Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 116 of 322
Found at i:37770141 original size:21 final size:21
Alignment explanation
Indices: 37770117--37770157 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
37770107 GTTCTGCTCC
37770117 GCCTCCCTCGCTGCTGCCTCT
1 GCCTCCCTCGCTGCTGCCTCT
37770138 GCCTCCCTCGCTGCTGCCTC
1 GCCTCCCTCGCTGCTGCCTC
37770158 CGCTCTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTGCCTCT
Found at i:37771411 original size:30 final size:30
Alignment explanation
Indices: 37771353--37771413 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
37771343 ATCATGATCA
* *
37771353 AAATTCACGAGTTGATATAGCATAGAACTT
1 AAATTCACGAGTTGATATAACACAGAACTT
*
37771383 AAATTCACGAGTTGATATAACACGGAACTT
1 AAATTCACGAGTTGATATAACACAGAACTT
37771413 A
1 A
37771414 TTTGGAAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (30 bp):
AAATTCACGAGTTGATATAACACAGAACTT
Found at i:37774161 original size:22 final size:22
Alignment explanation
Indices: 37774136--37774178 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37774126 TCTTACATAA
37774136 CCATAAAT-CATAAACCCTAAAC
1 CCAT-AATCCATAAACCCTAAAC
*
37774158 CCATAATCCATAAACCTTAAA
1 CCATAATCCATAAACCCTAAA
37774179 ATAATAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
CCATAATCCATAAACCCTAAAC
Found at i:37774339 original size:7 final size:7
Alignment explanation
Indices: 37774327--37774431 Score: 58
Period size: 7 Copynumber: 15.1 Consensus size: 7
37774317 ACTAACTAAT
37774327 CTAAACC
1 CTAAACC
37774334 CTAAACTC
1 CTAAAC-C
* *
37774342 TTAATCC
1 CTAAACC
*
37774349 CTAAACA
1 CTAAACC
*
37774356 TTAAACC
1 CTAAACC
37774363 CTAAACC
1 CTAAACC
37774370 CTAAACCC
1 CTAAA-CC
*
37774378 CT-CACC
1 CTAAACC
*
37774384 CTTAACC
1 CTAAACC
*
37774391 CTTAACCC
1 C-TAAACC
37774399 CT-AACAC
1 CTAAAC-C
37774406 CT-AACC
1 CTAAACC
*
37774412 TTAAACC
1 CTAAACC
37774419 C--AACC
1 CTAAACC
*
37774424 CTTAACC
1 CTAAACC
37774431 C
1 C
37774432 ACCTTTAAAC
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
5 5 0.07
6 8 0.11
7 48 0.64
8 14 0.19
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:37774384 original size:21 final size:20
Alignment explanation
Indices: 37774359--37774431 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
37774349 CTAAACATTA
37774359 AACCCTAAACCCTAAACCCCT
1 AACCCT-AACCCTAAACCCCT
* *
37774380 CACCCTTAACCCTTAACCCCT
1 AACCC-TAACCCTAAACCCCT
*
37774401 AACACCTAACCTTAAA-CCC-
1 AAC-CCTAACCCTAAACCCCT
37774420 AACCCTTAACCC
1 AACCC-TAACCC
37774432 ACCTTTAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.05
19 8 0.19
20 3 0.07
21 27 0.63
22 3 0.07
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (20 bp):
AACCCTAACCCTAAACCCCT
Found at i:37774469 original size:15 final size:15
Alignment explanation
Indices: 37774449--37774500 Score: 72
Period size: 14 Copynumber: 3.6 Consensus size: 15
37774439 AACCATAGTT
37774449 AACTCATAAACCTTA
1 AACTCATAAACCTTA
* *
37774464 AACTCATATAGCTTA
1 AACTCATAAACCTTA
37774479 AAC-CATAAACCTTA
1 AACTCATAAACCTTA
37774493 AACT-ATAA
1 AACTCATAA
37774501 TGATAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (15 bp):
AACTCATAAACCTTA
Found at i:37774849 original size:23 final size:22
Alignment explanation
Indices: 37774819--37774866 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
37774809 GTTTAAGATT
* *
37774819 TTTTAAGGTTTAGGAGTTTAGTG
1 TTTTAAGGATTA-GAGATTAGTG
*
37774842 TTTTAAGGATTATAGATTAGTG
1 TTTTAAGGATTAGAGATTAGTG
37774864 TTT
1 TTT
37774867 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TTTTAAGGATTAGAGATTAGTG
Found at i:37774965 original size:41 final size:41
Alignment explanation
Indices: 37774908--37775168 Score: 362
Period size: 41 Copynumber: 6.4 Consensus size: 41
37774898 GTTATATGAC
* * *
37774908 TTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
* *
37774949 TTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGATCCGGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
*
37774990 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCCGGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
37775031 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
* * * * *
37775072 TTTTAGCGGCGTTTTATAAAAAGTGCCACTAATGCTCCGAT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
** * * *
37775113 TTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCT-CTGT
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGATCCGGT
37775154 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
37775169 TGGTAAAACA
Statistics
Matches: 203, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 186 0.92
42 17 0.08
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGATCCGGT
Found at i:37775567 original size:19 final size:19
Alignment explanation
Indices: 37775543--37775579 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
37775533 ATTACATGAT
37775543 ACATGATTATGTGACTAAA
1 ACATGATTATGTGACTAAA
37775562 ACATGATTATGTGACTAA
1 ACATGATTATGTGACTAA
37775580 CTCATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
ACATGATTATGTGACTAAA
Found at i:37777594 original size:165 final size:165
Alignment explanation
Indices: 37777318--37777641 Score: 531
Period size: 165 Copynumber: 2.0 Consensus size: 165
37777308 CCAAAGAATT
* * * *
37777318 TTTGAAGTGCGCTGTGTCCCTTTTGGAGGATACTGCATACAATTGGTGGAAGACTATATCCTTAG
1 TTTGAAGTGCACTGTGTCCCTTTTGAAAGACACTGCATACAATTGGTGGAAGACTATATCCTTAG
* *
37777383 TAGTGTCAAAAGAGAATATTACTTCGAATTTCTTCCAAGCAGAATTTAGGAAGAAATACATTAGC
66 TAGTGCCAAAAGAGAATATTACTTCGAATTTCTTCCAAGAAGAATTTAGGAAGAAATACATTAGC
*
37777448 CAATGGTTTTTGGACTCGAAATGAAAGGAAAAATG
131 CAATGGTTTTTGGACTCGAAACGAAAGGAAAAATG
* *
37777483 TTTGAAGTGCACTGTGTCCCTTTTGAAAGACACTGCATACAATTGGTGGAAGACTTTATCCTTGG
1 TTTGAAGTGCACTGTGTCCCTTTTGAAAGACACTGCATACAATTGGTGGAAGACTATATCCTTAG
* * *
37777548 TAGTGCCGAAAGAGAATATTACTTGGGATTTCTTCCAAGAAGAATTTAGGAAGAAATACATTAGC
66 TAGTGCCAAAAGAGAATATTACTTCGAATTTCTTCCAAGAAGAATTTAGGAAGAAATACATTAGC
*
37777613 CAATTGTTTTTGGACTCGAAACGAAAGGA
131 CAATGGTTTTTGGACTCGAAACGAAAGGA
37777642 GCTTCTGGAA
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 146 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (165 bp):
TTTGAAGTGCACTGTGTCCCTTTTGAAAGACACTGCATACAATTGGTGGAAGACTATATCCTTAG
TAGTGCCAAAAGAGAATATTACTTCGAATTTCTTCCAAGAAGAATTTAGGAAGAAATACATTAGC
CAATGGTTTTTGGACTCGAAACGAAAGGAAAAATG
Found at i:37785386 original size:7 final size:7
Alignment explanation
Indices: 37785367--37785410 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
37785357 AAGAGAGAAT
*
37785367 GATGAAG
1 GATGAGG
37785374 GATGAGG
1 GATGAGG
37785381 GATGAGG
1 GATGAGG
*
37785388 AATGAGG
1 GATGAGG
*
37785395 GATAAGG
1 GATGAGG
37785402 GAATGAGG
1 G-ATGAGG
37785410 G
1 G
37785411 GGTCTTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.50, T:0.14
Consensus pattern (7 bp):
GATGAGG
Found at i:37785397 original size:21 final size:22
Alignment explanation
Indices: 37785368--37785409 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37785358 AGAGAGAATG
*
37785368 ATGAAGGATGAGGG-ATGAGGA
1 ATGAAGGATAAGGGAATGAGGA
*
37785389 ATGAGGGATAAGGGAATGAGG
1 ATGAAGGATAAGGGAATGAGG
37785410 GGGTCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (22 bp):
ATGAAGGATAAGGGAATGAGGA
Found at i:37790096 original size:39 final size:39
Alignment explanation
Indices: 37790042--37790123 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
37790032 TCAAAGCTGT
*
37790042 CTACTTGAGTCATAGTCACTAAATTATTTATAACTTGAG
1 CTACTTGAGTCATAGTCACTAAATTATTTATAACTCGAG
37790081 CTACTTGAGTCATAGTCACTAAATTATTTATAACTCGAG
1 CTACTTGAGTCATAGTCACTAAATTATTTATAACTCGAG
37790120 CTAC
1 CTAC
37790124 AGGACTCAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (39 bp):
CTACTTGAGTCATAGTCACTAAATTATTTATAACTCGAG
Found at i:37794973 original size:42 final size:43
Alignment explanation
Indices: 37794906--37795019 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
37794896 CATCAATTTG
* * *
37794906 TGATTTACGCGTAAGACCATGTCTGGGACA-TTAGCATCG-TATA
1 TGATTT-CGTGTAAGACCATATCTGGGACAGTGA-CATCGATATA
* *
37794949 TGATTTCGTGTAAGACCCTATCTGGGACAGTGACATCGATATT
1 TGATTTCGTGTAAGACCATATCTGGGACAGTGACATCGATATA
* * * *
37794992 TGATTACATGTAAGACCACATCTAGGAC
1 TGATTTCGTGTAAGACCATATCTGGGAC
37795020 TTTGGCATTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATATCTGGGACAGTGACATCGATATA
Found at i:37798310 original size:27 final size:27
Alignment explanation
Indices: 37798255--37798310 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
37798245 ATGTTATTAG
*
37798255 TTTATTATTATATTTTTTATTTTTATT
1 TTTATTATTATATTTTTTATGTTTATT
* *
37798282 TTTATTTTTCTATTTTTTCATGTTT-TT
1 TTTATTATTATATTTTTT-ATGTTTATT
37798309 TT
1 TT
37798311 CTTTTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (27 bp):
TTTATTATTATATTTTTTATGTTTATT
Found at i:37798316 original size:27 final size:27
Alignment explanation
Indices: 37798265--37798318 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
37798255 TTTATTATTA
*
37798265 TATTTTTTATTTTTATTTTTATTTTTC
1 TATTTTTTATTTTTATTTCTATTTTTC
*
37798292 TATTTTTTCATGTTTT-TTTCTTTTTTT
1 TATTTTTT-AT-TTTTATTTCTATTTTT
37798319 GTTCTTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (27 bp):
TATTTTTTATTTTTATTTCTATTTTTC
Found at i:37798982 original size:21 final size:21
Alignment explanation
Indices: 37798958--37798997 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37798948 TGGCATATGG
* *
37798958 GGCCTTCACACGGGCGTGTGA
1 GGCCTCCACACGAGCGTGTGA
*
37798979 GGCCTCCACATGAGCGTGT
1 GGCCTCCACACGAGCGTGT
37798998 AGACCCCTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (21 bp):
