Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3229.1
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: 150272
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Warning! 905 characters in sequence are not A, C, G, or T
Found at i:5992 original size:40 final size:40
Alignment explanation
Indices: 5955--6139 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
5945 GCTACTCGTT
*
5955 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
5995 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
6035 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
6074 CAATTGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
6115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6140 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:6066 original size:79 final size:82
Alignment explanation
Indices: 5955--6139 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
5945 GCTACTCGTT
* *
5955 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
6018 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
6035 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAATTGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
6098 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
6115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6140 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13996 original size:79 final size:82
Alignment explanation
Indices: 13879--14063 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
13869 GCTACTCGTT
* * *
13879 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13942 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13959 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
14022 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
14039 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14064 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:14063 original size:40 final size:40
Alignment explanation
Indices: 13860--14063 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
13850 CAGAATTTAA
** * *
13860 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13900 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13940 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13979 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
14019 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
14059 CCGGA
1 CCGGA
14064 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15257 original size:56 final size:56
Alignment explanation
Indices: 15190--15421 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
15180 TATTAGTTTA
*
15190 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
15246 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
15302 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
15358 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
15414 TTGCCCAT
1 TTGCCCAT
15422 CATCCCTTGT
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:21999 original size:79 final size:79
Alignment explanation
Indices: 21896--22119 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
21886 GCTACTCGTT
* *
21896 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTT-GGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21961 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
21976 CAAATGCCTTGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
22039 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
22054 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
22118 GA
64 GA
22120 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 59 0.47
80 30 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:22001 original size:39 final size:40
Alignment explanation
Indices: 21896--22119 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
21886 GCTACTCGTT
*
21896 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21936 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
21976 CAAATGCCTT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
22015 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
22054 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
22095 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22120 CATCATTCGA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 78 0.48
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23315 original size:56 final size:56
Alignment explanation
Indices: 23248--23367 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
23238 TATTAGTTTA
23248 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
23304 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23360 TTGCCCAT
1 TTGCCCAT
23368 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37133 original size:40 final size:40
Alignment explanation
Indices: 37089--37287 Score: 292
Period size: 40 Copynumber: 5.0 Consensus size: 40
37079 GGATATAACT
* * *
37089 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
37129 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
37169 ACTCCCACAAATGCCTTCGGGACTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
37209 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
37249 ACTCGCACAAATGTCTTCGGGGCTTAGCCCGGATTTAGT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
37288 CTGTAACACC
Statistics
Matches: 143, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 141 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:38922 original size:47 final size:47
Alignment explanation
Indices: 38844--39490 Score: 999
Period size: 47 Copynumber: 13.6 Consensus size: 47
38834 CCCTTCGGGA
* * * * *
38844 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
