Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 127 of 208
Found at i:38955242 original size:19 final size:19
Alignment explanation
Indices: 38955218--38955265 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
38955208 TTGTTTAAGT
* *
38955218 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
38955237 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
38955257 -TAATATATT
1 TTAATATATT
38955266 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:38955623 original size:29 final size:29
Alignment explanation
Indices: 38955591--38955670 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
38955581 ATTTTATCTC
38955591 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
38955620 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
38955649 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
38955671 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:38956949 original size:19 final size:17
Alignment explanation
Indices: 38956925--38956960 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
38956915 GATTAGTTTC
38956925 CAATTCAACAAATTCGATT
1 CAATTCAA-AAATT-GATT
38956944 CAATTCAAAAATTGATT
1 CAATTCAAAAATTGATT
38956961 GTTGCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
CAATTCAAAAATTGATT
Found at i:38963110 original size:24 final size:26
Alignment explanation
Indices: 38963083--38963144 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
38963073 TGGCTCGTAT
* *
38963083 AAGCTTCCCGTTA-ATGGCTCTC-TG
1 AAGCTTCCCGTTACATGACTCACATG
*
38963107 AAGCTTCCCATTACATGACTCACATG
1 AAGCTTCCCGTTACATGACTCACATG
38963133 AA-CTTCCCGTTA
1 AAGCTTCCCGTTA
38963145 TATAGCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 12 0.38
25 16 0.50
26 4 0.12
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.31
Consensus pattern (26 bp):
AAGCTTCCCGTTACATGACTCACATG
Found at i:38967913 original size:18 final size:18
Alignment explanation
Indices: 38967877--38967911 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38967867 CTTTTGAATG
*
38967877 AAATATACATTTTATTTT
1 AAATATACATATTATTTT
38967895 AAATATA-ATATTATTTT
1 AAATATACATATTATTTT
38967912 TATTTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATATACATATTATTTT
Found at i:38971327 original size:54 final size:54
Alignment explanation
Indices: 38971267--38971382 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
38971257 TTGCAATAGG
*
38971267 ACACACGGACGTGTCCTAGC-CTGTGTGTCT-GACCGTGTAACACACTGACTTGAC
1 ACACACGGACATGTCCTAGCTC-GTGTGT-TAGACCGTGTAACACACTGACTTGAC
* ** * * * *
38971321 ACACACGGTCATGTTGTAGGTCGTGTGTTAGCCCGTGTAACTCACTGACTTGAG
1 ACACACGGACATGTCCTAGCTCGTGTGTTAGACCGTGTAACACACTGACTTGAC
38971375 ACACACGG
1 ACACACGG
38971383 CTATGTCACA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 50 0.96
55 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (54 bp):
ACACACGGACATGTCCTAGCTCGTGTGTTAGACCGTGTAACACACTGACTTGAC
Found at i:38971400 original size:54 final size:54
Alignment explanation
Indices: 38971299--38971401 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
38971289 GTGTGTCTGA
*** *
38971299 CCGTGTAACACACTGACTTGACACACACGGTCATGTTGTAGGTCGTGTGTTAGC
1 CCGTGTAACACACTGACTTGACACACACGGTCATGTCACAGGCCGTGTGTTAGC
* *
38971353 CCGTGTAACTCACTGACTTGAGACACACGG-CTATGTCACAGGCCGTGTG
1 CCGTGTAACACACTGACTTGACACACACGGTC-ATGTCACAGGCCGTGTG
38971402 AACCTGCACC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.25
Consensus pattern (54 bp):
CCGTGTAACACACTGACTTGACACACACGGTCATGTCACAGGCCGTGTGTTAGC
Found at i:38972194 original size:40 final size:40
Alignment explanation
Indices: 38972150--38972278 Score: 161
Period size: 40 Copynumber: 3.2 Consensus size: 40
38972140 ATGAATGTGC
* * *
38972150 ACAGGGGCATGTATGTGTATTCAAGGGTATCAAAGTGCAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* * * *
38972190 ACAGGTGCACGCATGTGCATTCAGGGGTATCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
* *
38972230 ACAGGGGCATGTATGTACATTC-AGGAGTACCGAAGTACAA