GGCCTCCACACGAGCGTGTGA
Found at i:37804111 original size:18 final size:17
Alignment explanation
Indices: 37804088--37804134 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
37804078 TTATTTTTCT
37804088 TTCATTAAGTTTTTAAGA
1 TTCATT-AGTTTTTAAGA
* *
37804106 TTCATTTGTTTTTAATA
1 TTCATTAGTTTTTAAGA
*
37804123 TTCATTTGTTTT
1 TTCATTAGTTTT
37804135 CCTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.62
Consensus pattern (17 bp):
TTCATTAGTTTTTAAGA
Found at i:37804117 original size:16 final size:17
Alignment explanation
Indices: 37804096--37804134 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37804086 CTTTCATTAA
37804096 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
*
37804113 GTTTTTAATATTCATTT
1 GTTTTTAAGATTCATTT
37804130 GTTTT
1 GTTTT
37804135 CCTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:37804986 original size:103 final size:103
Alignment explanation
Indices: 37804807--37805012 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
37804797 AGCCTACCTC
37804807 CATGATTAACCCTTAGTAAACCCCCTTGAGCCAACAAGCCATTCCTTGTATTAACCTCAATATTA
1 CATGATTAACCCTTAGTAAACCCCCTTGAGCCAACAAGCCATTCCTTGTATTAACCTCAATATTA
37804872 ACCCTTAACCCATTATTGTTGAAATCCCCTAAATTAAT
66 ACCCTTAACCCATTATTGTTGAAATCCCCTAAATTAAT
37804910 CATGATTAACCCTTAGTAAACCCCCTTGAGCCAACAAGCCATTCCTTGTATTAACCTCAATATTA
1 CATGATTAACCCTTAGTAAACCCCCTTGAGCCAACAAGCCATTCCTTGTATTAACCTCAATATTA
*
37804975 ACCCTTAACCCATTATTGTTGAAATCCCTTAAATTAAT
66 ACCCTTAACCCATTATTGTTGAAATCCCCTAAATTAAT
37805013 TTGATTCCCA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (103 bp):
CATGATTAACCCTTAGTAAACCCCCTTGAGCCAACAAGCCATTCCTTGTATTAACCTCAATATTA
ACCCTTAACCCATTATTGTTGAAATCCCCTAAATTAAT
Found at i:37825422 original size:15 final size:15
Alignment explanation
Indices: 37825402--37825470 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
37825392 GTATCTTGGG
37825402 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
37825417 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
37825432 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
37825447 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
37825462 TTTCTTTAT
1 TTTCTTTAT
37825471 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:37825471 original size:30 final size:30
Alignment explanation
Indices: 37825393--37825480 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
37825383 CATAGTATCG
* * * *
37825393 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
37825423 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
37825453 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
37825481 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:37827924 original size:46 final size:46
Alignment explanation
Indices: 37827874--37828046 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
37827864 TGGTTGAGCA
37827874 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
37827920 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37827965 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37828013 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37828047 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37828030 original size:93 final size:93
Alignment explanation
Indices: 37827871--37828041 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
37827861 GGATGGTTGA
* *
37827871 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37827936 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
37827964 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37828029 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37828042 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:37832204 original size:43 final size:43
Alignment explanation
Indices: 37832048--37832205 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
37832038 ATGTGTTATT
*
37832048 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGA-TTAC
* * *
37832092 GTGTAAGACCATGCCTGGGACATTGGCA-CTG-TATATGA-TATC
1 GTGTAAGACCACGTCTGGGACATTGGCATC-GATATTTGATTA-C
* *
37832134 GTGTAAGACC-CTGTCTGAGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGATTAC
* * *
37832177 ATGTAAGACCACGTCTAGGACTTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
37832206 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.02
42 25 0.27
43 35 0.38
44 30 0.33
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTAC
Found at i:37835909 original size:27 final size:26
Alignment explanation
Indices: 37835870--37835973 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 26
37835860 CTCATATCTG
*
37835870 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGG-TAGAATTACTGAAATACCCCTA
* * * *
37835897 TAAGGTAAAATTACTAAAATGCCCCTG
1 T-AGGTAGAATTACTGAAATACCCCTA
* *
37835924 TAGCATAGAATTACTG-AATGCCCCTA
1 TAG-GTAGAATTACTGAAATACCCCTA
*
37835950 TAGGATAGAATTATTGAAATACCC
1 TAGG-TAGAATTACTGAAATACCC
37835974 TTGGTTTACA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 24 0.39
27 34 0.56
28 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TAGGTAGAATTACTGAAATACCCCTA
Found at i:37835957 original size:26 final size:26
Alignment explanation
Indices: 37835870--37835967 Score: 90
Period size: 26 Copynumber: 3.7 Consensus size: 26
37835860 CTCATATCTG
* * *
37835870 TAGGCTAGTATTACTGAAATACCCCTA
1 TAGGATAGAATTACTG-AATGCCCCTA
* * *
37835897 TAAGG-TAAAATTACTAAAATGCCCCTG
1 T-AGGATAGAATTACT-GAATGCCCCTA
*
37835924 TAGCATAGAATTACTGAATGCCCCTA
1 TAGGATAGAATTACTGAATGCCCCTA
*
37835950 TAGGATAGAATTATTGAA
1 TAGGATAGAATTACTGAA
37835968 ATACCCTTGG
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
26 27 0.47
27 27 0.47
28 3 0.05
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (26 bp):
TAGGATAGAATTACTGAATGCCCCTA
Found at i:37835995 original size:26 final size:27
Alignment explanation
Indices: 37835966--37836060 Score: 113
Period size: 26 Copynumber: 3.6 Consensus size: 27
37835956 AGAATTATTG
*
37835966 AAATACCCTTGGTTTACAAAATTA-CT
1 AAATACCCTTGGTTTACAAAATTACCA
* *
37835992 AAATACGCTTGGTTTACAAAACTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* *
37836019 AAATACCC-TCGATTAGCAAAATTACCA
1 AAATACCCTTGGTTTA-CAAAATTACCA
*
37836046 AAATACCCCTGGTTT
1 AAATACCCTTGGTTT
37836061 GTAAATTAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 27 0.47
27 26 0.46
28 4 0.07
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACCA
Found at i:37836073 original size:26 final size:26
Alignment explanation
Indices: 37836037--37836105 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
37836027 TCGATTAGCA
*
37836037 AAATTACCAAAATACCCCTGGTTTGT-
1 AAATTA-CAAAATACCCCTGATTTGTG
* *
37836063 AAATTAGCAAAATGCCCCTGATTTTTG
1 AAATTA-CAAAATACCCCTGATTTGTG
*
37836090 AAATTACTAAATACCC
1 AAATTACAAAATACCC
37836106 TCGACCTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
26 30 0.83
27 6 0.17
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTACAAAATACCCCTGATTTGTG
Found at i:37836190 original size:27 final size:26
Alignment explanation
Indices: 37836009--37836261 Score: 107
Period size: 27 Copynumber: 9.5 Consensus size: 26
37835999 CTTGGTTTAC
* * * *
37836009 AAAACTACCAAAATACCCTCGATTAGC
1 AAAATTACCAAAATCCCCT-GATTTGT
*
37836036 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAAT-CCCCTGATTTGT
* *
37836063 -AAATTAGCAAAATGCCCCTGATTTTT
1 AAAATTACCAAAAT-CCCCTGATTTGT
* * * ** *
37836089 GAAATTA-CTAAATACCCTCGACCTAT
1 AAAATTACCAAAATCCCCT-GATTTGT
* * * * *
37836115 AAAATTACCGAAATACCTTAACTTGT
1 AAAATTACCAAAATCCCCTGATTTGT
* ** *
37836141 AAAATTACCGAAATACCTTTGATTTTT
1 AAAATTACCAAAAT-CCCCTGATTTGT
* *
37836168 AAAATTATCAAAATGCCCCTGATTTGG
1 AAAATTACCAAAAT-CCCCTGATTTGT
* * * * *
37836195 AAAATTACTAGAATGCCCTTAATTTGG
1 AAAATTACCAAAAT-CCCCTGATTTGT
* *
37836222 AAAATTA-CAGAAATACCCTTGGTTTGT
1 AAAATTACCA-AAAT-CCCCTGATTTGT
* *
37836249 ATATTTACCAAAA
1 AAAATTACCAAAA
37836262 CACCCTTGTA
Statistics
Matches: 174, Mismatches: 45, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
25 4 0.02
26 56 0.32
27 108 0.62
28 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATCCCCTGATTTGT
Found at i:37836568 original size:41 final size:41
Alignment explanation
Indices: 37836511--37836629 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
37836501 GAAGAAATTC
*
37836511 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
37836552 AGGATCGCATGGTTGCTTGACGACCATAGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
37836593 AGGATCGCATGGTTGCTTGACAATCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
37836630 GTGGCTTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:37837630 original size:18 final size:17
Alignment explanation
Indices: 37837601--37837647 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
37837591 GTAGATCGCA
37837601 GTTTTCCAAAACTACAACT
1 GTTTT-CAAAACTACAA-T
*
37837620 GTTTTCAAAAC-ACTAT
1 GTTTTCAAAACTACAAT
*
37837636 GTTTTCGAAACT
1 GTTTTCAAAACT
37837648 TAACTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 6 0.24
19 5 0.20
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (17 bp):
GTTTTCAAAACTACAAT
Found at i:37838570 original size:35 final size:35
Alignment explanation
Indices: 37838531--37838601 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
37838521 TCTAGGATCA
*
37838531 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
* * *
37838566 CATATGTTTGAAGATTACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
37838601 C
1 C
37838602 TCTAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTACCAAG
Found at i:37840579 original size:48 final size:48
Alignment explanation
