080690 GATACTGACTATCGCAACAC
1 GATACTGACTATCGCAACAC
* * *
10080710 GATAAT-ACAAAATCGCAACGC
1 GATACTGAC--TATCGCAACAC
* *
10080731 GATACTGACTTTCGCAACGC
1 GATACTGACTATCGCAACAC
* *
10080751 GATTCTGACTTTCGCAACA
1 GATACTGACTATCGCAACA
10080770 AGATTCTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.63
21 14 0.29
22 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (20 bp):
GATACTGACTATCGCAACAC
Found at i:10080774 original size:20 final size:20
Alignment explanation
Indices: 10080735--10080778 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10080725 CAACGCGATA
**
10080735 CTGACTTTCGCAACGCGATT
1 CTGACTTTCGCAACAAGATT
10080755 CTGACTTTCGCAACAAGATT
1 CTGACTTTCGCAACAAGATT
10080775 CTGA
1 CTGA
10080779 AAATCGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (20 bp):
CTGACTTTCGCAACAAGATT
Found at i:10081026 original size:20 final size:20
Alignment explanation
Indices: 10081001--10081048 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10080991 CAACAGGGAA
10081001 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
10081021 ATCGCAACGTGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
10081041 ATCGCAAC
1 ATCGCAAC
10081049 AAGAAAATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:10081054 original size:20 final size:20
Alignment explanation
Indices: 10081001--10081056 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10080991 CAACAGGGAA
*
10081001 ATCGCAACGCGAAAATGACT
1 ATCGCAACGAGAAAATGACT
* *
10081021 ATCGCAACGTGAAAATGGCT
1 ATCGCAACGAGAAAATGACT
*
10081041 ATCGCAACAAGAAAAT
1 ATCGCAACGAGAAAAT
10081057 CGCAATGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAAAATGACT
Found at i:10081116 original size:19 final size:19
Alignment explanation
Indices: 10081075--10081139 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
10081065 GAAATGAAAA
10081075 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
10081091 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
10081108 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
10081127 TCGTATTGCGATT
1 TCGCATTGCGATT
10081140 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 25 0.61
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:10081170 original size:20 final size:20
Alignment explanation
Indices: 10081145--10081183 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10081135 CGATTCTCTC
10081145 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
10081165 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
10081184 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:10082780 original size:41 final size:42
Alignment explanation
Indices: 10082726--10082813 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
10082716 CCTCTTCAAC
* *
10082726 GATGAAAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGAAAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
10082767 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGAAAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
10082809 GATGA
1 GATGA
10082814 CAGGTGAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 20 0.48
42 22 0.52
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.23
Consensus pattern (42 bp):
GATGAAAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:10082782 original size:21 final size:21
Alignment explanation
Indices: 10082753--10082813 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
10082743 GAACGGTGGG
*
10082753 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
10082774 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
10082795 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
10082814 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:10083179 original size:20 final size:20
Alignment explanation
Indices: 10083154--10083206 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
10083144 GAAGAATAGT
*
10083154 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
10083174 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
10083194 TGACTATCGCAAC
1 TTACTTTCGCAAC
10083207 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:10083207 original size:20 final size:20
Alignment explanation
Indices: 10083160--10083266 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
10083150 TAGTTTACTT
* * * *
10083160 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
10083180 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
10083200 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* *
10083220 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
10083240 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
10083259 TCGCAACG
1 TCGCAACG
10083267 ACAAAATCGC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
19 13 0.17
20 63 0.83
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:10083261 original size:19 final size:19
Alignment explanation
Indices: 10083239--10083304 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
10083229 GGAAATGGCT
10083239 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10083258 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
10083272 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10083291 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
10083305 CACAAATCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 1 0.03
17 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:10083382 original size:19 final size:19
Alignment explanation
Indices: 10083311--10083374 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