38891 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38938 CTCATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38985 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39032 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39081 CTTATCACATATATACACTTTCACATTGATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39128 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39177 CTTATCACATATATACACTTTCACATTGATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39224 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39273 CTTATCACATATATACACTTTCACATTGATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39320 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39369 CTTATCACATATATACACTTTCACATTGATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39416 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39465 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
39491 CACAATTATC
Statistics
Matches: 554, Mismatches: 35, Indels: 22
0.91 0.06 0.04
Matches are distributed among these distances:
46 2 0.00
47 326 0.59
49 226 0.41
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39078 original size:96 final size:96
Alignment explanation
Indices: 38844--39490 Score: 1124
Period size: 96 Copynumber: 6.8 Consensus size: 96
38834 CCCTTCGGGA
* * * * * *
38844 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATA
* *
38906 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTGATCACATCGACCATTAGGC
* * *
38938 CTCATCAC--ATATATACACTTTCACATTCATCATATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39001 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTGATCACATCGACCATTAGGC
39032 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39097 ACTTTCACATTGATCACATCGACCATTAGGC
66 ACTTTCACATTGATCACATCGACCATTAGGC
39128 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39193 ACTTTCACATTGATCACATCGACCATTAGGC
66 ACTTTCACATTGATCACATCGACCATTAGGC
39224 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39289 ACTTTCACATTGATCACATCGACCATTAGGC
66 ACTTTCACATTGATCACATCGACCATTAGGC
39320 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39385 ACTTTCACATTGATCACATCGACCATTAGGC
66 ACTTTCACATTGATCACATCGACCATTAGGC
*
39416 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39481 ACATTCACAT
66 ACTTTCACAT
39491 CACAATTATC
Statistics
Matches: 532, Mismatches: 16, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
93 3 0.01
94 85 0.16
96 444 0.83
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTGATCACATCGACCATTAGGC
Found at i:56959 original size:35 final size:35
Alignment explanation
Indices: 56828--56960 Score: 97
Period size: 35 Copynumber: 3.7 Consensus size: 35
56818 ATTATTGATG
* ** *
56828 TTCTAATTTGCATGTTAAACATGTTAATATTCTGATA
1 TTCTAATTTACATGTTAAACATGCCAATA-TCT-TTA
* * * * * *
56865 TTCTGATTCACATGTTAAGCATGCTATTAATC-TAA
1 TTCTAATTTACATGTTAAACATGCCAAT-ATCTTTA
* * **
56900 TTTTAACTTACATGTTAAGTATGCCAATATCTTTA
1 TTCTAATTTACATGTTAAACATGCCAATATCTTTA
*
56935 TTCTAATTTTCATGTTAAACATGCCA
1 TTCTAATTTACATGTTAAACATGCCA
56961 TTATTTCTGG
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
34 3 0.04
35 45 0.62
37 24 0.33
38 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (35 bp):
TTCTAATTTACATGTTAAACATGCCAATATCTTTA
Found at i:59908 original size:47 final size:47
Alignment explanation
Indices: 59857--60361 Score: 863
Period size: 47 Copynumber: 10.7 Consensus size: 47
59847 TTAGGATTCT
* * *
59857 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
59904 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59951 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
60000 A--TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60045 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60092 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60139 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60186 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
60233 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
60280 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
60327 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60362 TCCCGAAGGG
Statistics
Matches: 440, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
45 28 0.06
46 1 0.00
47 383 0.87
49 28 0.06
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:60549 original size:37 final size:37
Alignment explanation
Indices: 60480--60558 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
60470 CCGAGCTCTA
* * *
60480 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60517 AAGACCCGATAACTTCGTGCT-GAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTG-TGGAGATTATGTCCGGGT
60554 AAGAC
1 AAGAC
60559 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60797 original size:55 final size:56
Alignment explanation
Indices: 60693--60799 Score: 189
Period size: 55 Copynumber: 1.9 Consensus size: 56
60683 AATCTATGGG
*
60693 ACTATTCCTATGATTATGTGACATTCGGATTAGTGTGAGAAGTTATGTGAAAGGAA
1 ACTATTCCTATGATTATGTGACATTCGGATCAGTGTGAGAAGTTATGTGAAAGGAA
*
60749 ACTATTCCTATGATTATGTGACA-TCGGATCAGTGTGAGAGGTTATGTGAAA
1 ACTATTCCTATGATTATGTGACATTCGGATCAGTGTGAGAAGTTATGTGAAA
60800 TCATACGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 26 0.53
56 23 0.47
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (56 bp):
ACTATTCCTATGATTATGTGACATTCGGATCAGTGTGAGAAGTTATGTGAAAGGAA
Found at i:63334 original size:47 final size:47
Alignment explanation
Indices: 63277--63397 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
63267 CATTGGCACC
** *
63277 AAGACAAGGATACCATGTAAGATTATGTTTGGAACATGGCATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
63324 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
* * *
63371 AAGATAAAGATATCATGTAAGACCATG
1 AAGACAAGGATACCATGTAAGACCATG
63398 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.26
Consensus pattern (47 bp):
AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
Found at i:63505 original size:55 final size:54
Alignment explanation
Indices: 63376--63547 Score: 238
Period size: 55 Copynumber: 3.2 Consensus size: 54
63366 TTGGTAAGAT
* *