1 ACAGGGGCATGTATGTGCATTCAAGG-GTATCGAAGTACAA
38972270 ACAGGGGCA
1 ACAGGGGCA
38972279 AATATGCACA
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
39 2 0.03
40 73 0.97
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
ACAGGGGCATGTATGTGCATTCAAGGGTATCGAAGTACAA
Found at i:38972236 original size:20 final size:20
Alignment explanation
Indices: 38972211--38972276 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
38972201 CATGTGCATT
38972211 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * **
38972231 CAGGGGCAT-GTATGTACATT
1 CAGGGGTATCG-AAGTACAAA
* *
38972251 CAGGAGTACCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
38972271 CAGGGG
1 CAGGGG
38972277 CAAATATGCA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.17
Consensus pattern (20 bp):
CAGGGGTATCGAAGTACAAA
Found at i:38972290 original size:40 final size:40
Alignment explanation
Indices: 38972207--38972290 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
38972197 CACGCATGTG
* * ** *
38972207 CATTCAGGGGTATCGAAGTACAAACAGGGGCATGTATGTA
1 CATTCAGGAGTACCGAAGTACAAACAGGGGCAAATATGCA
38972247 CATTCAGGAGTACCGAAGTACAAACAGGGGCAAATATGCA
1 CATTCAGGAGTACCGAAGTACAAACAGGGGCAAATATGCA
38972287 CATT
1 CATT
38972291 TAGGGACACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (40 bp):
CATTCAGGAGTACCGAAGTACAAACAGGGGCAAATATGCA
Found at i:38972527 original size:21 final size:22
Alignment explanation
Indices: 38972483--38972527 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
38972473 TCGAATAAGA
*
38972483 AAGTAATAACCACATAAATTGC
1 AAGTAATAACCACATAAATAGC
38972505 AAGTAA-AA-CACATTAAATAGC
1 AAGTAATAACCACA-TAAATAGC
38972526 AA
1 AA
38972528 ATAACTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 11 0.52
22 6 0.29
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.20
Consensus pattern (22 bp):
AAGTAATAACCACATAAATAGC
Found at i:38980470 original size:26 final size:24
Alignment explanation
Indices: 38980433--38980505 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
38980423 GCATACTGCA
* *
38980433 GCTCTTATGAGCGTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGTTA-AAG
38980458 GCTCTTCATGAGCTTCCCGATTAAAG
1 GCTCTT-ATGAGCTTCCCG-TTAAAG
*
38980484 GCTCTTTGTGAGCTTCCCGTTA
1 GCTC-TTATGAGCTTCCCGTTA
38980506 GTGCTCGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.21
26 28 0.67
27 5 0.12
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTAAAG
Found at i:38990513 original size:20 final size:20
Alignment explanation
Indices: 38990485--38990522 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38990475 ATACTTAAAC
38990485 AAAAAGTAT-TGATATCTTAT
1 AAAAAGTATCT-ATATCTTAT
*
38990505 AAAAGGTATCTATATCTT
1 AAAAAGTATCTATATCTT
38990523 TGCACAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAGTATCTATATCTTAT
Found at i:38991447 original size:22 final size:22
Alignment explanation
Indices: 38991422--38991482 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
38991412 AGCACTAAGG
*
38991422 TGCTATACAGAGAGCACAAATA
1 TGCTAAACAGAGAGCACAAATA
** *
38991444 TGCTAAATGGAGAGCACGAATA
1 TGCTAAACAGAGAGCACAAATA
**
38991466 TGCTAAATGGAGAGCAC
1 TGCTAAACAGAGAGCAC
38991483 GCTAAGGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (22 bp):
TGCTAAACAGAGAGCACAAATA
Found at i:38991483 original size:22 final size:22
Alignment explanation
Indices: 38991431--38991483 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
38991421 GTGCTATACA
*
38991431 GAGAGCACAAATATGCTAAATG
1 GAGAGCACGAATATGCTAAATG
38991453 GAGAGCACGAATATGCTAAATG
1 GAGAGCACGAATATGCTAAATG
38991475 GAGAGCACG
1 GAGAGCACG
38991484 CTAAGGTCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (22 bp):
GAGAGCACGAATATGCTAAATG
Found at i:39001215 original size:28 final size:29
Alignment explanation
Indices: 39001096--39001221 Score: 71
Period size: 29 Copynumber: 4.4 Consensus size: 29
39001086 TAAAAAATTG
* *** *
39001096 AAAAACCGTAAACAAAAGCCCCCAAAATC
1 AAAAACCCTAAACAAAAATTCCCAAACTC