10083301 GAAACACAAA
10083311 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
10083330 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
10083346 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
10083363 TCGCATTGCGAT
1 TCGCATTGCGAT
10083375 AGTCATTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 18 0.47
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:10083957 original size:18 final size:18
Alignment explanation
Indices: 10083934--10083981 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
10083924 CGGGTCGATC
*
10083934 AGGTGATAGCTCTGGGTT
1 AGGTGATAGCTCTGGGTG
10083952 AGGTGATAGCTCTGGGTG
1 AGGTGATAGCTCTGGGTG
*
10083970 AGGTGATGGCTC
1 AGGTGATAGCTC
10083982 CCAAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.12, G:0.42, T:0.29
Consensus pattern (18 bp):
AGGTGATAGCTCTGGGTG
Found at i:10085324 original size:20 final size:20
Alignment explanation
Indices: 10085299--10085341 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10085289 AATAGTTTCT
10085299 GAAAATGAAAATCACAACAC
1 GAAAATGAAAATCACAACAC
* * *
10085319 GAAAATGACAATCGCAACGC
1 GAAAATGAAAATCACAACAC
10085339 GAA
1 GAA
10085342 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCACAACAC
Found at i:10085646 original size:22 final size:22
Alignment explanation
Indices: 10085619--10085662 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10085609 GATGGAGATA
10085619 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
10085641 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
10085663 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:10085934 original size:21 final size:22
Alignment explanation
Indices: 10085863--10086007 Score: 96
Period size: 21 Copynumber: 7.0 Consensus size: 22
10085853 CGTTGCGAAA
**
10085863 GTCAGTATCGCGTTGCGA--AA
1 GTCAGTATCGCGTTGCGATTTT
* **
10085883 GTAAGTATCGCGTTGCGA--AA
1 GTCAGTATCGCGTTGCGATTTT
10085903 GTCAGTATCGCGTTGCGATTTT
1 GTCAGTATCGCGTTGCGATTTT
* *
10085925 GT-ATTATCGCGTTGCGA--TA
1 GTCAGTATCGCGTTGCGATTTT
10085944 GTCAGTATCGCGTTGCGATTTT
1 GTCAGTATCGCGTTGCGATTTT
* *
10085966 -CCA-AATTCGCGTTGCGATTTT
1 GTCAGTA-TCGCGTTGCGATTTT
* *
10085987 -CCA-AATTCGCGTTGCGATTTT
1 GTCAGTA-TCGCGTTGCGATTTT
10086008 CCAAATTCGC
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.03
20 51 0.47
21 52 0.48
22 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (22 bp):
GTCAGTATCGCGTTGCGATTTT
Found at i:10085962 original size:20 final size:20
Alignment explanation
Indices: 10085848--10085961 Score: 149
Period size: 20 Copynumber: 5.7 Consensus size: 20
10085838 GATTATGTAT
*
10085848 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
10085868 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
10085888 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
10085908 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
10085929 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
10085949 TATCGCGTTGCGA
1 TATCGCGTTGCGA
10085962 TTTTCCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
19 3 0.04
20 64 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:10085965 original size:41 final size:41
Alignment explanation
Indices: 10085828--10085963 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 41
10085818 CACTTTGAAA
* *
10085828 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* *
10085869 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* *
10085909 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
10085950 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
10085964 TTCCAAATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.04
40 33 0.39
41 46 0.55
42 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:10085976 original size:41 final size:41
Alignment explanation
Indices: 10085848--10086025 Score: 175
Period size: 41 Copynumber: 4.3 Consensus size: 41
10085838 GATTATGTAT
* * *** *
10085848 TATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGT-AAG
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
* ** *
10085888 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
10085929 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTT-CAAA
** *
10085971 T-TCGCGTTGCGATTTTCCA-AATTCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGT-CAGTA-TCGCGTTGCGATTTT-CAAA
10086013 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
10086026 TTACTTATTC
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
40 33 0.27
41 51 0.42
42 37 0.31
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCAAA
Found at i:10086037 original size:20 final size:21
Alignment explanation
Indices: 10085951--10086027 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
10085941 ATAGTCAGTA
10085951 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
10085972 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
10085993 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
10086014 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
10086028 ACTTATTCGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:10092573 original size:25 final size:26
Alignment explanation
Indices: 10092544--10092603 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
10092534 AAGATCAAAT
*
10092544 CAAAAAAA-TCAA-AGAAAAAAGAAGG
1 CAAAAAAAGACAAGAGAAAAAAGAA-G
*
10092569 CAAAAAAAGAGAAGAGAAAAAAGAAG
1 CAAAAAAAGACAAGAGAAAAAAGAAG
10092595 -AAAAAAAGA
1 CAAAAAAAGA
10092604 AGAAGAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 17 0.55