Indices: 37840508--37840631 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
37840498 GTTATGTGTA
* * *
37840508 ATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATAAGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGAATTAGCAGCAATAAGTG
* * *
37840556 ATCCCATGTAAGACCATATCTGGGATATGGCATTAGCAGCAATAAGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGAATTAGCAGCAATAAGTG
** * *
37840604 ATTTCGTGTAAGACCATGCCTGGGACAT
1 ATCCCATGTAAGACCATGTCTGGGACAT
37840632 AGCATCGATA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGAATTAGCAGCAATAAGTG
Found at i:37858841 original size:14 final size:14
Alignment explanation
Indices: 37858822--37858851 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37858812 GTAAATTTTG
37858822 AGATGGAAAAGTTA
1 AGATGGAAAAGTTA
37858836 AGATGGAAAAGTTA
1 AGATGGAAAAGTTA
37858850 AG
1 AG
37858852 GACAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (14 bp):
AGATGGAAAAGTTA
Found at i:37864464 original size:94 final size:94
Alignment explanation
Indices: 37864303--37864585 Score: 530
Period size: 94 Copynumber: 3.0 Consensus size: 94
37864293 GAGGACGATA
*
37864303 CTTCAACCACCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
1 CTTCAACCATCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
37864368 AATCCAGTAAATCAGAATCCTAATCCGCG
66 AATCCAGTAAATCAGAATCCTAATCCGCG
* * *
37864397 CTTCAACCATAACTGAGAAGATGGCTTAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
1 CTTCAACCATCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
37864462 AATCCAGTAAATCAGAATCCTAATCCGCG
66 AATCCAGTAAATCAGAATCCTAATCCGCG
37864491 CTTCAACCATCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
1 CTTCAACCATCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
37864556 AATCCAGTAAATCAGAATCCTAATCCGCG
66 AATCCAGTAAATCAGAATCCTAATCCGCG
37864585 C
1 C
37864586 ACTATGTATG
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 182 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (94 bp):
CTTCAACCATCACTGAGGAGATGGCTGAAAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTT
AATCCAGTAAATCAGAATCCTAATCCGCG
Found at i:37864621 original size:94 final size:93
Alignment explanation
Indices: 37864331--37864622 Score: 278
Period size: 94 Copynumber: 3.1 Consensus size: 93
37864321 AGATGGCTGA
37864331 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
1 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
* * ** *
37864396 GCTTCAACCATAACTGAGAAG--ATGGC-T-TA
66 G---C-ACTATAA-TGAGTAGCTAAAGCTTCTT
37864425 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
1 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
* * * ** **
37864490 GCTTCAACCATCACTGAGGAG--ATGGC-T-GA
66 G---C-ACTAT-AATGAGTAGCTAAAGCTTCTT
37864519 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
1 AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
* *
37864584 GCACTATGTATGAGTATGCTAAACCTTCTT
66 GCACTAT-AATGAGTA-GCTAAAGCTTCTT
*
37864614 TAA-CAGGAA
1 AAATCAGGAA
37864623 CTAAATCTAG
Statistics
Matches: 178, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
90 9 0.05
91 2 0.01
93 2 0.01
94 162 0.91
95 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (93 bp):
AAATCAGGAAAACCTGATACCTTCTGCGATTGTTGTTAATCCAGTAAATCAGAATCCTAATCCGC
GCACTATAATGAGTAGCTAAAGCTTCTT
Found at i:37874025 original size:27 final size:27
Alignment explanation
Indices: 37873995--37874339 Score: 342
Period size: 27 Copynumber: 12.8 Consensus size: 27
37873985 ATTACCAAAG
* *
37873995 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
37874022 TACCTTC-AGTTTGCAAAATTACCATTT
1 TACCCTCGA-TTTACAGAATTACCATTT
* *
37874049 TACCCTCAATTTACAAAATTATCC--TT
1 TACCCTCGATTTACAGAATTA-CCATTT
*
37874075 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
37874102 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
37874129 TACCCTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTACAGAATTACCATTT
* * *
37874156 TACCATCGGTTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
37874183 TACCCTC-AGTTTATAGAATTATCGTTT
1 TACCCTCGA-TTTACAGAATTACCATTT
* *
37874210 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
37874237 CACCATCGGTTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
37874264 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCATTT
* *
37874291 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
37874318 TACCATCGATTTATAGAATTAC
1 TACCCTCGATTTACAGAATTAC
37874340 TGAAATACCC
Statistics
Matches: 265, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
25 2 0.01
26 23 0.09
27 235 0.89
28 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:37874196 original size:81 final size:80
Alignment explanation
Indices: 37873995--37874339 Score: 413
Period size: 81 Copynumber: 4.3 Consensus size: 80
37873985 ATTACCAAAG
* * * * * *
37873995 TACCCTCGATTTATAGAATTACCGTTTTACCTTCAGTTTGCAAAATTACCATTTTACCCTCAATT
1 TACCATCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATT
*
37874060 TACAAAATTATCCTT
66 TACAAAATTATCTTT
* * * * *
37874075 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTCAGTT
1 TACCATCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATT
37874140 TACAAAATTATCGTTT
66 TACAAAATTATC-TTT
* * * * * *
37874156 TACCATCGGTTTACAAAATTACCATTTTACCCTCAGTTTATAGAATTATCGTTTTACCCTCGATT
1 TACCATCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATT
* *
37874221 TATAGAATTA-CTATT
66 TACAAAATTATCT-TT
* *
37874236 TCACCATCGGTTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCAAT
1 T-ACCATCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAAT
* * *
37874301 TTATAGAATTACCATTT
65 TTACAAAATTATC-TTT
*
37874318 TACCATCGATTTATAGAATTAC
1 TACCATCGATTTACAGAATTAC
37874340 TGAAATACCC
Statistics
Matches: 233, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.00
80 74 0.32
81 153 0.66
82 4 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (80 bp):
TACCATCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACCATTTTACCCTCAATT
TACAAAATTATCTTT
Found at i:37874389 original size:54 final size:54
Alignment explanation
Indices: 37874331--37874467 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
37874321 CATCGATTTA
* * *
37874331 TAGAATTACTGAAATACCCTTGTAGGTTAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCTTATAGGGTAGAATTACTGAAATACACCTGTAGGG
* *
37874385 TAGAATTTCTGAAATACCCCTATAGGGTAGAATTACTGAAATACACCTGTAGGG
1 TAGAATTACTGAAATACCCTTATAGGGTAGAATTACTGAAATACACCTGTAGGG
* * *
37874439 TAGAATTACCGAGATACCCTTATGGGGTA
1 TAGAATTACTGAAATACCCTTATAGGGTA
37874468 AAATCACCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (54 bp):
TAGAATTACTGAAATACCCTTATAGGGTAGAATTACTGAAATACACCTGTAGGG
Found at i:37874466 original size:27 final size:27
Alignment explanation
Indices: 37874331--37874467 Score: 168
Period size: 27 Copynumber: 5.1 Consensus size: 27
37874321 CATCGATTTA
* *
37874331 TAGAATTACTGAAATACCCTTGTAGGT
1 TAGAATTACTGAAATACCCTTATAGGG
* *
37874358 TAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCTTATAGGG
* *
37874385 TAGAATTTCTGAAATACCCCTATAGGG
1 TAGAATTACTGAAATACCCTTATAGGG
*
37874412 TAGAATTACTGAAATACACC-TGTAGGG
1 TAGAATTACTGAAATAC-CCTTATAGGG
* * *
37874439 TAGAATTACCGAGATACCCTTATGGGG
1 TAGAATTACTGAAATACCCTTATAGGG
37874466 TA
1 TA
37874468 AAATCACCAT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
26 2 0.02
27 94 0.96
28 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGAATTACTGAAATACCCTTATAGGG
Found at i:37874749 original size:28 final size:28
Alignment explanation
Indices: 37874709--37874798 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
37874699 GGAGGAAGCG
*
37874709 TTCTTGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
37874737 TTCTGGTGGCTATGCCACAAATAT-T-T
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * *
37874763 ATTCTGGTGGCTCTGTCA-TAATATCTGT
1 -TTCTGGTGGCTATGCCACAAATATCTGT
*
37874791 ATCTGGTG
1 TTCTGGTG
37874799 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 6 0.11
27 24 0.44
28 24 0.44
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:37874795 original size:27 final size:28
Alignment explanation
Indices: 37874714--37874808 Score: 97
Period size: 27 Copynumber: 3.5 Consensus size: 28
37874704 AAGCGTTCTT
* * *
37874714 GTGGCTATGCCACAAATATCTGTTTCTG
1 GTGGCTCTGTCACAAATATCTGTATCTG
* *
37874742 GTGGCTATGCCACAAATAT-T-TATTCTG
1 GTGGCTCTGTCACAAATATCTGTA-TCTG
*
37874769 GTGGCTCTGTCA-TAATATCTGTATCTG
1 GTGGCTCTGTCACAAATATCTGTATCTG
*
37874796 GTGACTCTGTCAC
1 GTGGCTCTGTCAC
37874809 CATATCTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.10
27 31 0.53
28 21 0.36
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (28 bp):
GTGGCTCTGTCACAAATATCTGTATCTG
Found at i:37883394 original size:718 final size:718
Alignment explanation
Indices: 37882019--37883455 Score: 2874
Period size: 718 Copynumber: 2.0 Consensus size: 718
37882009 CTTTTTGATG
37882019 ATTAAACTTGTGAATTCCAATTCAAGGTAATACTTAGACTTGGGGAAACAACCTAAAATTTTAAA
1 ATTAAACTTGTGAATTCCAATTCAAGGTAATACTTAGACTTGGGGAAACAACCTAAAATTTTAAA
37882084 TTCTTAAAAATCAACTTATCATGCTTGATTCTCTAACGTCTTAAAGTTTAAACAATAAATGCATA
66 TTCTTAAAAATCAACTTATCATGCTTGATTCTCTAACGTCTTAAAGTTTAAACAATAAATGCATA
37882149 AATGCCTATGTTTTAATTCAAGATATATCAATCAATAATCATAAATCAATCAAAATTTATCCTAA
131 AATGCCTATGTTTTAATTCAAGATATATCAATCAATAATCATAAATCAATCAAAATTTATCCTAA
37882214 ATATGATTTGAGAGCTTTTCAAGAGAACAAGGTAATCATTCAGGGATTTTTCTGATAATAAAATG
196 ATATGATTTGAGAGCTTTTCAAGAGAACAAGGTAATCATTCAGGGATTTTTCTGATAATAAAATG
37882279 AATACCCCCCACACTTAAGATGTACATTGTCCTCAATGTACAAAGATAGATATATAGAAAAGAAT
261 AATACCCCCCACACTTAAGATGTACATTGTCCTCAATGTACAAAGATAGATATATAGAAAAGAAT
37882344 GTCAAAATAAGATAGGGAGAGAAGTGAAACTTCCTGAGTGATGAATGAATTTCCTTAAATTGGAG