* * *
39001125 AAAATACCCT--A-AAAAATCCCCAAAATT
1 AAAA-ACCCTAAACAAAAATTCCCAAACTC
* * * * *
39001152 AAAATCCTTAATCGAAAATTCCCAAATTC
1 AAAAACCCTAAACAAAAATTCCCAAACTC
* * *
39001181 GACAA-CCTAAACAAAAATTCCCGAACTC
1 AAAAACCCTAAACAAAAATTCCCAAACTC
39001209 AAAAACCCTAAAC
1 AAAAACCCTAAAC
39001222 CGAAATAATA
Statistics
Matches: 71, Mismatches: 21, Indels: 10
0.70 0.21 0.10
Matches are distributed among these distances:
26 3 0.04
27 17 0.24
28 22 0.31
29 25 0.35
30 4 0.06
ACGTcount: A:0.52, C:0.29, G:0.04, T:0.16
Consensus pattern (29 bp):
AAAAACCCTAAACAAAAATTCCCAAACTC
Found at i:39008717 original size:21 final size:22
Alignment explanation
Indices: 39008692--39008737 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39008682 TCAAAAGTTG
39008692 AAAAAT-TATATTTTAAAATAAT
1 AAAAATATATA-TTTAAAATAAT
* *
39008714 AAAAATATATATTTGAAATTAT
1 AAAAATATATATTTAAAATAAT
39008736 AA
1 AA
39008738 TGCGAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAAATATATATTTAAAATAAT
Found at i:39013573 original size:27 final size:27
Alignment explanation
Indices: 39013535--39013590 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
39013525 TTTGTAATAC
39013535 TATTGACGAGAAGTATGCTTAAACCCA
1 TATTGACGAGAAGTATGCTTAAACCCA
39013562 TATTGACGAGAAGTATGCTTAAACCCA
1 TATTGACGAGAAGTATGCTTAAACCCA
39013589 TA
1 TA
39013591 GATGAAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TATTGACGAGAAGTATGCTTAAACCCA
Found at i:39021632 original size:17 final size:17
Alignment explanation
Indices: 39021603--39021639 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
39021593 ATATATATAT
39021603 ATTTAAAATTT-AATTA
1 ATTTAAAATTTAAATTA
39021619 ATTTAAATATTTAAATTA
1 ATTTAAA-ATTTAAATTA
39021637 ATT
1 ATT
39021640 GAGTTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATTTAAATTA
Found at i:39021646 original size:22 final size:24
Alignment explanation
Indices: 39021601--39021647 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
39021591 TAATATATAT
*
39021601 ATATTTAAAATTTAATTAATTTAA
1 ATATTTAAAATTTAATTAAGTTAA
*
39021625 ATATTT-AAA-TTAATTGAGTTAA
1 ATATTTAAAATTTAATTAAGTTAA
39021647 A
1 A
39021648 GTTTGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATATTTAAAATTTAATTAAGTTAA
Found at i:39022208 original size:114 final size:114
Alignment explanation
Indices: 39021897--39022560 Score: 942
Period size: 114 Copynumber: 5.9 Consensus size: 114
39021887 AAAATAAGCA
** * * * * * **
39021897 TTAGCGGCGTTTTCCAAAAAGCGCCGC-AAACAACCTACGCCCAACGACGCTGTTTTCTTAGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
39021961 TTGGGGATTTAGCGGCGTTTTTAATAAAGCGTCGCTAATGGCCAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* ** *
39022010 TTAGCGGCATTTTT-AGGAAGCGCCGCAAAAAAA-ATAAGCCCAACGACGCCGTTTTGTGGGATT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
*
39022073 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGGTCAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * * *
39022122 TTAGCAGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGATGCCGTTTTTTGGGCTG
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
39022187 TTGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCCAATGGTCAGGGAT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
*
39022236 TTAGCGGCGTTTTTGAAAAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* *
39022301 TTGGTGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAAGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * *
39022350 TTAGCGGCGTTTTTGAAAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* * *
39022415 TTGGGGATTTAGCGACG-TTTTAAGAAAGCGCCGCTAATGCTTAGGGCT
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
* * * *
39022463 TTAACGGCGTTTTTGAGAAAGCGCTGC-AAAAAACATAAGCCCAACGATGCCGTTTTGTGGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
* *
39022527 TCGGGGATTTAGCGGCATTTTTAAGAAAGCGCCG
66 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCG
39022561 TAAAAAAATA
Statistics