63376 AAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAAGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
63430 AACGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAAGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
63485 AAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGTC
1 AAAGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
*
63538 AAGGATACCA
1 AAAGATACCA
63548 CGTACGTAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 13 0.13
54 41 0.40
55 48 0.47
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (54 bp):
AAAGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:67627 original size:15 final size:15
Alignment explanation
Indices: 67598--67647 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
67588 CAAAGATAAC
*
67598 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
67612 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
67627 AAGAGATCCA-AGATA
1 AAGAAATCCAGA-ATA
67642 AAGAAA
1 AAGAAA
67648 CCAAAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:70935 original size:146 final size:146
Alignment explanation
Indices: 70690--70963 Score: 539
Period size: 146 Copynumber: 1.9 Consensus size: 146
70680 GTTACATCTC
*
70690 TGACATGTCACTTGTATCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACAT
1 TGACATGTCACTTGTATCCTAATATATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACAT
70755 GTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCACCGAGA
66 GTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCACCGAGA
70820 TGCCCAAACATCCTAG
131 TGCCCAAACATCCTAG
70836 TGACATGTCACTTGTATCCTAATATATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACAT
1 TGACATGTCACTTGTATCCTAATATATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACAT
70901 GTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCACCGA
66 GTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCACCGA
70964 AATGTTTGAA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 127 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (146 bp):
TGACATGTCACTTGTATCCTAATATATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACAT
GTGACAGCCCAAAGTTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCACCGAGA
TGCCCAAACATCCTAG
Found at i:72570 original size:80 final size:79
Alignment explanation
Indices: 72486--72657 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 79
72476 GGACTAAGAT
* *
72486 CCGAAGGCTTTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
*
72550 AAATCCGGG-TCAAGTC
64 AAAACCGGGCT-AAGTC
* * ** * * * *
72566 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
72631 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
72645 CCGAAGGCATTTG
1 CCGAAGGCATTTG
72658 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:72637 original size:39 final size:39
Alignment explanation
Indices: 72433--72655 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 39
72423 TTGAATGCTG
* * * * * *
72433 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
72473 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
72512 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
72553 TCCGGGTCAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
72593 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
72632 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
72656 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:72675 original size:79 final size:80
Alignment explanation
Indices: 72513--72690 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
72503 AGATACAAAT
* * *
72513 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTCAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTCAAGTCCCGAAGGCATTC
** ** *
72578 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * *
72593 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGG-CTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTC-AAGTCCCGAAGGCATT
* *
72656 TGAACGAGGAGCTATA
65 CGAACGAGGAGCTAAA
*
72672 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
72691 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTCAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:76124 original size:27 final size:27
Alignment explanation
Indices: 76106--76291 Score: 275
Period size: 27 Copynumber: 6.9 Consensus size: 27
76096 CTCAATTTGT
*
76106 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
76133 AGAATTACCGTTTCACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
76160 AAAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
76187 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
76214 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
76241 AAAATTACCATTTTACCCTC-AGTTTAC
1 AGAATTACCATTTTACCCTCGA-TTTAC
* *
76268 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
76292 GTGAAATTAC
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:76209 original size:81 final size:80
Alignment explanation
Indices: 76094--76291 Score: 315
Period size: 81 Copynumber: 2.4 Consensus size: 80
76084 TACTGAAATG
* *
76094 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
76159 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
*
76175 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
76240 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
* * *
76256 CCCTCAGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCA-TTTATAGAATTACCATTTTACCCTCGATT
76292 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 108 0.99
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.38
Consensus pattern (80 bp):
CCCTCATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:76313 original size:27 final size:27
Alignment explanation
Indices: 76290--76449 Score: 139
Period size: 27 Copynumber: 5.9 Consensus size: 27
76280 TTACCCTCGA
*
76290 TTGTGAAATTACTGAAATACCCCT-GT
1 TTGTGAAATTACCGAAATACCCCTAGT
** *
76316 AGGAT-AGAATTACCAAAATACCCCTAGT
1 TTG-TGA-AATTACCGAAATACCCCTAGT
* *