326 GTCAAAATAAGATAGGGAGAGAAGTGAAACTTCCTGAGTGATGAATGAATTTCCTTAAATTGGAG
37882409 TTTTAGAGAATAATCAGCATGAGGATGGAGGAGGATACTCTGGCGGTGGTAGAGGCTCGTTAGAC
391 TTTTAGAGAATAATCAGCATGAGGATGGAGGAGGATACTCTGGCGGTGGTAGAGGCTCGTTAGAC
37882474 CATAAGCCCTACACCAAAAGAATATTATATCTAGTGGTAGCTATAGTTGTGGTCGAGCAGGACAT
456 CATAAGCCCTACACCAAAAGAATATTATATCTAGTGGTAGCTATAGTTGTGGTCGAGCAGGACAT
37882539 GGCAGTCATGGAGAACCTTTCCCGGTGAAGTTTTTAGTTCCTATGTGATGATGAGCTTAAGAGCT
521 GGCAGTCATGGAGAACCTTTCCCGGTGAAGTTTTTAGTTCCTATGTGATGATGAGCTTAAGAGCT
37882604 CTTTATAACTATAAAAAAATCAGGAACTTTTTAGGGGATATTAGGAAGAATATTAACTCATAAAG
586 CTTTATAACTATAAAAAAATCAGGAACTTTTTAGGGGATATTAGGAAGAATATTAACTCATAAAG
37882669 AAATAACCGAAATTTATAATTATAAAATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
651 AAATAACCGAAATTTATAATTATAAAATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
37882734 AAT
716 AAT
37882737 ATTAAACTTGTGAATTCCAATTCAAGGTAATACTTAGACTTGGGGAAACAACCTAAAATTTTAAA
1 ATTAAACTTGTGAATTCCAATTCAAGGTAATACTTAGACTTGGGGAAACAACCTAAAATTTTAAA
37882802 TTCTTAAAAATCAACTTATCATGCTTGATTCTCTAACGTCTTAAAGTTTAAACAATAAATGCATA
66 TTCTTAAAAATCAACTTATCATGCTTGATTCTCTAACGTCTTAAAGTTTAAACAATAAATGCATA
37882867 AATGCCTATGTTTTAATTCAAGATATATCAATCAATAATCATAAATCAATCAAAATTTATCCTAA
131 AATGCCTATGTTTTAATTCAAGATATATCAATCAATAATCATAAATCAATCAAAATTTATCCTAA
37882932 ATATGATTTGAGAGCTTTTCAAGAGAACAAGGTAATCATTCAGGGATTTTTCTGATAATAAAATG
196 ATATGATTTGAGAGCTTTTCAAGAGAACAAGGTAATCATTCAGGGATTTTTCTGATAATAAAATG
37882997 AATACCCCCCACACTTAAGATGTACATTGTCCTCAATGTACAAAGATAGATATATAGAAAAGAAT
261 AATACCCCCCACACTTAAGATGTACATTGTCCTCAATGTACAAAGATAGATATATAGAAAAGAAT
37883062 GTCAAAATAAGATAGGGAGAGAAGTGAAACTTCCTGAGTGATGAATGAATTTCCTTAAATTGGAG
326 GTCAAAATAAGATAGGGAGAGAAGTGAAACTTCCTGAGTGATGAATGAATTTCCTTAAATTGGAG
37883127 TTTTAGAGAATAATCAGCATGAGGATGGAGGAGGATACTCTGGCGGTGGTAGAGGCTCGTTAGAC
391 TTTTAGAGAATAATCAGCATGAGGATGGAGGAGGATACTCTGGCGGTGGTAGAGGCTCGTTAGAC
37883192 CATAAGCCCTACACCAAAAGAATATTATATCTAGTGGTAGCTATAGTTGTGGTCGAGCAGGACAT
456 CATAAGCCCTACACCAAAAGAATATTATATCTAGTGGTAGCTATAGTTGTGGTCGAGCAGGACAT
37883257 GGCAGTCATGGAGAACCTTTCCCGGTGAAGTTTTTAGTTCCTATGTGATGATGAGCTTAAGAGCT
521 GGCAGTCATGGAGAACCTTTCCCGGTGAAGTTTTTAGTTCCTATGTGATGATGAGCTTAAGAGCT
37883322 CTTTATAACTATAAAAAAATCAGGAACTTTTTAGGGGATATTAGGAAGAATATTAACTCATAAAG
586 CTTTATAACTATAAAAAAATCAGGAACTTTTTAGGGGATATTAGGAAGAATATTAACTCATAAAG
37883387 AAATAACCGAAATTTATAATTATAAAATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
651 AAATAACCGAAATTTATAATTATAAAATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
37883452 AAT
716 AAT
37883455 A
1 A
37883456 AAAATTAAAA
Statistics
Matches: 719, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
718 719 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (718 bp):
ATTAAACTTGTGAATTCCAATTCAAGGTAATACTTAGACTTGGGGAAACAACCTAAAATTTTAAA
TTCTTAAAAATCAACTTATCATGCTTGATTCTCTAACGTCTTAAAGTTTAAACAATAAATGCATA
AATGCCTATGTTTTAATTCAAGATATATCAATCAATAATCATAAATCAATCAAAATTTATCCTAA
ATATGATTTGAGAGCTTTTCAAGAGAACAAGGTAATCATTCAGGGATTTTTCTGATAATAAAATG
AATACCCCCCACACTTAAGATGTACATTGTCCTCAATGTACAAAGATAGATATATAGAAAAGAAT
GTCAAAATAAGATAGGGAGAGAAGTGAAACTTCCTGAGTGATGAATGAATTTCCTTAAATTGGAG
TTTTAGAGAATAATCAGCATGAGGATGGAGGAGGATACTCTGGCGGTGGTAGAGGCTCGTTAGAC
CATAAGCCCTACACCAAAAGAATATTATATCTAGTGGTAGCTATAGTTGTGGTCGAGCAGGACAT
GGCAGTCATGGAGAACCTTTCCCGGTGAAGTTTTTAGTTCCTATGTGATGATGAGCTTAAGAGCT
CTTTATAACTATAAAAAAATCAGGAACTTTTTAGGGGATATTAGGAAGAATATTAACTCATAAAG
AAATAACCGAAATTTATAATTATAAAATAAAATTCTAAAATCTAATAAAAATAAAAAGTAGTTTT
AAT
Found at i:37889288 original size:19 final size:19
Alignment explanation
Indices: 37889253--37889290 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37889243 GTTGATTTTG
*
37889253 TATGTTGGCCCATTTTCTC
1 TATGTTGGCCCAGTTTCTC
37889272 TATGTTTGGCCC-GTTTCTC
1 TATG-TTGGCCCAGTTTCTC
37889291 ATTCCTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.26, G:0.18, T:0.47
Consensus pattern (19 bp):
TATGTTGGCCCAGTTTCTC
Found at i:37889589 original size:40 final size:40
Alignment explanation
Indices: 37889503--37889578 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
37889493 CATATATATA
37889503 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGTCACATT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGTCACATT
* *
37889543 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGTCA
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGTCA
37889579 TTCTTAGCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGTCACATT
Found at i:37889877 original size:18 final size:18
Alignment explanation
Indices: 37889832--37889877 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
37889822 TTAACACAGT
* *
37889832 TTACACCTTTTGAAAAAT
1 TTACACTTTTTGAAAAAA
37889850 TTACACTTTTTGAAAAAA
1 TTACACTTTTTGAAAAAA
37889868 TTACA-TTTTT
1 TTACACTTTTT
37889878 CCCTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (18 bp):
TTACACTTTTTGAAAAAA
Found at i:37897203 original size:7 final size:7
Alignment explanation
Indices: 37897191--37897219 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
37897181 AAATTTAATT
37897191 TTATTTC
1 TTATTTC
37897198 TTATTTC
1 TTATTTC
37897205 TTATTTC
1 TTATTTC
37897212 TTATTTC
1 TTATTTC
37897219 T
1 T
37897220 ACTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTC
Found at i:37898087 original size:18 final size:18
Alignment explanation
Indices: 37898060--37898096 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37898050 TTAGTAGATG
*
37898060 GAACTTTGTCTACCGTTT
1 GAACTCTGTCTACCGTTT
*
37898078 GAACTCTGTCTATCGTTT
1 GAACTCTGTCTACCGTTT
37898096 G
1 G
37898097 CCTTACATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (18 bp):
GAACTCTGTCTACCGTTT
Found at i:37899136 original size:55 final size:54
Alignment explanation
Indices: 37899033--37899147 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
37899023 TGCCCTTAGT
* * * **
37899033 CCGTGTGCAACACTGACGTTAAAACACGGTCATGGCACAAGCTTGTGTGGCCTGC
1 CCGTGTACAGCACTGACGTTAAAACACGGCCATGGCACAAGCCCGTGTGG-CTGC
* * * *
37899088 CTGTGTACAGCACTGACTTTAAAACACGGCCATGGTACACGCCCGTGTGGCTGC
1 CCGTGTACAGCACTGACGTTAAAACACGGCCATGGCACAAGCCCGTGTGGCTGC
37899142 CCGTGT
1 CCGTGT
37899148 TGTAATATCC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 9 0.18
55 41 0.82
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.23
Consensus pattern (54 bp):
CCGTGTACAGCACTGACGTTAAAACACGGCCATGGCACAAGCCCGTGTGGCTGC
Found at i:37900488 original size:46 final size:46
Alignment explanation
Indices: 37900438--37900613 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37900428 TGGTTGAGCA
37900438 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37900484 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37900529 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37900577 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37900614 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37900594 original size:93 final size:93
Alignment explanation
Indices: 37900435--37900606 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37900425 GGATGGTTGA
* *
37900435 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37900500 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37900528 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37900593 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37900607 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37904882 original size:15 final size:15
Alignment explanation
Indices: 37904862--37904890 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37904852 TGTATTAAAG
37904862 TCAATTTTCAAGCTA
1 TCAATTTTCAAGCTA
37904877 TCAATTTTCAAGCT
1 TCAATTTTCAAGCT
37904891 TAAAAGATTA
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:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (15 bp):
TCAATTTTCAAGCTA
Found at i:37906642 original size:65 final size:65
Alignment explanation
Indices: 37906550--37906700 Score: 223
Period size: 65 Copynumber: 2.3 Consensus size: 65
37906540 TGTGCACTAC
** * *
37906550 CGCAGCTCTTTGTGAGCGTCCTGTTATGCGATCCGTTATGATCCTGCATATGTTGTAGACACAAA
1 CGCAGCTCTTTGTGAGCGTCCAATTATGCGATCAGTTATGATCCTGCATATGTTGCAGACACAAA
*
37906615 CGCAGCT-TTGTGTGAGCGTCCAATTATGCGATCAGTTGTGATCCTGCATATGTTGCAGACACAA
1 CGCAGCTCTT-TGTGAGCGTCCAATTATGCGATCAGTTATGATCCTGCATATGTTGCAGACACAA
37906679 A
65 A
* *
37906680 CGTAGCTCTTTGTGTGCGTCC
1 CGCAGCTCTTTGTGAGCGTCC
37906701 TGATGTGGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
64 2 0.03
65 73 0.95
66 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (65 bp):
CGCAGCTCTTTGTGAGCGTCCAATTATGCGATCAGTTATGATCCTGCATATGTTGCAGACACAAA
Found at i:37915268 original size:13 final size:13
Alignment explanation
Indices: 37915252--37915278 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37915242 TTTAAGTAAA
37915252 TTTTTTATTAGGT
1 TTTTTTATTAGGT
37915265 TTTTTTATTAGGT
1 TTTTTTATTAGGT
37915278 T
1 T
37915279 GGTGTGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (13 bp):
TTTTTTATTAGGT
Found at i:37917613 original size:121 final size:121
Alignment explanation
Indices: 37917399--37917642 Score: 488
Period size: 121 Copynumber: 2.0 Consensus size: 121
37917389 AAGTTAGCTG
37917399 TAAGAGGTGACATTTAAGTAGGTTTGAGTTCTAATTTCATTAATTATAATCTCTTTTTCTATTTT
1 TAAGAGGTGACATTTAAGTAGGTTTGAGTTCTAATTTCATTAATTATAATCTCTTTTTCTATTTT
37917464 TAAGTATTAACTTGTTGAATGTCACATTTTAAGGATAATGCATGAATCTAATAGGT
66 TAAGTATTAACTTGTTGAATGTCACATTTTAAGGATAATGCATGAATCTAATAGGT
37917520 TAAGAGGTGACATTTAAGTAGGTTTGAGTTCTAATTTCATTAATTATAATCTCTTTTTCTATTTT