26 3 0.10
27 11 0.35
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (26 bp):
CAAAAAAAGACAAGAGAAAAAAGAAG
Found at i:10092575 original size:14 final size:12
Alignment explanation
Indices: 10092558--10092607 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 12
10092548 AAAATCAAAG
10092558 AAAAAAGAAGGCAA
1 AAAAAAGAA-G-AA
*
10092572 AAAAAGAGAAGAG
1 AAAAA-AGAAGAA
10092585 AAAAAAGAAG-A
1 AAAAAAGAAGAA
10092596 AAAAAAGAAGAA
1 AAAAAAGAAGAA
10092608 GAAAGGGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 10 0.31
12 6 0.19
13 6 0.19
14 6 0.19
15 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:10092586 original size:27 final size:26
Alignment explanation
Indices: 10092556--10092609 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
10092546 AAAAAATCAA
10092556 AGAAAAAAGAAGGCAAAAAAAG-AGAAG
1 AGAAAAAAGAA-G-AAAAAAAGAAGAAG
10092583 AGAAAAAAGAAGAAAAAAAGAAGAAG
1 AGAAAAAAGAAGAAAAAAAGAAGAAG
10092609 A
1 A
10092610 AAGGGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.31
26 7 0.27
27 11 0.42
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (26 bp):
AGAAAAAAGAAGAAAAAAAGAAGAAG
Found at i:10092612 original size:21 final size:20
Alignment explanation
Indices: 10092583--10092632 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 20
10092573 AAAAGAGAAG
*
10092583 AGAAAAAAGAAGAAAAAAAGA
1 AGAAGAAAGAAG-AAAAAAGA
* *
10092604 AGAAGAAAG--GGAAGAAGA
1 AGAAGAAAGAAGAAAAAAGA
10092622 AGAAGAAAGAA
1 AGAAGAAAGAA
10092633 AATGGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 15 0.62
19 1 0.04
21 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
AGAAGAAAGAAGAAAAAAGA
Found at i:10094721 original size:8 final size:8
Alignment explanation
Indices: 10094704--10094735 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
10094694 TTACATGAAA
*
10094704 TTTGCGTC
1 TTTGCATC
10094712 TTTGCATC
1 TTTGCATC
10094720 TTTGCATC
1 TTTGCATC
10094728 TTTGCATC
1 TTTGCATC
10094736 ATACATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.09, C:0.25, G:0.16, T:0.50
Consensus pattern (8 bp):
TTTGCATC
Found at i:10095165 original size:37 final size:36
Alignment explanation
Indices: 10095110--10095245 Score: 148
Period size: 37 Copynumber: 3.8 Consensus size: 36
10095100 CTTTGAGATT
* *
10095110 ATTTCGTCTCGCTAGAGACAATTTTTCTTAAAAACAA
1 ATTTTGTCTCGCTTGAGACAATTTTTC-TAAAAACAA
* * *
10095147 ATTTTGTCTCGCTTGAGACAGTTTTATCTGAAAATAA
1 ATTTTGTCTCGCTTGAGACAATTTT-TCTAAAAACAA
* * * * *
10095184 ATTTTGTCTTGCTTGAAACGATTTCTCTCAAAACAA
1 ATTTTGTCTCGCTTGAGACAATTTTTCTAAAAACAA
*
10095220 ATTTTGTCTCGCTTGAGA-AAGTTTTC
1 ATTTTGTCTCGCTTGAGACAATTTTTC
10095246 CCTTGAGATG
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
35 5 0.06
36 25 0.31
37 49 0.60
38 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (36 bp):
ATTTTGTCTCGCTTGAGACAATTTTTCTAAAAACAA
Found at i:10095234 original size:36 final size:37
Alignment explanation
Indices: 10095140--10095235 Score: 131
Period size: 36 Copynumber: 2.6 Consensus size: 37
10095130 ATTTTTCTTA
* * *
10095140 AAAACAAATTTTGTCTCGCTTGAGACAGTTTTATCTG
1 AAAACAAATTTTGTCTCGCTTGAAACAGATTTATCTC
* * *
10095177 AAAATAAATTTTGTCTTGCTTGAAAC-GATTTCTCTC
1 AAAACAAATTTTGTCTCGCTTGAAACAGATTTATCTC
10095213 AAAACAAATTTTGTCTCGCTTGA
1 AAAACAAATTTTGTCTCGCTTGA
10095236 GAAAGTTTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 28 0.55
37 23 0.45
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (37 bp):
AAAACAAATTTTGTCTCGCTTGAAACAGATTTATCTC
Found at i:10095485 original size:36 final size:36
Alignment explanation
Indices: 10095445--10095547 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 36
10095435 GTTTTATTTG
* **
10095445 AAACAAAATTGATCTCACTTGAGATTG-TTTTCTTAA
1 AAACAAATTTG-TCTCACTTGAGACAGTTTTTCTTAA
*
10095481 AAACAAATTTTGTCTCGCTTGAGACAGTTTTTCTTAA
1 AAACAAA-TTTGTCTCACTTGAGACAGTTTTTCTTAA
* *
10095518 AGATAAATTTCGTCTCACTTGAGACAGTTT
1 AAACAAATTT-GTCTCACTTGAGACAGTTT
10095548 CCGCTAGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
36 22 0.39
37 35 0.61
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (36 bp):
AAACAAATTTGTCTCACTTGAGACAGTTTTTCTTAA
Found at i:10095526 original size:37 final size:37
Alignment explanation
Indices: 10095457--10095547 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
10095447 ACAAAATTGA
** *
10095457 TCTCACTTGAGATTG-TTTTCTTAAAAACAAATTTTG
1 TCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTCG
* * *
10095493 TCTCGCTTGAGACAGTTTTTCTTAAAGATAAATTTCG
1 TCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTCG
10095530 TCTCACTTGAGACAGTTT
1 TCTCACTTGAGACAGTTT
10095548 CCGCTAGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 12 0.26
37 35 0.74
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (37 bp):
TCTCACTTGAGACAGTTTTTCTTAAAAACAAATTTCG
Found at i:10095664 original size:99 final size:100
Alignment explanation
Indices: 10095511--10095785 Score: 267
Period size: 99 Copynumber: 2.7 Consensus size: 100
10095501 GAGACAGTTT
* * *
10095511 TTCTTAAAGATAAATTTCGTCTCACTTGAGACAGTTTCCGCTAGAAATAAAAATTTTGAAATTGT
1 TTCTTAAAGACAAATTTCGTCTCACCTGAGACAGTTTCCGCTAGAAACAAAAATTTTGAAATTGT
10095576 TTCACTTGAAACAAAATTTATCTCACTTGAGATTA
66 TTCACTTGAAACAAAATTTATCTCACTTGAGATTA
* * * * *
10095611 TTCTTAAA-ACAAATTTCGTCTCACCTGAGACAATTTTTC-TTCGAAACATAAATTTTGAAATTG
1 TTCTTAAAGACAAATTTCGTCTCACCTGAGAC-AGTTTCCGCTAGAAACAAAAATTTTGAAATTG
* ** * *
10095674 TTTGACTTGAAACAAAATTGT-TAACATTTGAGATTGTTT