Matches: 492, Mismatches: 55, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
112 140 0.28
113 101 0.21
114 251 0.51
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTT
TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCT
Found at i:39022326 original size:228 final size:227
Alignment explanation
Indices: 39021897--39022560 Score: 962
Period size: 226 Copynumber: 2.9 Consensus size: 227
39021887 AAAATAAGCA
** * * * * *
39021897 TTAGCGGCGTTTTCCAAAAAGCGCCGC-AAACAACCTACGCCCAACGACGCTGTTTTCTT-AGCT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT-TTGGGCT
* * * *
39021960 TTTGGGGATTTAGCGGCGTTTTTAATAAAGCGTCGCTAATGGCCAGGGCTTTAGCGGCATTTTT-
65 TTTGGGGATTTAGC-GCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTG
* * *
39022024 AGGAAGCGCCGCAAAAAAA-ATAAGCCCAACGACGCCGTTTTGTGGGATTTTGGGGATTTAGCGG
129 AGAAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGG
* *
39022088 CGTTTTTAAGAAAGCGTCGCTAATGGTCAGGGCT
194 CGTTTTTAAGAAAGCGCCGCTAATGGTCAAGGCT
* * *
39022122 TTAGCAGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGATGCCGTTTTTTGGGCTG
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTT
* *
39022187 TTGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCCAATGGTCAGGGATTTAGCGGCGTTTTTGA
66 TTGGGGATTTAGC-GCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGA
* *
39022252 AAAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGTGATTTAGCGGC
130 GAAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGC
39022317 GTTTTTAAGAAAGCGCCGCTAATGGTCAAGGCT
195 GTTTTTAAGAAAGCGCCGCTAATGGTCAAGGCT
* * *
39022350 TTAGCGGCGTTTTTGAAAAAGCACCGCAAAAAAACATAAGCCCAACGACGCCATTTTCTGGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTT
* * *
39022415 TTGGGGATTTAGCGACG-TTTTAAGAAAGCGCCGCTAATGCTTAGGGCTTTAACGGCGTTTTTGA
66 TTGGGGATTTAGCG-CGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGA
* *
39022479 GAAAGCGCTGC-AAAAAACATAAGCCCAACGATGCCGTTTTGTGGGCTTTCGGGGATTTAGCGGC
130 GAAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGC
*
39022543 ATTTTTAAGAAAGCGCCG
195 GTTTTTAAGAAAGCGCCG
39022561 TAAAAAAATA
Statistics
Matches: 394, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
225 26 0.07
226 150 0.38
227 69 0.18
228 149 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (227 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTTTGGGCTT
TTGGGGATTTAGCGCGTTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
AAAGCGCTGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
TTTTTAAGAAAGCGCCGCTAATGGTCAAGGCT
Found at i:39022589 original size:71 final size:72
Alignment explanation
Indices: 39022462--39022609 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 72
39022452 TGCTTAGGGC
* * * * * * *
39022462 TTTAACGGCGTTTTTGAGAAAGCGCTGCAAAAAACATAAGCCCAACGATGCCGTTTTGTGGGCTT
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTT
39022527 TCGGGGA
66 TCGGGGA
* *
39022534 TTTAGCGGCATTTTTAAGAAAGCGCCGTAAAAAA-ATAAGCCAAATGACGCCGTTTTGTGAGCTT
1 TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTT
39022598 TCGGGGA
66 TCGGGGA
39022605 TTTAG
1 TTTAG
39022610 AGGCCAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
71 38 0.57
72 29 0.43
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (72 bp):
TTTAGCGGCATTTTTAAGAAAGCGCCGCAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTT
TCGGGGA
Found at i:39022800 original size:14 final size:14
Alignment explanation
Indices: 39022766--39022828 Score: 99
Period size: 14 Copynumber: 4.4 Consensus size: 14
39022756 TAAGGTCGGT
* *
39022766 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
39022781 TTAGGGATTATGGA
1 TTAGGGATTATGGA
39022795 TTAGGGATTATGGA
1 TTAGGGATTATGGA
39022809 TTAGGGATTATGGA
1 TTAGGGATTATGGA
39022823 TTAGGG
1 TTAGGG
39022829 GTTGGGATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
14 36 0.78
15 10 0.22
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:39022820 original size:28 final size:29
Alignment explanation