1 TAAGAGGTGACATTTAAGTAGGTTTGAGTTCTAATTTCATTAATTATAATCTCTTTTTCTATTTT
37917585 TAAGTATTAACTTGTTGAATGTCACATTTTAAGGATAATGCATGAATCTAATAGGT
66 TAAGTATTAACTTGTTGAATGTCACATTTTAAGGATAATGCATGAATCTAATAGGT
37917641 TA
1 TA
37917643 TCACCTAATT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (121 bp):
TAAGAGGTGACATTTAAGTAGGTTTGAGTTCTAATTTCATTAATTATAATCTCTTTTTCTATTTT
TAAGTATTAACTTGTTGAATGTCACATTTTAAGGATAATGCATGAATCTAATAGGT
Found at i:37918300 original size:13 final size:13
Alignment explanation
Indices: 37918282--37918306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37918272 CAGCAGCCAG
37918282 GGTGACCATGCAA
1 GGTGACCATGCAA
37918295 GGTGACCATGCA
1 GGTGACCATGCA
37918307 GGGATCGTGC
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:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGACCATGCAA
Found at i:37921689 original size:13 final size:13
Alignment explanation
Indices: 37921671--37921697 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37921661 TGCAGCAGCT
37921671 AAGGTGACCATGC
1 AAGGTGACCATGC
37921684 AAGGTGACCATGC
1 AAGGTGACCATGC
37921697 A
1 A
37921698 CGGATCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (13 bp):
AAGGTGACCATGC
Found at i:37922663 original size:13 final size:13
Alignment explanation
Indices: 37922645--37922672 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37922635 ATGCAGCAGC
37922645 CAAGGTGACCATG
1 CAAGGTGACCATG
37922658 CAAGGTGACCATG
1 CAAGGTGACCATG
37922671 CA
1 CA
37922673 CGGATCGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.25, G:0.29, T:0.14
Consensus pattern (13 bp):
CAAGGTGACCATG
Found at i:37924670 original size:87 final size:86
Alignment explanation
Indices: 37924462--37924771 Score: 335
Period size: 87 Copynumber: 3.6 Consensus size: 86
37924452 ATTAAATACT
* * *
37924462 TTTTTTTACATTCAATT-GGTATTTGAACTTTCAAAATGTATCAAAAAGGTCATCAAACTTTTTC
1 TTTTTTTACACTCAATTAGGTATTTGAACTTTCAAAATGCATCAAAAAGATCATCAAAC--TTTC
*
37924526 AAAAAAAGCAATTAAGTCCCTACC
64 AAAAAAAACAATTAAGTCCCTA-C
* * *
37924550 TTTTTTTGCATTCAATTAGGTATTGGAACTTTCAAAATGCATCAAAAAGATCATCAAACTTTCAA
1 TTTTTTTACACTCAATTAGGTATTTGAACTTTCAAAATGCATCAAAAAGATCATCAAACTTTCAA
37924615 GAAAAAACAATTAAGTCCCTAC
66 -AAAAAACAATTAAGTCCCTAC
* * * * * * *
37924637 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATTAAAAA-AGCCCTCAAA-TTAAA
1 TTTTTTTACACTCAATTAGGTATTTGAACTTTCAAAATGCATCAAAAAGA-TCATCAAACTT--T
* * *
37924700 AAAAAAGAGAAAAATTAAGCCCCT--
63 CAAAAA-A-AACAATTAAGTCCCTAC
*
37924724 TTTTTTTACACTCAATTAGGTATTTGAACTGT-AAAATGCATCAAAAAG
1 TTTTTTTACACTCAATTAGGTATTTGAACTTTCAAAATGCATCAAAAAG
37924772 GCTCTTTAAC
Statistics
Matches: 193, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
86 17 0.09
87 87 0.45
88 38 0.20
89 51 0.26
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (86 bp):
TTTTTTTACACTCAATTAGGTATTTGAACTTTCAAAATGCATCAAAAAGATCATCAAACTTTCAA
AAAAAACAATTAAGTCCCTAC
Found at i:37928151 original size:11 final size:11
Alignment explanation
Indices: 37928137--37928166 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
37928127 TCGTAAAAAA
37928137 TATAAAAATTT
1 TATAAAAATTT
37928148 TAT-AAAATTT
1 TATAAAAATTT
37928158 TATAAAAAT
1 TATAAAAAT
37928167 CATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATAAAAATTT
Found at i:37928492 original size:19 final size:19
Alignment explanation
Indices: 37928381--37928512 Score: 74
Period size: 19 Copynumber: 6.8 Consensus size: 19
37928371 TTTATAAATT
*
37928381 TTTTTTACGAATTTTAT-A
1 TTTTTTACGATTTTTATAA
37928399 TTTCTTTAC-ATTTTTTATAA
1 TTT-TTTACGA-TTTTTATAA
* *
37928419 TTTTCTTACGACTTTATAAAA
1 TTTT-TTACGA-TTTTTATAA
* ** *
37928440 TTTTATAAAATTTTTCT-A
1 TTTTTTACGATTTTTATAA
* *
37928458 TATTTCTA-TATATTTTATAA
1 T-TTTTTACGAT-TTTTATAA
37928478 TTTTTTACGATTTTTATAA
1 TTTTTTACGATTTTTATAA
** *
37928497 AATTTTACAATTTTTA
1 TTTTTTACGATTTTTA
37928513 ACGAATTTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
18 8 0.09
19 52 0.60
20 15 0.17
21 12 0.14
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTTACGATTTTTATAA
Found at i:37928511 original size:29 final size:29
Alignment explanation
Indices: 37928411--37928559 Score: 92
Period size: 28 Copynumber: 5.1 Consensus size: 29
37928401 TCTTTACATT
* *
37928411 TTTTATAATTTTCTTACGA-CTTTATAAAA
1 TTTTACAATTTT-TTACGATTTTTATAAAA
* * * *
37928440 TTTTATAAAATTTTTCTA-TATTTCTAT-ATA
1 -TTT-TACAATTTTT-TACGATTTTTATAAAA
*
37928470 TTTTATAATTTTTTACGATTTTTATAAAA
1 TTTTACAATTTTTTACGATTTTTATAAAA
* * *
37928499 TTTTACAATTTTTAACGAATTTTAT-AAT
1 TTTTACAATTTTTTACGATTTTTATAAAA
* **
37928527 TTTTTCTAA-TTTTTAATATTTTTATTAAAA
1 TTTTAC-AATTTTTTACGATTTTTA-TAAAA
37928557 TTT
1 TTT
37928560 AATTATTTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
27 2 0.02
28 34 0.37
29 30 0.33
30 12 0.13
31 14 0.15
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTACAATTTTTTACGATTTTTATAAAA
Found at i:37928547 original size:19 final size:18
Alignment explanation
Indices: 37928516--37928591 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
37928506 ATTTTTAACG
*
37928516 AATTTTATAAT-TTTTTCT
1 AATTTT-TAATATTTTTTT
37928534 AATTTTTAATATTTTTATT
1 AATTTTTAATATTTTT-TT
** *
37928553 AAAATTTAATTATTTTTAT
1 AATTTTTAA-TATTTTTTT
*
37928572 AATTTTTATTGATTTTTTT
1 AATTTTTAAT-ATTTTTTT
37928591 A
1 A
37928592 GCATTTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
17 4 0.09
18 12 0.26
19 23 0.50
20 7 0.15
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
AATTTTTAATATTTTTTT
Found at i:37928588 original size:10 final size:9
Alignment explanation
Indices: 37928438--37928580 Score: 60
Period size: 9 Copynumber: 15.0 Consensus size: 9
37928428 GACTTTATAA
*
37928438 AATTTTATAA
1 AATTTT-TAT
*
37928448 AATTTTTCT
1 AATTTTTAT
*
37928457 ATATTTCTAT
1 A-ATTTTTAT
37928467 -ATATTTTAT
1 AAT-TTTTAT
37928476 AATTTTT-T
1 AATTTTTAT
37928484 ACGATTTTTAT
1 A--ATTTTTAT
* *
37928495 AAAATTTTAC
1 -AATTTTTAT
37928505 AATTTTTA-
1 AATTTTTAT
*
37928513 ACGAATTTTAT
1 A--ATTTTTAT
*
37928524 AATTTTTTCT
1 AA-TTTTTAT
37928534 AATTTTTA-
1 AATTTTTAT
37928542 ATATTTTTATT
1 A-ATTTTTA-T
* *
37928553 AAAATTTAAT
1 -AATTTTTAT
*
37928563 TATTTTTAT
1 AATTTTTAT
37928572 AATTTTTAT
1 AATTTTTAT
37928581 TGATTTTTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
8 6 0.06
9 45 0.45
10 40 0.40
11 7 0.07
12 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:37928845 original size:85 final size:88
Alignment explanation
Indices: 37928666--37928846 Score: 219
Period size: 90 Copynumber: 2.1 Consensus size: 88
37928656 GGGGTGGTTC
* * * *
37928666 AAGTACTCAATTGAGTGTAAAAAAAAATGTAGGGGCTTAATTGTTTTTTTGAAAAAGTTTAAGGG
1 AAGTACTCAATTGAGTGTAAAAAAAAA-GCACGAGCTTAATTGTTTTTTTGAAAAAGCTTAA-GG
* *
37928731 TCTCTTTTATACATTTTTAAAGTTT
64 TCTCTTTTATACATTCTAAAAGTTT
* *
37928756 AAGTACTCAATTGTGTGTAAAAAAAAA-CACGAGCTTAATT-TTTTTTCT-AGAAAGCTTAA-GT
1 AAGTACTCAATTGAGTGTAAAAAAAAAGCACGAGCTTAATTGTTTTTT-TGAAAAAGCTTAAGGT
37928817 CT-TTTTCATACATTCTAAAAGTTT
65 CTCTTTT-ATACATTCTAAAAGTTT
37928841 AAGTAC
1 AAGTAC
37928847 AAGTTAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
84 4 0.05
85 25 0.31
87 15 0.19
88 11 0.14
90 26 0.32
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (88 bp):
AAGTACTCAATTGAGTGTAAAAAAAAAGCACGAGCTTAATTGTTTTTTTGAAAAAGCTTAAGGTC
TCTTTTATACATTCTAAAAGTTT
Found at i:37932958 original size:22 final size:22
Alignment explanation
Indices: 37932932--37932977 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
37932922 ATATTTAAAA
37932932 TATATTATTTT-AT-ATTAATATT
1 TATA-TATTTTAATAATTAA-ATT
37932954 TATATATTTTAATAATTAAATT
1 TATATATTTTAATAATTAAATT
37932976 TA
1 TA
37932978 AATAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATATATTTTAATAATTAAATT
Found at i:37933815 original size:33 final size:35
Alignment explanation
Indices: 37933777--37933864 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 35
37933767 ATAGTGATAT
37933777 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
37933810 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
37933845 --AAATATTTAAAATTTATTTT
1 TTAAATATTTAAAATATATTTT
37933865 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
32 7 0.16
33 27 0.60
34 8 0.18
35 3 0.07
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:37934096 original size:13 final size:13
Alignment explanation
Indices: 37934059--37934122 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
37934049 TAAACCAAAA
37934059 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
37934072 CTCTAAAAAGCAC
1 TTTTCAAAAGCAC
* *
37934085 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
37934098 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
37934111 TTTTCAAAAGCA
1 TTTTCAAAAGCA
37934123 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.28
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:37937071 original size:12 final size:12
Alignment explanation
Indices: 37937054--37937081 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
37937044 TAAAAATGAA
37937054 TTTTAAATAATT
1 TTTTAAATAATT
37937066 TTTTAAATAATT
1 TTTTAAATAATT
37937078 TTTT
1 TTTT
37937082 GTTGAATTAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTAAATAATT
Found at i:37956503 original size:46 final size:46
Alignment explanation
Indices: 37956453--37956625 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
37956443 TGGTTGAGCA
*
37956453 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37956499 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37956544 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