65 TTTCACTTGAAACAAAATT-TATCTCACTTGAGA---TTA
* * * *
10095713 TTCTTAAAAACAAATTT-GTCTCGCTTGAGTA-AGTTTTCC-CTCA-AAACAAAAATTTGGAAAT
1 TTCTTAAAGACAAATTTCGTCTCACCTGAG-ACAG-TTTCCGCT-AGAAACAAAAATTTTGAAAT
*
10095774 TGTTTCGCTTGA
63 TGTTTCACTTGA
10095786 GACAGTTTCT
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
99 68 0.48
100 14 0.10
101 1 0.01
102 51 0.36
103 9 0.06
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (100 bp):
TTCTTAAAGACAAATTTCGTCTCACCTGAGACAGTTTCCGCTAGAAACAAAAATTTTGAAATTGT
TTCACTTGAAACAAAATTTATCTCACTTGAGATTA
Found at i:10095888 original size:67 final size:67
Alignment explanation
Indices: 10095781--10096002 Score: 313
Period size: 67 Copynumber: 3.3 Consensus size: 67
10095771 AATTGTTTCG
* * * *
10095781 CTTGAGACAGTTTCTCTT-AAACATAAAAACTTTGAGATTGTTTCTCTTGAAAGAAGTTTTGTCT
1 CTTGAGACAATTTCTCTTGAAACATAAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTATCT
10095845 CT
66 CT
* * * *
10095847 CTTGAGATAATTTTTCTTGAAACATAAAACCTTTAAGATTGTTTCTCTTGAAACAAGTTTTTTTC
1 CTTGAGACAATTTCTCTTGAAACATAAAACCTTTGAGATTGTTTCTCTTGAAACAAG-TTTTATC
10095912 TCT
65 TCT
* * *
10095915 CTTGAGACAATTTCTCTTGAAACAT-AAACCATTGAGATTGTTTCCCTTGAAACAAATTTTATCT
1 CTTGAGACAATTTCTCTTGAAACATAAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTATCT
*
10095979 CG
66 CT
10095981 CTTGAGACAATTTCTCTTGAAA
1 CTTGAGACAATTTCTCTTGAAA
10096003 TAAATTATCC
Statistics
Matches: 139, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
66 45 0.32
67 62 0.45
68 32 0.23
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (67 bp):
CTTGAGACAATTTCTCTTGAAACATAAAACCTTTGAGATTGTTTCTCTTGAAACAAGTTTTATCT
CT
Found at i:10096000 original size:36 final size:35
Alignment explanation
Indices: 10095888--10096008 Score: 92
Period size: 36 Copynumber: 3.5 Consensus size: 35
10095878 TTTAAGATTG
* *
10095888 TTTCTCTTGAAACAAGTTTTTTTCTCTCTTGAGACAA
1 TTTCTCTTGAAACAA-ATTTTATCTC-CTTGAGACAA
* ***
10095925 TTTCTCTTGAAACATAA----A-C-CATTGAGATTG
1 TTTCTCTTGAAACA-AATTTTATCTCCTTGAGACAA
*
10095955 TTTCCCTTGAAACAAATTTTATCTCGCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTATCTC-CTTGAGACAA
*
10095991 TTTCTCTTGAAATAAATT
1 TTTCTCTTGAAACAAATT
10096009 ATCCCTAAAG
Statistics
Matches: 63, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
29 2 0.03
30 19 0.30
31 1 0.02
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 22 0.35
37 14 0.22
38 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (35 bp):
TTTCTCTTGAAACAAATTTTATCTCCTTGAGACAA
Found at i:10096418 original size:138 final size:138
Alignment explanation
Indices: 10096007--10096419 Score: 549
Period size: 138 Copynumber: 3.0 Consensus size: 138
10095997 TTGAAATAAA
* * * * * *
10096007 TTATCCCTAAAGATGGCCAGACGTCCTCATCATGTAAGAACAGTGTCATTCACCGGCCAGATTTC
1 TTATCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCAGATCTC
* ** * * *
10096072 CTCATCACGTAAGAGCAATGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACTGTGTT
66 CTCATCACGTAGGAGCAGCGTCATCCTTAGATAATCAGACTTCCTCATCACATAGGAACCGTGTT
*
10096137 ATCACCAT
131 ATCTCCAT
* * * *
10096145 TTATCCCTAAAGATGTCTAGACGTCCTCATCACGTAGGAACAATGTCATCCACCGATCAGACCTC
1 TTATCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCAGATCTC
* * **
10096210 CTCATTACGTAGTAGCAGCGTCATTTTTAGAT-ATCCAGACTTCCTCATCACATAGGAACCGTGT
66 CTCATCACGTAGGAGCAGCGTCATCCTTAGATAAT-CAGACTTCCTCATCACATAGGAACCGTGT
10096274 TATCTCCAT
130 TATCTCCAT
* *
10096283 TTATCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAATAATGTCATCCACCGACCATATCTC
1 TTATCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCAGATCTC
* * * * *
10096348 CTCATCATGTAGGAGCAGCGTCATCCCTAGATAATCAAATTTCCTCATCACATAGGAACCGCGTT
66 CTCATCACGTAGGAGCAGCGTCATCCTTAGATAATCAGACTTCCTCATCACATAGGAACCGTGTT
*
10096413 GTCTCCA
131 ATCTCCA
10096420 AATTTACCTA
Statistics
Matches: 236, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
137 1 0.00
138 233 0.99
139 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (138 bp):
TTATCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAACAATGTCATCCACCGACCAGATCTC
CTCATCACGTAGGAGCAGCGTCATCCTTAGATAATCAGACTTCCTCATCACATAGGAACCGTGTT
ATCTCCAT
Found at i:10096468 original size:138 final size:137
Alignment explanation
Indices: 10096011--10096470 Score: 413
Period size: 138 Copynumber: 3.3 Consensus size: 137
10096001 AATAAATTAT
* * * * * * * * * **
10096011 CCCTAAAGATGGCCAGACGTCCTCATCATGTAAGAACAGTGTCATTCACCGGCCAGATTTCCTCA
1 CCCTAAAAATGACCAGACGTCCTCATCACGGAGGAATAATGTCATCCACCGACCAGACCTCCTCA
* ** * * * * * * *
10096076 TCACGTAAGAGCAATGTCATCCTTAGATAACCAGACTTCCTCATCACGTAGGAACTGTGTTATCA
66 TCACGTAGGAGCAGCGTCATCCCTAGATATCCAAACTTCCTCATCACATAGGAACCGCGTTATCT
10096141 CCATTTA
131 CCATTTA
* * * * * *
10096148 TCCCTAAAGATGTCTAGACGTCCTCATCACGTAGGAACAATGTCATCCACCGATCAGACCTCCTC
1 -CCCTAAAAATGACCAGACGTCCTCATCACGGAGGAATAATGTCATCCACCGACCAGACCTCCTC
* * *** * *
10096213 ATTACGTAGTAGCAGCGTCATTTTTAGATATCCAGACTTCCTCATCACATAGGAACCGTGTTATC
65 ATCACGTAGGAGCAGCGTCATCCCTAGATATCCAAACTTCCTCATCACATAGGAACCGCGTTATC
10096278 TCCATTTA
130 TCCATTTA
* * * * * * *
10096286 TCCCTAAAGATGGCTAGACGTCCTCATCATGTAGGAATAATGTCATCCACCGACCATATCTCCTC
1 -CCCTAAAAATGACCAGACGTCCTCATCACGGAGGAATAATGTCATCCACCGACCAGACCTCCTC
* * *
10096351 ATCATGTAGGAGCAGCGTCATCCCTAGATAAT-CAAATTTCCTCATCACATAGGAACCGCGTTGT
65 ATCACGTAGGAGCAGCGTCATCCCTAGAT-ATCCAAACTTCCTCATCACATAGGAACCGCGTTAT
10096415 CTCCAAATTTA
129 CTCC--ATTTA
* * * *
10096426 -CCTAAAAATGACCAGAAC-TCTTCATCACGGATGAGTAGTGTCATC