76344 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGT
* *
76371 TTGT-AAACTTACCGAAATACCACTGGT
1 TTGTGAAA-TTACCGAAATACCCCTAGT
* * *
76398 TTTTGAAATTACCGAAATA-CCTTCAAT
1 TTGTGAAATTACCGAAATACCCCT-AGT
* *
76425 TTGTAAAATTACCAAAATACCCCTA
1 TTGTGAAATTACCGAAATACCCCTA
76450 ATTTACAAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
26 7 0.06
27 91 0.84
28 10 0.09
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
TTGTGAAATTACCGAAATACCCCTAGT
Found at i:76461 original size:54 final size:54
Alignment explanation
Indices: 76323--76473 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
76313 TGTAGGATAG
* * *
76323 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCCTAATTTGTAA
* * * * * * *
76377 ACTTACCGAAATACCACTGGTTTTTGAAATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCCT-AATTTGTAA
* * **
76431 AATTACCAAAATACCCCTAATTTACAAAATTATAGAAATACCC
1 AATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCC
76474 TTGACTTTCT
Statistics
Matches: 76, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
53 3 0.04
54 71 0.93
55 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCCCTAATTTGTAA
Found at i:76462 original size:27 final size:27
Alignment explanation
Indices: 76323--76449 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
76313 TGTAGGATAG
76323 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
76350 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * * *
76377 ACTTACCGAAATACCACTGGTTTTTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
76404 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
76431 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
76450 ATTTACAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.02
27 78 0.94
28 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:76469 original size:27 final size:27
Alignment explanation
Indices: 76439--76531 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
76429 AAAATTACCA
*
76439 AAATACCCCTAATTTACAAAATTATAG
1 AAATACCCTTAATTTACAAAATTATAG
*
76466 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTT-AATTTAC--AAAATTATAG
* ** *
76495 AAATACCATTGGTTTACAAAATTATTG
1 AAATACCCTTAATTTACAAAATTATAG
76522 AAATACCCTT
1 AAATACCCTT
76532 GGTTTGTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
27 28 0.51
28 7 0.13
29 20 0.36
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.33
Consensus pattern (27 bp):
AAATACCCTTAATTTACAAAATTATAG
Found at i:76533 original size:27 final size:27
Alignment explanation
Indices: 76451--76536 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
76441 ATACCCCTAA
*
76451 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
76479 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
*
76507 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
76534 TTT
1 TTT
76537 GTAGATTTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
27 24 0.47
28 6 0.12
29 21 0.41
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:76613 original size:27 final size:27
Alignment explanation
Indices: 76581--76632 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
76571 GACTAAAATA
76581 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
76608 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
76633 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:77502 original size:25 final size:24
Alignment explanation
Indices: 77464--77546 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
77454 AGGAAGTGCT
* ** *
77464 AAAAGGGCTCTGCCCTTGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTA-TC
77489 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
77513 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
77537 AAAAGAGGCT
1 AAAAG-GGCT
77547 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 36 0.71
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:77546 original size:24 final size:23
Alignment explanation
Indices: 77489--77560 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
77479 TTGTTTACTG
77489 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
77513 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
77537 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
77561 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:77718 original size:18 final size:18
Alignment explanation
Indices: 77695--77730 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
77685 GGGCTTGCAT
77695 ACATTCATTGACATTACA
1 ACATTCATTGACATTACA
77713 ACATTCATTGACATTACA
1 ACATTCATTGACATTACA
77731 TGTGATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (18 bp):
ACATTCATTGACATTACA
Found at i:77849 original size:31 final size:31
Alignment explanation
Indices: 77814--77896 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
77804 CGTTTACAGT
*
77814 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
* *
77845 AAAGGCTTTGGCCCAATGATATGATTTATGG
1 AAAGGCTTTGGCCCAGTGATATGATTTATGA
77876 AAAGGCTTTGGCCCAGT-ATAT
1 AAAGGCTTTGGCCCAGTGATAT
77897 TTCAATACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTTGGCCCAGTGATATGATTTATGA
Found at i:78773 original size:21 final size:21
Alignment explanation
Indices: 78749--78788 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
78739 TGCATTTAAT
78749 GCTTATTTAATATTGAGATAG
1 GCTTATTTAATATTGAGATAG
78770 GCTTATTTAATATTGAGAT
1 GCTTATTTAATATTGAGAT
78789 TGTAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (21 bp):
GCTTATTTAATATTGAGATAG
Found at i:83365 original size:47 final size:47
Alignment explanation
Indices: 83314--83409 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
83304 ATTTAAACCC
*
83314 TAAGGGTATATCGGTAATTTTGCTCTTTAGGGGTAATTTTCGTAACT
1 TAAGGGTATATCGGTAATTTTACTCTTTAGGGGTAATTTTCGTAACT
83361 TAAGGGTATATCGGTAATTTTACTCTTTAGGGGTAATTTTCGTAACT
1 TAAGGGTATATCGGTAATTTTACTCTTTAGGGGTAATTTTCGTAACT
83408 TA
1 TA
83410 GCAACTACAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (47 bp):