37956592 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37956626 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37956609 original size:93 final size:93
Alignment explanation
Indices: 37956450--37956620 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
37956440 GGATGGTTGA
* * *
37956450 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37956515 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37956543 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37956608 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37956621 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37964484 original size:8 final size:9
Alignment explanation
Indices: 37964447--37964490 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
37964437 CGCTATCACT
37964447 TTTTTTATA
1 TTTTTTATA
**
37964456 TTTTAAATA
1 TTTTTTATA
*
37964465 TTTTTTACA
1 TTTTTTATA
37964474 TTTTTT-TA
1 TTTTTTATA
37964482 TTTTTTATA
1 TTTTTTATA
37964491 AAAATAATCC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:37965217 original size:6 final size:6
Alignment explanation
Indices: 37965206--37965230 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37965196 TCAATTATAT
37965206 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
37965231 AATTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:37969152 original size:21 final size:21
Alignment explanation
Indices: 37969111--37969157 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
37969101 AAAAGCCTAA
37969111 CTTTTCTCCTTCTTTTCTTTC
1 CTTTTCTCCTTCTTTTCTTTC
37969132 TCTTTT-TCCTTC-TTTCTTTTC
1 -CTTTTCTCCTTCTTTTC-TTTC
37969153 CTTTT
1 CTTTT
37969158 GTTTCGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.38
21 10 0.42
22 5 0.21
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTTTCTCCTTCTTTTCTTTC
Found at i:37969157 original size:20 final size:22
Alignment explanation
Indices: 37969111--37969150 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
37969101 AAAAGCCTAA
37969111 CTTTTCTCCTTCTTTTCTTTCT
1 CTTTTCTCCTTCTTTTCTTTCT
37969133 CTTTT-TCCTTC-TTTCTTT
1 CTTTTCTCCTTCTTTTCTTT
37969151 TCCTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
CTTTTCTCCTTCTTTTCTTTCT
Found at i:37969224 original size:19 final size:18
Alignment explanation
Indices: 37969200--37969247 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
37969190 TCTATTTCTT
*
37969200 TTATTTAATTATTTAATTA
1 TTATTTAATTACTTAA-TA
*
37969219 TTATTTCATTTACTTAATA
1 TTATTT-AATTACTTAATA
37969238 TTATTATAAT
1 TTATT-TAAT
37969248 ATAATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTTAATTACTTAATA
Found at i:37979105 original size:15 final size:15
Alignment explanation
Indices: 37979081--37979114 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37979071 CCACTCTCAT
*
37979081 TTTTCACTAATCCAA
1 TTTTCACTAACCCAA
*
37979096 TTTTCGCTAACCCAA
1 TTTTCACTAACCCAA
37979111 TTTT
1 TTTT
37979115 TGGGATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (15 bp):
TTTTCACTAACCCAA
Found at i:37979372 original size:77 final size:77
Alignment explanation
Indices: 37979234--37979535 Score: 462
Period size: 77 Copynumber: 3.9 Consensus size: 77
37979224 TAATTTGAAA
* *
37979234 TTCAAATTAGGATAAGAAGGTAAAAAGAT-ATGGAATTTTAATTCTATTTAAATTTTAAAGAAGG
1 TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAATTTTAAAGAAGG
*
37979298 ATAAGATGTGAT
66 ATAAGATATGAT
* *
37979310 TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTATTTCTATTTAAATTTTAAAGAATG
1 TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAATTTTAAAGAAGG
*
37979375 ATAATATATGAT
66 ATAAGATATGAT
* * * *
37979387 TTTAAATTAGGATAATAAGATAAAAAGTTGATGAAATTTTAATTTTATTTAAATTTTAAAGAAGG
1 TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAATTTTAAAGAAGG
*
37979452 ATAATATATGAT
66 ATAAGATATGAT
* * * *
37979464 TTCAAATTAGGATAAGAAGTTAAAAAGATGATGGAATTTTAATTCAATTTAAATTTTAAAGAATG
1 TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAATTTTAAAGAAGG
37979529 ATAAGAT
66 ATAAGAT
37979536 TTGAATTCTA
Statistics
Matches: 204, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
76 28 0.14
77 176 0.86
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (77 bp):
TTCAAATTAGGATAAGAAGATAAAAAGATGATGAAATTTTAATTCTATTTAAATTTTAAAGAAGG
ATAAGATATGAT
Found at i:37983162 original size:41 final size:43
Alignment explanation
Indices: 37983063--37983216 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 43
37983053 AGCTTGTACA
* *
37983063 ATGCC-ATATCCCAGATATGGTCTTACATGCTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCTATCACATATCG
* * * *
37983105 ATGCCACTGTCTCAGACAGGGTCTTACATG-TATCATATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGCTATCACATATCG
* * * * * *
37983146 ATGCCAATGTCCCAGACATAGTCTTACACGTTTTCTCACT-TTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCTATCACA-TATCG
* *
37983189 GTACCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
37983217 CGAATCACAC
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.29
42 19 0.21
43 46 0.51
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGCTATCACATATCG
Found at i:37986639 original size:22 final size:23
Alignment explanation
Indices: 37986612--37986654 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37986602 TAATGTCTAC
37986612 AAATCAAATA-TCTAAGATTACA
1 AAATCAAATATTCTAAGATTACA
*
37986634 AAATCATATATTCTAAGATTA
1 AAATCAAATATTCTAAGATTA
37986655 TATATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATCAAATATTCTAAGATTACA
Found at i:37991727 original size:17 final size:17
Alignment explanation
Indices: 37991705--37991757 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
37991695 ATTACAAAAT
37991705 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
37991722 CATATCATATCTAAGACTG
1 CATATC-T-TCTAAGATTA
* *
37991741 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
37991758 TGTTTCTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:37991731 original size:22 final size:22
Alignment explanation
Indices: 37991675--37991733 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
37991665 AAAGGATATC
37991675 TACAAATCATATCTTCTAAAAT
1 TACAAATCATATCTTCTAAAAT
*
37991697 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAAAT
*
37991720 TACATATCATATCT
1 TACAAATCATATCT
37991734 AAGACTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAAAT
Found at i:37994277 original size:144 final size:144
Alignment explanation
Indices: 37994012--37994306 Score: 563
Period size: 144 Copynumber: 2.0 Consensus size: 144
37994002 GATTGAAGGC
37994012 CAATGATACCTGCTCAAGAGTAAAGAAGCATATGTTAGTGAGTTCCACATGAATGCAGCATTAGA
1 CAAT-ATACCTGCTCAAGAGTAAAGAAGCATATGTTAGTGAGTTCCACATGAATGCAGCATTAGA
*
37994077 TCTGACAGTCCATATATTCGAGTCATTTTTTCATGTCATATGTTATATTTATTTTTTATATGCCA
65 TCTGACAGTCCATATATTCGAGTCATTTTTTCATGTCATATGTTATATTTATTTTTTATACGCCA
*
37994142 TGTTTGTATCGTGTT
130 TGTTTGTATCGTCTT
37994157 CAATATACCTGCTCAAGAGTAAAGAAGCATATGTTAGTGAGTTCCACATGAATGCAGCATTAGAT
1 CAATATACCTGCTCAAGAGTAAAGAAGCATATGTTAGTGAGTTCCACATGAATGCAGCATTAGAT
37994222 CTGACAGTCCATATATTCGAGTCATTTTTTCATGTCATATGTTATATTTATTTTTTATACGCCAT
66 CTGACAGTCCATATATTCGAGTCATTTTTTCATGTCATATGTTATATTTATTTTTTATACGCCAT
37994287 GTTTGTATCGTCTT
131 GTTTGTATCGTCTT
37994301 CAATAT
1 CAATAT
37994307 TACTAAGACA
Statistics
Matches: 148, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
144 144 0.97
145 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (144 bp):
CAATATACCTGCTCAAGAGTAAAGAAGCATATGTTAGTGAGTTCCACATGAATGCAGCATTAGAT
CTGACAGTCCATATATTCGAGTCATTTTTTCATGTCATATGTTATATTTATTTTTTATACGCCAT
GTTTGTATCGTCTT
Found at i:37996145 original size:12 final size:12
Alignment explanation
Indices: 37996128--37996152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37996118 CCTAAAGTAT
37996128 ATAAAATAAAAA
1 ATAAAATAAAAA
37996140 ATAAAATAAAAA
1 ATAAAATAAAAA
37996152 A
1 A
37996153 CTGTAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:38002173 original size:30 final size:30
Alignment explanation
Indices: 38002139--38002198 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38002129 TATTTTATTA
*
38002139 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
38002169 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
38002199 CATGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:38005637 original size:29 final size:29
Alignment explanation
Indices: 38005592--38005652 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
38005582 CCAAAACTGT
38005592 TAATCCCTAATGACATGTCATTTATATTC
1 TAATCCCTAATGACATGTCATTTATATTC
*
38005621 TAATCCCTAATGGCATGTCATTTATATTC
1 TAATCCCTAATGACATGTCATTTATATTC
38005650 TAA
1 TAA
38005653 GTATTCACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (29 bp):
TAATCCCTAATGACATGTCATTTATATTC
Found at i:38016516 original size:20 final size:22
Alignment explanation
Indices: 38016462--38016537 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 22
38016452 AGAAGTCTTG
* *
38016462 AAGTCTTGAGAC-TAGAC-AGAC
1 AAGTCTCGAGACTTAGACTAG-T
* *
38016483 AAGGCTCGAGACTTA-AC-GGT
1 AAGTCTCGAGACTTAGACTAGT
*
38016503 AAGTCTCGATACTTAGACTAGT
1 AAGTCTCGAGACTTAGACTAGT
*
38016525 AAGTCTCAAGACT
1 AAGTCTCGAGACT
38016538 ATACTACTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 13 0.30
21 15 0.35
22 15 0.35
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (22 bp):
AAGTCTCGAGACTTAGACTAGT
Found at i:38019125 original size:11 final size:11
Alignment explanation
Indices: 38019109--38019140 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38019099 AAGTATGGGT
38019109 AGGTATGGGAA
1 AGGTATGGGAA
*
38019120 AGGTATGGGCA
1 AGGTATGGGAA
38019131 AGGTATGGGA
1 AGGTATGGGA