1 CCCTAAAAATGACCAG-ACGTCCTCATCACGGAGGAATAATGTCATC
10096471 TTCAACAAAC
Statistics
Matches: 272, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
138 263 0.97
139 4 0.01
140 5 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (137 bp):
CCCTAAAAATGACCAGACGTCCTCATCACGGAGGAATAATGTCATCCACCGACCAGACCTCCTCA
TCACGTAGGAGCAGCGTCATCCCTAGATATCCAAACTTCCTCATCACATAGGAACCGCGTTATCT
CCATTTA
Found at i:10096675 original size:3 final size:3
Alignment explanation
Indices: 10096667--10096716 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10096657 CGGGTTTTAA
10096667 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10096715 AT
1 AT
10096717 CCTTTACAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10098431 original size:16 final size:16
Alignment explanation
Indices: 10098390--10098431 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10098380 ATATTTTTTC
*
10098390 TTTATTATTTTGTCCT
1 TTTATTATTTCGTCCT
*
10098406 TTTATGATTTCGTCCT
1 TTTATTATTTCGTCCT
*
10098422 TTTGTTATTT
1 TTTATTATTT
10098432 AATGTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.67
Consensus pattern (16 bp):
TTTATTATTTCGTCCT
Found at i:10100574 original size:15 final size:15
Alignment explanation
Indices: 10100554--10100582 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10100544 CAGTTGCAGC
10100554 GAGAAGGTTGCTTGT
1 GAGAAGGTTGCTTGT
10100569 GAGAAGGTTGCTTG
1 GAGAAGGTTGCTTG
10100583 CGTTCGGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.41, T:0.31
Consensus pattern (15 bp):
GAGAAGGTTGCTTGT
Found at i:10103018 original size:146 final size:140
Alignment explanation
Indices: 10102846--10103104 Score: 387
Period size: 146 Copynumber: 1.8 Consensus size: 140
10102836 TATAAATAAT
* *
10102846 ATATTTATTTACTTAGAAATATCAGAAAATGACTTATAGGTGCTCTAAGACA-TCTCATTTCTTA
1 ATATTTATTTACTTAGAAATACCAGAAAATGACTTATAGGTGCTCTAAGACAGTC-AATTTCTTA
10102910 ATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATTAATATA
65 ATATT---AAA-AAA-AAA-ATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATTAATATA
10102975 TAATTTATAAAAATAGA
124 TAATTTATAAAAATAGA
* * *
10102992 ATATTTATTTATTTA-AGAATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGTCAATTTCTTA
1 ATATTTATTTACTTAGA-AATACCAGAAAATGACTTATAGGTGCTCTAAGACAGTCAATTTCTTA
10103056 ATATTAAAAAAAAAATTAATAAAACATTTCTCTAAAAATAATTAAAATA
65 ATATTAAAAAAAAAATTAATAAAACATTTCTCTAAAAATAATTAAAATA
10103105 TATAATTTAT
Statistics
Matches: 106, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
140 35 0.33
141 3 0.03
142 3 0.03
143 3 0.03
145 1 0.01
146 59 0.56
147 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (140 bp):
ATATTTATTTACTTAGAAATACCAGAAAATGACTTATAGGTGCTCTAAGACAGTCAATTTCTTAA
TATTAAAAAAAAAATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATTAATATATAATTTA
TAAAAATAGA
Found at i:10103059 original size:128 final size:128
Alignment explanation
Indices: 10102959--10103195 Score: 289
Period size: 128 Copynumber: 1.8 Consensus size: 128
10102949 AAAAATAATT
10102959 AAAATAAATT-AATATATAATTTATAAAAATAGAATATTTATTTATTTAAGAATACCAGAAAATG
1 AAAAT-AATTAAATATATAATTTATAAAAATAGAATATTTATTTA---AA-AATACCAGAAAATG
* * * * **
10103023 ACTTCTAGGTGCTTTAAGACAGTCAATTTC-TTAATATTAAAAAAAAAATTAATAAAACATTTCT
61 ACATCTAGGTACTTTAAGACAATCAATTTCTTTAATATTAATAAAAAAATTAATAAAACATTAAT
10103087 CTA
126 CTA
* * **
10103090 AAAATAATTAAAATATATAATTTATTAAAATAGGATATTTATTTAAAAATATTAGAAAATGACAT
1 AAAATAATT-AAATATATAATTTATAAAAATAGAATATTTATTTAAAAATACCAGAAAATGACAT
* * *
10103155 CTAGTTACTTTAAGACAATCACTTTCTTTAATATAAATAAA
65 CTAGGTACTTTAAGACAATCAATTTCTTTAATATTAATAAA
10103196 TATTATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
128 37 0.40
129 14 0.15
130 4 0.04
131 5 0.05
132 32 0.35
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (128 bp):
AAAATAATTAAATATATAATTTATAAAAATAGAATATTTATTTAAAAATACCAGAAAATGACATC
TAGGTACTTTAAGACAATCAATTTCTTTAATATTAATAAAAAAATTAATAAAACATTAATCTA
Found at i:10103129 original size:17 final size:17
Alignment explanation
Indices: 10103096--10103137 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10103086 TCTAAAAATA
*
10103096 ATTAAAATATATAATTT
1 ATTAAAATAGATAATTT
10103113 ATTAAAATAGGAT-ATTT
1 ATTAAAATA-GATAATTT
10103130 ATTTAAAA
1 A-TTAAAA
10103138 ATATTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
ATTAAAATAGATAATTT
Found at i:10103302 original size:22 final size:21
Alignment explanation
Indices: 10103277--10103336 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
10103267 ACATAAAGGG
10103277 TAAAATAATAATAATAAATAAA
1 TAAAATAATAATAA-AAATAAA
* **
10103299 TAAAATAA-AATAAATATTGA
1 TAAAATAATAATAAAAATAAA
10103319 TCAAAATAATAATAAAAA
1 T-AAAATAATAATAAAAA
10103337 ATAGGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 15 0.47
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAATAATAATAAAAATAAA
Found at i:10103715 original size:6 final size:6
Alignment explanation
Indices: 10103704--10103768 Score: 130
Period size: 6 Copynumber: 10.8 Consensus size: 6
10103694 AAAACTCCGT
10103704 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
10103752 TTGAAA TTGAAA TTGAA
1 TTGAAA TTGAAA TTGAA
10103769 TAAATAAATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGAAA
Found at i:10104675 original size:22 final size:22
Alignment explanation
Indices: 10104633--10104676 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10104623 AGGTTGCCTA
* *
10104633 GGTGAGTCACCATAGCTATGGT
1 GGTGACTCACCATAGCGATGGT
*
10104655 GGTGACTCACCATAGGGATGGT
1 GGTGACTCACCATAGCGATGGT