TAAGGGTATATCGGTAATTTTACTCTTTAGGGGTAATTTTCGTAACT
Found at i:93741 original size:46 final size:45
Alignment explanation
Indices: 93674--93847 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
93664 TGTAACCCAC
93674 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * * *
93720 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* *** * *
93766 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGTTCGGGC-TTCGCAT
93813 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
93848 AATGCCCAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 34 0.33
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:93795 original size:93 final size:93
Alignment explanation
Indices: 93682--93853 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
93672 ACCCATAAGT
* * *
93682 GAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
93747 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
*
93775 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
93840 CGAGTTCGAATGCC
66 CGAGCTCGAATGCC
93854 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:95700 original size:21 final size:21
Alignment explanation
Indices: 95676--95715 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
95666 ATTACTTACA
95676 ATCTCAATATTAAATAAGCCT
1 ATCTCAATATTAAATAAGCCT
95697 ATCTCAATATTAAATAAGC
1 ATCTCAATATTAAATAAGC
95716 ATTAAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (21 bp):
ATCTCAATATTAAATAAGCCT
Found at i:96612 original size:31 final size:31
Alignment explanation
Indices: 96568--96650 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
96558 TAGTATTGAA
96568 ATAT-ACTGGGCCAAAGCCTTTCCATAAATC
1 ATATCACTGGGCCAAAGCCTTTCCATAAATC
* *
96598 ATATCATTGGGCCAAAGCCTTTTCATAAATC
1 ATATCACTGGGCCAAAGCCTTTCCATAAATC
*
96629 ATATCACTGGGCCGAAGCCTTT
1 ATATCACTGGGCCAAAGCCTTT
96651 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 4 0.08
31 44 0.92
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
ATATCACTGGGCCAAAGCCTTTCCATAAATC
Found at i:96755 original size:18 final size:18
Alignment explanation
Indices: 96734--96769 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96724 CAATATCACA
96734 TGTAATGTCAATGAATGT
1 TGTAATGTCAATGAATGT
96752 TGTAATGTCAATGAATGT
1 TGTAATGTCAATGAATGT
96770 ATGCAAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
TGTAATGTCAATGAATGT
Found at i:96982 original size:25 final size:26
Alignment explanation
Indices: 96931--97000 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
96921 CTCTTTTAAT
*
96931 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAGATA
96956 AACTGGGGCAAAGCCCTTTTCAG-TA
1 AACTGGGGCAAAGCCCTTTTCAGATA
** *
96981 AACAAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
97001 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCAGATA
Found at i:97876 original size:26 final size:28
Alignment explanation
Indices: 97832--97883 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
97822 TACAAGGGTA
97832 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
97859 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
97884 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:97958 original size:27 final size:27
Alignment explanation
Indices: 97928--98013 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
97918 GTAAATCTAC
*
97928 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
97955 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
97981 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
98011 AAA
1 AAA
98014 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
26 1 0.02
27 23 0.45
28 6 0.12
29 20 0.39
30 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:98032 original size:27 final size:27
Alignment explanation
Indices: 98015--98195 Score: 256
Period size: 27 Copynumber: 6.7 Consensus size: 27
98005 TTTTGTAAAT
98015 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * * *
98041 TTGAAGGTATTTCGGTAATTTCAAAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * * *
98069 CAGTGGTATTTCGGTAAGTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
98096 TAGGGGTATTTTGGTAATTCTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
98123 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
98150 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
98177 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
98196 CTATCCTACA
Statistics
Matches: 136, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 133 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:98077 original size:54 final size:54
Alignment explanation
Indices: 98015--98228 Score: 254
Period size: 54 Copynumber: 4.0 Consensus size: 54
98005 TTTTGTAAAT
* * * *
98015 TAGGGGTATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTTCAAAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTCACAAAC
* * * *
98069 CAGTGGTATTTCGGTAAGTTTACAAACTAGGGGTATTTTGGTAA-TTCTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTC-ACAAAC
*
98123 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAC
* ** **
98177 TAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTCACAA
98229 TCGAGGGTAA
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
53 3 0.02
54 127 0.93
55 7 0.05
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTCACAAAC
Found at i:98108 original size:81 final size:81
Alignment explanation
Indices: 98015--98225 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
98005 TTTTGTAAAT
* * *
98015 TAGGGGTATTTTGGTAATTTTACAAA-TTGAAGGTATTTCGGTAATTTCAAAAACCAGTGGTATT
1 TAGGGGTATTTTGGTAATTCTACAAACTAG-AGGTATTTCGGTAATTTCAAAAACCAGGGGTATT
98079 TCGGTAAGTTTACAAAC
65 TCGGTAAGTTTACAAAC
* * * * *
98096 TAGGGGTATTTTGGTAATTCTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 TAGGGGTATTTTGGTAATTCTACAAACTAGAGGTATTTCGGTAATTTCAAAAACCAGGGGTATTT
* *
98161 TGGTAATTTTACAAAC
66 CGGTAAGTTTACAAAC