38019141 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:38022015 original size:18 final size:18
Alignment explanation
Indices: 38021987--38022133 Score: 215
Period size: 18 Copynumber: 8.2 Consensus size: 18
38021977 CCCAACTACT
*
38021987 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
38022005 GTATAAC-TGAATAGTGCC
1 GTAT-ACGTGAATAGTACC
*
38022023 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
38022041 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
38022059 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
38022077 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
38022095 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
38022113 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
38022131 GTA
1 GTA
38022134 AACGGTCGTA
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
17 2 0.02
18 112 0.97
19 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:38022693 original size:11 final size:11
Alignment explanation
Indices: 38022666--38022708 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
38022656 TGACCTTTCC
38022666 AAGGTATGGG-
1 AAGGTATGGGA
*
38022676 TAGGTATGGGA
1 AAGGTATGGGA
*
38022687 AAGGTATGGGC
1 AAGGTATGGGA
38022698 AAGGTATGGGA
1 AAGGTATGGGA
38022709 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:38022705 original size:22 final size:21
Alignment explanation
Indices: 38022666--38022708 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38022656 TGACCTTTCC
*
38022666 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
38022687 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
38022709 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:38041704 original size:19 final size:19
Alignment explanation
Indices: 38041682--38041736 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
38041672 AAATGTTTAA
38041682 AATTAAAAATATAAAAATT
1 AATTAAAAATATAAAAATT
** * *
38041701 AATTTTAAATTTTAAAATT
1 AATTAAAAATATAAAAATT
38041720 -ATTAAAATATATAAAAA
1 AATTAAAA-ATATAAAAA
38041737 ATCTATTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAATATAAAAATT
Found at i:38043368 original size:19 final size:19
Alignment explanation
Indices: 38043346--38043400 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
38043336 AAATGTTTAA
38043346 AATTAAAAATATAAAAATT
1 AATTAAAAATATAAAAATT
** * *
38043365 AATTTTAAATTTTAAAATT
1 AATTAAAAATATAAAAATT
38043384 -ATTAAAATATATAAAAA
1 AATTAAAA-ATATAAAAA
38043401 ATCTATTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAATATAAAAATT
Found at i:38043716 original size:29 final size:29
Alignment explanation
Indices: 38043683--38043771 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
38043673 ATTCAGTTAT
*
38043683 CACATTGGACATTTCTAAATTACGAA-TAC
1 CACATTGGACATTTCCAAATTAC-AAGTAC
*
38043712 TACATTGGACATTTCCAAATTACAAGTAC
1 CACATTGGACATTTCCAAATTACAAGTAC
* * * *
38043741 CACGTTGGACATTTTCAAAGTAGAAGTAC
1 CACATTGGACATTTCCAAATTACAAGTAC
38043770 CA
1 CA
38043772 TATTAAACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 2 0.04
29 50 0.96
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (29 bp):
CACATTGGACATTTCCAAATTACAAGTAC
Found at i:38047463 original size:22 final size:22
Alignment explanation
Indices: 38047438--38047480 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38047428 CGAGTTATGT
38047438 CCAAGAAATCAAACTTA-AATTA
1 CCAAGAAATCAAA-TTAGAATTA
*
38047460 CCAAGAATTCAAATTAGAATT
1 CCAAGAAATCAAATTAGAATT
38047481 GAACAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (22 bp):
CCAAGAAATCAAATTAGAATTA
Found at i:38047761 original size:12 final size:12
Alignment explanation
Indices: 38047744--38047769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38047734 AAAACAGGTA
38047744 TTTAGCGGCGTT
1 TTTAGCGGCGTT
38047756 TTTAGCGGCGTT
1 TTTAGCGGCGTT
38047768 TT
1 TT
38047770 CTCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:38047896 original size:41 final size:41
Alignment explanation
Indices: 38047824--38048043 Score: 325
Period size: 41 Copynumber: 5.4 Consensus size: 41
38047814 CGTTTTACCA
* *
38047824 AAAACGCCGCT-AAAAGCAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
* *
38047864 AAAACGTCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
*
38047905 AAAACGCCGTTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
* * * *
38047946 AAAGCGCCGCTAAAAATCGGAGTATTAGGGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
* *
38047987 AAAACGTCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
*
38048028 AAAACGCCGTTAAAAA
1 AAAACGCCGCTAAAAA
38048044 GTTTAGGGTT
Statistics
Matches: 159, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 10 0.06
41 149 0.94
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGGT
Found at i:38048141 original size:21 final size:22
Alignment explanation
Indices: 38048117--38048160 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
38048107 GGTTTATGTA
*
38048117 TTATGGTTTAAGGGTT-GGGGT
1 TTATGATTTAAGGGTTAGGGGT
38048138 TTATGATTTAAGGGTTAGGGGT
1 TTATGATTTAAGGGTTAGGGGT
38048160 T
1 T
38048161 AGGGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
TTATGATTTAAGGGTTAGGGGT
Found at i:38048159 original size:7 final size:7
Alignment explanation
Indices: 38048149--38048175 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
38048139 TATGATTTAA
38048149 GGGTTAG
1 GGGTTAG
38048156 GGGTTAG
1 GGGTTAG
38048163 GGGTTAG
1 GGGTTAG
38048170 GGGTTA
1 GGGTTA
38048176 ATACTTAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.56, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:38048423 original size:21 final size:21
Alignment explanation
Indices: 38048397--38048440 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
38048387 TTATGGTTAG
* *
38048397 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
38048418 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
38048439 GG
1 GG
38048441 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:38056437 original size:20 final size:21
Alignment explanation
Indices: 38056402--38056447 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
38056392 AATATGATAA
* *
38056402 TTTATGTATATTTTATATTTT
1 TTTAAGTATATTTTATAATTT
38056423 TTTAAGTAT-TTTTATAATTT
1 TTTAAGTATATTTTATAATTT
38056443 TTTAA
1 TTTAA
38056448 TTTTTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTAAGTATATTTTATAATTT
Found at i:38057237 original size:19 final size:20
Alignment explanation
Indices: 38057213--38057265 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
38057203 ATATTCTTAT
38057213 TTTAAATATTAAA-ACTAAA
1 TTTAAATATTAAATACTAAA
* *
38057232 TTTAAATA-AAAATATTAAA
1 TTTAAATATTAAATACTAAA
38057251 TTTAAATATTAAATA
1 TTTAAATATTAAATA
38057266 ATATATTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.10
19 21 0.72
20 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAATATTAAATACTAAA
Found at i:38057244 original size:25 final size:25
Alignment explanation
Indices: 38057216--38057274 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
38057206 TTCTTATTTT
38057216 AAATATTAAAACTAAAT-TTAAATAA
1 AAATATTAAAACTAAATATTAAAT-A
**
38057241 AAATATTAAATTTAAATATTAAATA
1 AAATATTAAAACTAAATATTAAATA
*
38057266 ATATATTAA
1 AAATATTAA
38057275 CCTTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATATTAAAACTAAATATTAAATA
Found at i:38057249 original size:13 final size:13
Alignment explanation
Indices: 38057216--38057266 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
38057206 TTCTTATTTT
*
38057216 AAATATTAAA-ACT
1 AAATATTAAATA-A
38057229 AAAT-TTAAATAA
1 AAATATTAAATAA
**
38057241 AAATATTAAATTT
1 AAATATTAAATAA
38057254 AAATATTAAATAA
1 AAATATTAAATAA
38057267 TATATTAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATATTAAATAA
Found at i:38057280 original size:25 final size:25
Alignment explanation
Indices: 38057216--38057281 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
38057206 TTCTTATTTT
38057216 AAATATTAAAAC-TAAATTTAAATAA
1 AAATATT-AAACTTAAATTTAAATAA
*
38057241 AAATATTAAATTTAAATATTAAAT-A
1 AAATATTAAACTTAAAT-TTAAATAA
* *
38057266 ATATATTAACCTTAAA
1 AAATATTAAACTTAAA
38057282 ATAACTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.09
25 26 0.74
26 6 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTAAACTTAAATTTAAATAA
Found at i:38060617 original size:3 final size:3
Alignment explanation
Indices: 38060502--38060598 Score: 63
Period size: 3 Copynumber: 32.3 Consensus size: 3
38060492 TCTCAACCTC
* * * * * * * *
38060502 TAT TAT T-T TAT TAC TAT CAG TAT TAT TTT TAC TAT TAC GAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
38060549 CTAT AAT TAT TAT TTT TACC T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
38060595 TAT T
1 TAT T
38060599 TCTGTTATAG
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
2 3 0.04
3 62 0.91
4 3 0.04
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:38061235 original size:126 final size:126
Alignment explanation
Indices: 38061006--38061324 Score: 322
Period size: 126 Copynumber: 2.5 Consensus size: 126
38060996 TTTAAAAAGC
* *
38061006 TAAAACGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGACCGTGCCCAATCGTGCTGGGTTTCG
1 TAAAACGAGACAATATTTCGTATTTGGGGAGTTTGAGAGACCGTGCCCAATCGTGCTGGGCTTCG
*
38061071 ATTTCTCAATCAACTAGAATACAAAATATCCTTGTGAAATTTTGTCTATGTTTTCTTAAAT
66 ATTTCTCAATCAACTAAAATACAAAATATCCTTGTGAAATTTTGTCTATGTTTTCTTAAAT
* * * * ** *
38061132 TAAAACTAGACAATATCTT-GTGTTTGGGGGGTTTGGGAGGTCGTGCCTAATCGTGCTGGGCTTC
1 TAAAACGAGACAATAT-TTCGTATTTGGGGAGTTTGAGAGACCGTGCCCAATCGTGCTGGGCTTC
* * * * ** * * *
38061196 GATTT-TCCATTCGACTAAAATACAGAATATCCTTTTGAAA-TTCATCCATGTCTTCTCAAAT