10104677 CGTGGGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (22 bp):
GGTGACTCACCATAGCGATGGT
Found at i:10104974 original size:21 final size:18
Alignment explanation
Indices: 10104948--10104993 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
10104938 GTTTTTTATT
10104948 TAATAATTTATATATATATAA
1 TAATAATTT-TA-ATA-ATAA
10104969 TAATAATTTTAATAATAA
1 TAATAATTTTAATAATAA
10104987 TAATAAT
1 TAATAAT
10104994 AATATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.44
19 3 0.12
20 2 0.08
21 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATTTTAATAATAA
Found at i:10104994 original size:21 final size:22
Alignment explanation
Indices: 10104948--10104996 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
10104938 GTTTTTTATT
10104948 TAATAA-TTTATATATATATAA
1 TAATAATTTTATATATATATAA
10104969 TAATAATTTTA-ATA-ATAATAA
1 TAATAATTTTATATATAT-ATAA
10104990 TAATAAT
1 TAATAAT
10104997 ATGAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAATTTTATATATATATAA
Found at i:10105312 original size:45 final size:45
Alignment explanation
Indices: 10105246--10105359 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
10105236 ATAAAAAGCT
* * * * * **
10105246 CCCGAAGGCTTTTTGGAAACATCCTGCATTGTAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
10105293 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
* *
10105338 CTCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
10105360 AAAAGCTCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 50 0.86
47 8 0.14
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
Found at i:10105424 original size:121 final size:121
Alignment explanation
Indices: 10105153--10105596 Score: 728
Period size: 121 Copynumber: 3.7 Consensus size: 121
10105143 ATCATCTTGA
* ** * *
10105153 ACTGTAGGTCTTACAGATGATCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAAATGA
1 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
* *
10105218 CCCGAAGGTTTTTAAAATAT-AAAAAGCTCCCGAAGGCTTTTTGGAAACATCCTGC
66 CCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
* *
10105273 ATTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
1 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
*
10105338 CTCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
66 CCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
* *
10105394 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
1 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
* * *
10105459 CCAGAAGGTTTTAAAAATATCAAAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGC
66 CCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
* *
10105515 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
1 ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
10105580 CCCGAAGGTTTTGAAAA
66 CCCGAAGGTTTTGAAAA
10105597 CATCCTGCAC
Statistics
Matches: 303, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
120 78 0.26
121 225 0.74
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (121 bp):
ACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTAAAGATGA
CCCGAAGGTTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
Found at i:10105433 original size:45 final size:45
Alignment explanation
Indices: 10105367--10105475 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 45
10105357 TCAAAAAGCT
* * **
10105367 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
10105414 CCCGAAGGTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
* *
10105459 CCAGAAGGTTTTAAAAA
1 CCCGAAGGTTTTGAAAA
10105476 TATCAAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 48 0.86
47 8 0.14
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCCTGCACTGAAGGGCTTACAGATGA
Found at i:10105561 original size:45 final size:45
Alignment explanation
Indices: 10105498--10105668 Score: 245
Period size: 45 Copynumber: 3.8 Consensus size: 45
10105488 CTCGAAGGCT
* * **
10105498 TTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
* *
10105543 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
* *
10105588 TTTTGAAAACATCCTGCACTGAAGATCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
*
10105633 TTTTGAAAGCATCATGCACTGAAGGGT-TTACAGATG
1 TTTTGAAAACATCATGCACTGAA-GGTCTTACAGATG
10105669 TGGGAAATAG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 110 0.98
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
Found at i:10105651 original size:90 final size:90
Alignment explanation
Indices: 10105498--10105668 Score: 297
Period size: 90 Copynumber: 1.9 Consensus size: 90
10105488 CTCGAAGGCT
* * **
10105498 TTTTGAAAACATCCTGCACTGCAGGTCTTATGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
1 TTTTGAAAACATCCTGCACTGAAGATCTTACAGATGACCCGAAGGTTTTGAAAGCATCATGCACT
10105563 GAAGGGCTTACAGATGACCCGAAGG
66 GAAGGGCTTACAGATGACCCGAAGG
10105588 TTTTGAAAACATCCTGCACTGAAGATCTTACAGATGACCCGAAGGTTTTGAAAGCATCATGCACT
1 TTTTGAAAACATCCTGCACTGAAGATCTTACAGATGACCCGAAGGTTTTGAAAGCATCATGCACT
*
10105653 GAAGGGTTTACAGATG
66 GAAGGGCTTACAGATG
10105669 TGGGAAATAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (90 bp):
TTTTGAAAACATCCTGCACTGAAGATCTTACAGATGACCCGAAGGTTTTGAAAGCATCATGCACT
GAAGGGCTTACAGATGACCCGAAGG
Found at i:10106388 original size:22 final size:22
Alignment explanation
Indices: 10106325--10106390 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
10106315 AAATCCAATA
* * *
10106325 AATCTTTCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGTG
* *
10106347 AATTTATCATCTTTGGAGAGTG
1 AATCTATCATCTTTGAAGAGTG
*