** * *
98177 TAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCA
1 TAGGGGTATTTTGGTAATTCTA-CAAACTAGAGGTATTTCGGTAATTTCA
98226 CAATCGAGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 108 0.96
82 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTCTACAAACTAGAGGTATTTCGGTAATTTCAAAAACCAGGGGTATTT
CGGTAAGTTTACAAAC
Found at i:98478 original size:27 final size:27
Alignment explanation
Indices: 98227--98466 Score: 347
Period size: 27 Copynumber: 8.9 Consensus size: 27
98217 GTAATTTCAC
*
98227 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
98254 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
98281 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
98308 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
98335 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
98362 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
98389 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
98416 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
98443 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
98467 ACAAATTGAG
Statistics
Matches: 192, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 190 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:101960 original size:39 final size:40
Alignment explanation
Indices: 101915--102139 Score: 190
Period size: 40 Copynumber: 5.7 Consensus size: 40
101905 GCTCCTCGTT
* *
101915 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* **
101955 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * *
101994 CGAATGCCTTCGGGAC-TTGACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAG-CCCGGATTTAGTAACTCGCA
* * * * *
102034 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGG-ATTTAGTAACTCGCA
* * * * * * *
102074 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
102115 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
102140 CAGCATTCAA
Statistics
Matches: 152, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 40 0.26
40 96 0.63
41 16 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:102148 original size:41 final size:41
Alignment explanation
Indices: 102071--102148 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
102061 TTTGTATCTC
* * *
102071 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
102112 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
102149 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:103803 original size:46 final size:45
Alignment explanation
Indices: 103753--103928 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
103743 TGTTTGGGCA
*
103753 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
103799 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * * *
103846 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
103892 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
103929 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 64 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:103908 original size:93 final size:93
Alignment explanation
Indices: 103749--103920 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
103739 AGGATGTTTG
* * * *
103749 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGCCCGAACTCGTTGAG
103814 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
103842 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGCCCGAACTCGTTGAG
103907 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
103921 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:106921 original size:14 final size:15
Alignment explanation
Indices: 106872--106921 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
106862 GTTTTTTTGG
106872 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
106887 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
106902 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
106916 TTTCTT
1 TTTCTT
106922 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.26
15 21 0.68
16 2 0.06
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:110882 original size:54 final size:54
Alignment explanation
Indices: 110722--110890 Score: 234
Period size: 55 Copynumber: 3.1 Consensus size: 54
110712 GTTACGTACG
* *
110722 TGGTATCCTTGACTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACA
1 TGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACA
* * *
110775 TGGGA-CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACA
1 TGGTATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACA
* *
110830 TGGTATCGTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACA
1 TGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACA
*
110884 TGATATC
1 TGGTATC
110891 TTTATCTTAC
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 12 0.12
54 39 0.39
55 47 0.47
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (54 bp):
TGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACA
Found at i:110946 original size:47 final size:47
Alignment explanation
Indices: 110872--110992 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
110862 CATGCCTTGG
* * * *
110872 CATGGTCTTACATGATATCTTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
110919 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
**
110966 CATAATCTTACATGGTATCCTTGTCTT
1 CATGGTCTTACATGGTATCCTTGTCTT
110993 GGTGCCAATG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:113705 original size:37 final size:37
Alignment explanation
Indices: 113655--113733 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
113645 TTATTACGAA
* * *
113655 GTCTTACCCGGACATAAT-CTCAGCACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCA-CACGAAGTCATCGG
*
113692 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
113729 GTCTT
1 GTCTT
113734 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 34 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:113930 original size:47 final size:47
Alignment explanation
Indices: 113852--114123 Score: 411