65 GATTTCT-CAATCAACTAAAATACAAAATATCCTTGTGAAATTTTGTCTATGTTTTCTTAAAT
* * * * * * * * * **
38061257 TAAAATGAGGCAATGTTTCGTATTT-GGAAATTCGATAAATCGTGCCCAATCGTGCTGGATTTCG
1 TAAAACGAGACAATATTTCGTATTTGGGGAGTTTGAGAGACCGTGCCCAATCGTGCTGGGCTTCG
38061321 ATTT
66 ATTT
38061325 ACCTTTTGGG
Statistics
Matches: 155, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
124 34 0.22
125 34 0.22
126 85 0.55
127 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (126 bp):
TAAAACGAGACAATATTTCGTATTTGGGGAGTTTGAGAGACCGTGCCCAATCGTGCTGGGCTTCG
ATTTCTCAATCAACTAAAATACAAAATATCCTTGTGAAATTTTGTCTATGTTTTCTTAAAT
Found at i:38067791 original size:64 final size:64
Alignment explanation
Indices: 38067690--38067814 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
38067680 AGTGACGAGC
* *
38067690 CGTACATCGAGAATGATGATGAAGTAATTGAGTGTTCCTTTCGGTCATTGGAATTTGTCAACGT
1 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTCATTAGAATTTGTCAACGT
38067754 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTCATTAGAATTTGTCAA
1 CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTCATTAGAATTTGTCAA
38067815 TGCGACTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (64 bp):
CGTACATCGAGAATGATGATGAAGCAATTGAGTGTTCCTTTCGGTCATTAGAATTTGTCAACGT
Found at i:38082266 original size:64 final size:64
Alignment explanation
Indices: 38082165--38082291 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
38082155 CATTCGTAGT
* * * *
38082165 ACATCTAGCTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAGCATTTAACTCATTTCGATCATAGCATCCTAACTATTTGACATAAGCATC
*
38082229 ACATCTAGCTAGGAG-AGTTTAACTCATTTCGATCATAGCATCCTAACTATTTGGCATAAGCAT
1 ACATCTAGCTAGGAGCA-TTTAACTCATTTCGATCATAGCATCCTAACTATTTGACATAAGCAT
38082292 AGATACATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 1 0.02
64 56 0.98
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (64 bp):
ACATCTAGCTAGGAGCATTTAACTCATTTCGATCATAGCATCCTAACTATTTGACATAAGCATC
Found at i:38082692 original size:178 final size:178
Alignment explanation
Indices: 38082392--38083347 Score: 1428
Period size: 178 Copynumber: 5.4 Consensus size: 178
38082382 GGGTAACAAG
* * * * * **
38082392 CTGCAAATTAT-GACTCTTATCTCCATGTATCAGCTATGGAGTAGATCAGAAATAGTGAGTCTTA
1 CTGCAAATTATAGA-TCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTA
* * * *
38082456 TCTCCGTGTATCGGGTATGAAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGA
65 TCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGA
* *
38082521 GCAGGTTGAAGATACGAGTCTTATCTTCTTGAGGTAGCAAGGAAACAGA
130 GCAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * * * *
38082570 CTGCAAATTATAGATTTTATCTCCATGTATCGGCTATGGAGCATATCAGAAATGGCTAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
* * *
38082635 CTCTATGTATCGACTATGGAGCAGATTTTAGCTACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
* *
38082700 TAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCATA
131 CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
38082748 CTGCAAATTATAGATCTTATCTCCATGTATTGGCTATGGAGCAGATAAAAAATGGCGAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
* *
38082813 CTCCATGTATCGGCTATGAAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
38082878 CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
131 CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * * * *
38082926 CTGCAAATTATAGATCTTATCTCCATGTATCAGCTATGGAGTAGATCAGAAATGGCGAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
* * * * * *
38082991 CTCTACGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTCAGATAGTAGGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
* * * * * * *
38083056 CAAGTTGAAGATACAAGCCTTAACTCCCTAAGGTAGCAAGGAAGCATA
131 CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
38083104 CTGCAAATTATAGATCTTATCTCCATGTATTGGCTATAGAGCAGATAAAAAATGGCAAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
38083169 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
66 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
* * *
38083234 CAGGTTGAAGATACGAGTCTTGTCTTCCGGAGGTAGCGAGGAAGCAGA
131 CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
38083282 CTGCAAATTATAGATCTTATCTCCATGTATTGGCTATAGAGCAGATAAAAAATGGCAAGTCTTAT
1 CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
38083347 C
66 C
38083348 CCAAACGTTT
Statistics
Matches: 703, Mismatches: 74, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
178 701 1.00
179 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (178 bp):
CTGCAAATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGGCAAGTCTTAT
CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAG
CAGGTTGAAGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
Found at i:38085119 original size:3 final size:3
Alignment explanation
Indices: 38085113--38085146 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
38085103 TTTTTACCTC
38085113 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
38085147 TCTATTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:38085751 original size:126 final size:126
Alignment explanation
Indices: 38085522--38085841 Score: 349
Period size: 126 Copynumber: 2.5 Consensus size: 126
38085512 TAAAAAAAGC
* *
38085522 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGTTTCG
1 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGCTTCA
* * * * * *
38085587 ATTTCTCAATCGACTAGAATACAGAATATCCTTGTGAAATTTCGTCTATGTTTTCTTAATT
66 ATTTCTCAATCGACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGTGTTCTCAAAT
* ****
38085648 TAAAACGAGGCAATATCTT-GTGTTTGGGGGGTTTGAGAGGTTGTGCCCAATCGTGCTGGGCTTC
1 TAAAACGAGGCAATAT-TTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGCTTC
* * *
38085712 AATTT-TCTATTCGACTAAAATCCAGAATATCCTTTTGAAATTTCATCCATGTGTTCTCAAAT
65 AATTTCTC-AATCGACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGTGTTCTCAAAT
** * * * * * * * * * *
38085774 TAAAATTAGGCAATGTTTCGTATTT-GGAAATTCGACAAATCGTGCCCAATCGTGCTGGGTTTCA
1 TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGCTTCA
38085838 ATTT
66 ATTT
38085842 ACTGTTTGGA
Statistics
Matches: 162, Mismatches: 29, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
125 38 0.23
126 122 0.75
127 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (126 bp):
TAAAACGAGGCAATATTTCGTGTTTGGGGAGTTTGAGAGACCATGCCCAATCGTGCTGGGCTTCA
ATTTCTCAATCGACTAAAATACAGAATATCCTTGTGAAATTTCATCCATGTGTTCTCAAAT
Found at i:38088009 original size:49 final size:46
Alignment explanation
Indices: 38087956--38088088 Score: 126
Period size: 49 Copynumber: 2.8 Consensus size: 46
38087946 TATAGAGGCT
* *
38087956 GATGCCATATCCCAGACAAT-TCTTACATTGGCTCTCATCTATCAGTGTC
1 GATGCCAT-TCCCAGAC-ATGTCTTACATTGGCTCTCATC--TCAATGCC
* * * *
38088005 GATGCCATGCTCTAGACATGTCTTACATTAGCTCTCGTCTCAATGCC
1 GATGCCATTC-CCAGACATGTCTTACATTGGCTCTCATCTCAATGCC
* *
38088052 GATG-CATGTCCCAAACATGTCTTACACTGGCTCTCAT
1 GATGCCAT-TCCCAGACATGTCTTACATTGGCTCTCAT
38088089 AATGTGGCCG
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
46 25 0.36
47 11 0.16
48 3 0.04
49 30 0.43
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (46 bp):
GATGCCATTCCCAGACATGTCTTACATTGGCTCTCATCTCAATGCC
Found at i:38088744 original size:20 final size:20
Alignment explanation
Indices: 38088719--38088757 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38088709 AAAATTTCAA
38088719 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
38088739 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
38088758 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:38091352 original size:24 final size:25
Alignment explanation
Indices: 38091325--38091377 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
38091315 TCTTTCAGTT
38091325 AAACTTC-GTTTATTTGTTTCAACC
1 AAACTTCTGTTTATTTGTTTCAACC
*
38091349 AAAC-TCTGTTTATTTGTTTCAATC
1 AAACTTCTGTTTATTTGTTTCAACC
38091373 AAACT
1 AAACT
38091378 CTGATTAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (25 bp):
AAACTTCTGTTTATTTGTTTCAACC
Found at i:38091378 original size:24 final size:24
Alignment explanation
Indices: 38091332--38091380 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38091322 GTTAAACTTC
38091332 GTTTATTTGTTTCAACCAAACTCT
1 GTTTATTTGTTTCAACCAAACTCT
*
38091356 GTTTATTTGTTTCAATCAAACTCT
1 GTTTATTTGTTTCAACCAAACTCT
38091380 G
1 G
38091381 ATTAGTCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.47
Consensus pattern (24 bp):
GTTTATTTGTTTCAACCAAACTCT
Found at i:38094222 original size:23 final size:23
Alignment explanation
Indices: 38094180--38094223 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38094170 TATTATTTTT
*
38094180 TATATATATACCTATTTATCTAA
1 TATATATATACCTATGTATCTAA
**
38094203 TATATATATATGTATGTATCT
1 TATATATATACCTATGTATCT
38094224 TAGTTTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (23 bp):
TATATATATACCTATGTATCTAA
Found at i:38097363 original size:5 final size:5
Alignment explanation
Indices: 38097353--38097406 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
38097343 TTTTTTCTAT
*
38097353 TATTA TATTA TATTA TATCA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
38097403 TATT
1 TATT
38097407 TACATTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:38105211 original size:31 final size:31
Alignment explanation
Indices: 38105143--38105211 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
38105133 TATAATTTGA
* * *
38105143 TCATTAAATTATTCGAAAGTTTTCATTTAAT
1 TCATTGAACTATTCAAAAGTTTTCATTTAAT
*
38105174 TCATTGAACTATTCAAAAGTTTTTATTTAAGT
1 TCATTGAACTATTCAAAAGTTTTCATTTAA-T
38105206 T-ATTGA
1 TCATTGA
38105212 GTTTGGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (31 bp):
TCATTGAACTATTCAAAAGTTTTCATTTAAT
Done.