10106369 AATCTATCATATTTGAAGAGTG
1 AATCTATCATCTTTGAAGAGTG
10106391 TAGATGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGTG
Found at i:10109608 original size:27 final size:27
Alignment explanation
Indices: 10109577--10109631 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
10109567 CTGATCCAAG
10109577 CGGATTTCTCGGTCATGATCAGAGATC
1 CGGATTTCTCGGTCATGATCAGAGATC
*
10109604 CGGATTTCTCGGTCATGGTCAGAGATC
1 CGGATTTCTCGGTCATGATCAGAGATC
10109631 C
1 C
10109632 CGTGAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (27 bp):
CGGATTTCTCGGTCATGATCAGAGATC
Found at i:10109898 original size:20 final size:20
Alignment explanation
Indices: 10109861--10109903 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10109851 ATTCCACCAC
*
10109861 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
10109881 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
10109901 ATG
1 ATG
10109904 TGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:10114532 original size:27 final size:27
Alignment explanation
Indices: 10114501--10114554 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
10114491 CTGATCCAGG
10114501 CGGATTTCTCGGTCATGATCAGAGATC
1 CGGATTTCTCGGTCATGATCAGAGATC
* *
10114528 CGGATTTCTCGGTCATGGTTAGAGATC
1 CGGATTTCTCGGTCATGATCAGAGATC
10114555 TCGTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (27 bp):
CGGATTTCTCGGTCATGATCAGAGATC
Found at i:10114822 original size:20 final size:20
Alignment explanation
Indices: 10114785--10114827 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10114775 ATTCCACCAC
*
10114785 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
10114805 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
10114825 ATG
1 ATG
10114828 TGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:10117602 original size:72 final size:72
Alignment explanation
Indices: 10117494--10117628 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 72
10117484 TAGAATAGGT
*
10117494 TAGCTAAATATTATCCATAAAGCCGGGGTGATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
1 TAGCTAAATATTATCCATAAAGCCGGGCTGATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
10117559 AATAGAC
66 AATAGAC
* *
10117566 TAGCTGAATATTATCCATAAAGCCAGGGCT-ATTAACCAATTTCTTTAGGGGGATAACTCAAGC
1 TAGCTAAATATTATCCATAAAGCC-GGGCTGATTAACCAATTGCTTTAGGGGGATAACTCAAGC
10117629 TTTATTGTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 55 0.93
73 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (72 bp):
TAGCTAAATATTATCCATAAAGCCGGGCTGATTAACCAATTGCTTTAGGGGGATAACTCAAGCAT
AATAGAC
Found at i:10122663 original size:146 final size:143
Alignment explanation
Indices: 10122491--10122752 Score: 411
Period size: 146 Copynumber: 1.8 Consensus size: 143
10122481 TATAAATAAT
* *
10122491 ATATTTATTTACTTAGAAATATCAGAAAATGACTTATAGGTGCTCTAAGACATCTC-ATTTCTTA
1 ATATTTATTTACTTAGAAATACCAGAAAATGACTTATAGGTGCTCTAAGACAGC-CAATTTCTTA
*
10122555 ATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATTAATATA
65 ATATT--AAAA-AAATAAATATTAATAAAAAATTTCTCTAAAAATAATTAAAATAAATTAATATA
10122620 TAATTTATAAAAATAGA
127 TAATTTATAAAAATAGA
* * *
10122637 ATATTTATTTATTTA-AGAATACCAGAAAATGACTTCTAGGTGCTTTAAGACAGCCAATTTCTTA
1 ATATTTATTTACTTAGA-AATACCAGAAAATGACTTATAGGTGCTCTAAGACAGCCAATTTCTTA
10122701 ATATTAAAAAAATAAATATTAATAAAAAATTTCTCTAAAAATAATTAAAATA
65 ATATTAAAAAAATAAATATTAATAAAAAATTTCTCTAAAAATAATTAAAATA
10122753 TATAATTTAT
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
143 42 0.39
144 4 0.04
145 2 0.02
146 60 0.56
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (143 bp):
ATATTTATTTACTTAGAAATACCAGAAAATGACTTATAGGTGCTCTAAGACAGCCAATTTCTTAA
TATTAAAAAAATAAATATTAATAAAAAATTTCTCTAAAAATAATTAAAATAAATTAATATATAAT
TTATAAAAATAGA
Found at i:10122777 original size:17 final size:17
Alignment explanation
Indices: 10122744--10122785 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10122734 TCTAAAAATA
*
10122744 ATTAAAATATATAATTT
1 ATTAAAATAGATAATTT
10122761 ATTAAAATAGGAT-ATTT
1 ATTAAAATA-GATAATTT
10122778 ATTTAAAA
1 A-TTAAAA
10122786 ATATTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
ATTAAAATAGATAATTT
Found at i:10122950 original size:22 final size:21
Alignment explanation
Indices: 10122925--10122984 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
10122915 ACATAAAGGG
10122925 TAAAATAATAATAATAAATAAA
1 TAAAATAATAATAA-AAATAAA
* **
10122947 TAAAATAA-AATAAATATTGA
1 TAAAATAATAATAAAAATAAA
10122967 TCAAAATAATAATAAAAA
1 T-AAAATAATAATAAAAA
10122985 ATAGGATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 15 0.47
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAATAATAATAAAAATAAA
Found at i:10123363 original size:6 final size:6
Alignment explanation
Indices: 10123352--10123386 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
10123342 AAAACTCCGT
10123352 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
10123387 TAAATAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGAAA
Found at i:10125468 original size:14 final size:13
Alignment explanation
Indices: 10125449--10125491 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10125439 TTTATCACAG
10125449 TATATACAAAATCA
1 TATATACAAAA-CA
*
10125463 TATATACAACACA
1 TATATACAAAACA
* *
10125476 TATATTCAAAGCA
1 TATATACAAAACA
10125489 TAT
1 TAT
10125492 GTTAGTATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.30
Consensus pattern (13 bp):
TATATACAAAACA
Found at i:10128135 original size:18 final size:18
Alignment explanation