Period size: 47 Copynumber: 5.7 Consensus size: 47
113842 CCCTTCGGGA
* * * * * *
113852 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
113899 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
113946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
113993 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
114042 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
114089 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
114124 AGAATCCTAA
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 161 0.77
49 47 0.22
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:114049 original size:96 final size:96
Alignment explanation
Indices: 113852--114102 Score: 407
Period size: 96 Copynumber: 2.6 Consensus size: 96
113842 CCCTTCGGGA
* * * * * * * *
113852 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
113915 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
113946 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
114011 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
114042 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
114103 GCATGTTCAC
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 47 0.32
96 99 0.68
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:114121 original size:143 final size:141
Alignment explanation
Indices: 113852--114123 Score: 420
Period size: 143 Copynumber: 1.9 Consensus size: 141
113842 CCCTTCGGGA
* * * *
113852 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
113917 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
113982 GGCCATTAGGC
131 GGCCATTAGGC
* * *
113993 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
* *
114058 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCAC
114122 AT
128 AT
114124 AGAATCCTAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.08
142 2 0.02
143 106 0.90
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
GGCCATTAGGC
Found at i:134558 original size:47 final size:47
Alignment explanation
Indices: 134490--135183 Score: 1021
Period size: 47 Copynumber: 14.6 Consensus size: 47
134480 GATAATTGTG
* *
134490 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
134537 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
134584 GTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATCA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
134633 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
134680 GTGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
134729 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
134776 GTGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
134825 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
134874 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATCA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
134923 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
134970 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
135017 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
135064 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
135111 ATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
*
135158 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
135184 TCCCGAAGGG
Statistics
Matches: 592, Mismatches: 47, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
46 5 0.01
47 362 0.61
48 2 0.00
49 223 0.38
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:134612 original size:96 final size:96
Alignment explanation
Indices: 134497--135183 Score: 1073
Period size: 96 Copynumber: 7.2 Consensus size: 96
134487 GTGATGTGAA
134497 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
134562 GGCCGAATGACCAATGTGATGAGTGTGAAAG
66 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
* *
134593 TGTATATATATGTGATAAGGCCTAATGGTCGATGTGATCAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
134658 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
66 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
*
134689 TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
134754 GGCCGAATGACCAATGTGATGAGTGTGAAAG
66 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
134785 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
* * *
134850 AAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 AAGGCCGAATGGCCAATGTGATGAGTGTGAAAG
* *
134883 TGTATATATATGTGATAAGGCCTAATGGTCGATGTGATCAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
134948 GGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
*
134979 TG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * *
135042 GGCCTAATAGCCGATATGATGAATGTGAAAG
66 GGCCGAATGGCCAATGTGATGAGTGTGAAAG
* * *
135073 TG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
135136 GGCTGAGTGGCCAACGTGATG-GATGTGAAAG
66 GGCCGAATGGCCAATGTGATGAG-TGTGAAAG
135167 TGTATA-A-ATGTGATAAG
1 TGTATATATATGTGATAAG
135184 TCCCGAAGGG
Statistics
Matches: 554, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
94 179 0.32
95 1 0.00
96 284 0.51
98 90 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCGAATGGCCAATGTGATGAGTGTGAAAG
Found at i:136792 original size:40 final size:40
Alignment explanation
Indices: 136740--136978 Score: 361
Period size: 40 Copynumber: 6.0 Consensus size: 40
136730 GGTGTTACAG
* * *
136740 ACTAAATCCGGGCTAAGCCCCGAAGACATTTGTGCGAGTT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
136780 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
*
136820 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* * *
136860 AATAAATCCGGGCTAAGTCCCGAAGGCATTTGTGGGAGTT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* *
136900 ACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
** * *
136940 ACTCTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
136979 AGTTATATCC
Statistics
Matches: 182, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ACTAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
Done.