Indices: 10128108--10128158 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
10128098 TCATGTACCG
10128108 TTTC-TTTTCTTATATTA
1 TTTCTTTTTCTTATATTA
* *
10128125 TTTCTTTTTCTTGTACTA
1 TTTCTTTTTCTTATATTA
*
10128143 TTCCTTTTT-TTATATT
1 TTTCTTTTTCTTATATT
10128159 GTTATTTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCTTATATTA
Found at i:10128605 original size:67 final size:67
Alignment explanation
Indices: 10128461--10128714 Score: 242
Period size: 67 Copynumber: 3.8 Consensus size: 67
10128451 ACCTCTAAGA
* * * * * * * * * *
10128461 TACACGAGTCAGTAATGAGTGTTCAGTACATTACCCAACATT-TCACTCCACCTCATGTACTACT
1 TACACGAGTTAGTAACGAGTGATCAGTACAATATCC-A-GTTATCACTCCACCTCAAGCACCACA
10128525 AAGG
64 AAGG
* * *
10128529 TACACGAGTTAGTAACGAGTGATCAGTACAATATCTA-TCTATCACTCCACCTTAAGCACCAGAA
1 TACACGAGTTAGTAACGAGTGATCAGTACAATATCCAGT-TATCACTCCACCTCAAGCACCACAA
10128593 AGG
65 AGG
* * * * **
10128596 TACATGAGTTAGTAATGAGTGATCAATACAATATCCAGTTATCACTCCATCTCACTCACCACAAA
1 TACACGAGTTAGTAACGAGTGATCAGTACAATATCCAGTTATCACTCCACCTCAAGCACCACAAA
10128661 GG
66 GG
* * * * * *
10128663 TACACGAGTCAGTAACGAGTGATAAGTACATTATTCAGTAATCACTGCACCT
1 TACACGAGTTAGTAACGAGTGATCAGTACAATATCCAGTTATCACTCCACCT
10128715 TGCGCATCGC
Statistics
Matches: 152, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
65 1 0.01
66 1 0.01
67 119 0.78
68 31 0.20
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (67 bp):
TACACGAGTTAGTAACGAGTGATCAGTACAATATCCAGTTATCACTCCACCTCAAGCACCACAAA
GG
Found at i:10132718 original size:18 final size:17
Alignment explanation
Indices: 10132686--10132719 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10132676 AGAGTTTATC
*
10132686 TTAAAATTTATTTATTT
1 TTAAAATTTACTTATTT
10132703 TTAAATATTTACTTATT
1 TTAAA-ATTTACTTATT
10132720 GCTATCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAAAATTTACTTATTT
Found at i:10132859 original size:2 final size:2
Alignment explanation
Indices: 10132854--10132892 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10132844 TTTCAATTAC
10132854 TA TA 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 TA TA T
10132893 CATGATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10133782 original size:14 final size:14
Alignment explanation
Indices: 10133759--10133791 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10133749 GTTTAGACGG
*
10133759 CTGAATTCTCAAGT
1 CTGAAGTCTCAAGT
10133773 CTGAAGTCTCAAGT
1 CTGAAGTCTCAAGT
10133787 CTGAA
1 CTGAA
10133792 CAGAACTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (14 bp):
CTGAAGTCTCAAGT
Found at i:10135950 original size:3 final size:3
Alignment explanation
Indices: 10135942--10136016 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
10135932 TTATTAGTCA
10135942 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
10135990 TAT TAT TAT TAT CAT CAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
10136017 CATCATCATC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10136017 original size:15 final size:15
Alignment explanation
Indices: 10135946--10136041 Score: 111
Period size: 15 Copynumber: 6.4 Consensus size: 15
10135936 TAGTCATATT
* *
10135946 ATTATTATTATTATT
1 ATTATTATTATCATC
* *
10135961 ATTATTATTATTATT
1 ATTATTATTATCATC
* *
10135976 ATTATTATTATTATT
1 ATTATTATTATCATC
10135991 ATTATTATTATCATC
1 ATTATTATTATCATC
*
10136006 ATCATTATTATCATC
1 ATTATTATTATCATC
* *
10136021 ATCATCATTATCATC
1 ATTATTATTATCATC
10136036 ATTATT
1 ATTATT
10136042 TTTTAACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 75 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTATTATCATC
Found at i:10136021 original size:18 final size:18
Alignment explanation
Indices: 10135991--10136037 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
10135981 TATTATTATT
*
10135991 ATTATTATTATCATCATC
1 ATTATTATCATCATCATC
10136009 ATTATTATCATCATCATC
1 ATTATTATCATCATCATC
*
10136027 ATTATCATCAT
1 ATTATTATCAT
10136038 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTATCATCATCATC
Found at i:10143866 original size:106 final size:106
Alignment explanation
Indices: 10143668--10143881 Score: 347
Period size: 106 Copynumber: 2.0 Consensus size: 106
10143658 TTCATAGAGC
* *
10143668 TTAATGACAAAAATGGAGGAGATGTGACTTTTGGTGATAATTCAAAAGGCCACATTAAAGGTATA
1 TTAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAAAAGGCCACATTAAAGGTATA
*
10143733 TGTGCTATAGGTAATACATCTTCCATACAAATTAAAGATGT
66 TGTACTATAGGTAATACATCTTCCATACAAATTAAAGATGT
* * * *
10143774 TTAACGACAAAAATGGAGGAGGGGTGACTTTTGGTGATAATTCAAAATGTCACATTGAAGGTATA
1 TTAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAAAAGGCCACATTAAAGGTATA
* *
10143839 TGTACTATAGGTAATACCTCTTTCATACAAATTAAAGATGT
66 TGTACTATAGGTAATACATCTTCCATACAAATTAAAGATGT
10143880 TT
1 TT
10143882 TATATGTGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (106 bp):
TTAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAAAAGGCCACATTAAAGGTATA
TGTACTATAGGTAATACATCTTCCATACAAATTAAAGATGT
Found at i:10147089 original size:21 final size:23
Alignment explanation
Indices: 10147046--10147100 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
10147036 CGCCATGTAT
*
10147046 CGATACCCCCTTTGAATGGGTAC
1 CGATACCCCCTATGAATGGGTAC
10147069 CGATACCCCCTATG-A-GGGTAC
1 CGATACCCCCTATGAATGGGTAC
**
10147090 TAATACCCCCT
1 CGATACCCCCT
10147101 TCGGGTTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 15 0.52
22 1 0.03
23 13 0.45
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (23 bp):
CGATACCCCCTATGAATGGGTAC
Done.