Indices: 39022766--39022837 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
39022756 TAAGGTCGGT
*
39022766 TTAGGGAGTATGGGTTTAGGGATTATGGA
1 TTAGGGAGTATGGGATTAGGGATTATGGA
*
39022795 TTAGGGATTAT-GGATTAGGGATTATGGA
1 TTAGGGAGTATGGGATTAGGGATTATGGA
39022823 TTAGGG-GT-TGGGATT
1 TTAGGGAGTATGGGATT
39022838 TAAGGGTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 6 0.15
28 22 0.56
29 10 0.26
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (29 bp):
TTAGGGAGTATGGGATTAGGGATTATGGA
Found at i:39022862 original size:7 final size:7
Alignment explanation
Indices: 39022766--39022837 Score: 74
Period size: 7 Copynumber: 10.3 Consensus size: 7
39022756 TAAGGTCGGT
39022766 TTAGGGA
1 TTAGGGA
* *
39022773 GTATGGGT
1 TTA-GGGA
39022781 TTAGGGA
1 TTAGGGA
*
39022788 TTATGGA
1 TTAGGGA
39022795 TTAGGGA
1 TTAGGGA
*
39022802 TTATGGA
1 TTAGGGA
39022809 TTAGGGA
1 TTAGGGA
*
39022816 TTATGGA
1 TTAGGGA
*
39022823 TTAGGGG
1 TTAGGGA
39022830 TT-GGGA
1 TTAGGGA
39022836 TT
1 TT
39022838 TAAGGGTTAG
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
6 5 0.10
7 42 0.81
8 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (7 bp):
TTAGGGA
Found at i:39023145 original size:15 final size:14
Alignment explanation
Indices: 39023121--39023191 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
39023111 GTGTTTGGAT
39023121 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
39023135 TTAAGGGTTTAGGGG
1 TTAA-GGTTTAGGGG
*
39023150 TT-AGATGTTAGGGG
1 TTAAGGT-TTAGGGG
*
39023164 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
*
39023179 TTAAGGCTTAGGG
1 TTAAGGTTTAGGG
39023192 ATTCAAGGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.04
14 21 0.44
15 25 0.52
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.34
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:39023549 original size:35 final size:35
Alignment explanation
Indices: 39023503--39023574 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
39023493 TAATAAATAA
39023503 GTTAAAAAAAGTAATAGATTGATATGGATATTTAG
1 GTTAAAAAAAGTAATAGATTGATATGGATATTTAG
39023538 GTTAAAAAAAGTAATAGATTGATATGGATATTTAG
1 GTTAAAAAAAGTAATAGATTGATATGGATATTTAG
39023573 GT
1 GT
39023575 ATAATTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (35 bp):
GTTAAAAAAAGTAATAGATTGATATGGATATTTAG
Found at i:39025943 original size:15 final size:15
Alignment explanation
Indices: 39025923--39025952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39025913 CTTATAGGTT
*
39025923 TAAATTATTATATAG
1 TAAATTAGTATATAG
39025938 TAAATTAGTATATAG
1 TAAATTAGTATATAG
39025953 AATCATCGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (15 bp):
TAAATTAGTATATAG
Found at i:39028201 original size:12 final size:12
Alignment explanation
Indices: 39028181--39028213 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39028171 TTGTTTCAGG
39028181 TTGTATTATTAA
1 TTGTATTATTAA
*
39028193 TTGTGTTATTAA
1 TTGTATTATTAA
39028205 TT-TATTATT
1 TTGTATTATT
39028214 TTAAATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
TTGTATTATTAA
Found at i:39028518 original size:43 final size:43
Alignment explanation
Indices: 39028453--39028580 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
39028443 GTTCTTTAGG
* * *
39028453 TCATGATCTTTAGTGGCATTTGTGACAAAAGCGCCGCTAAAGC
1 TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGC
* * * *
39028496 TCATGGTCTTTAGCGGCGTTTGTGACAGACGCACCGCTAAAGG
1 TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGC
*
39028539 TCATGGTCTTTAGCGGCGTTTTTCG-CATAAA-CGCCGCTAAAG
1 TCATGGTCTTTAGCGGCGTTTGT-GACA-AAAGCGCCGCTAAAG
39028581 TTAGTGGCGT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
43 70 0.97
44 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (43 bp):
TCATGGTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGC
Found at i:39028683 original size:22 final size:22
Alignment explanation
Indices: 39028653--39028694 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
39028643 AGTGGCGTTT
* * *
39028653 AAAAGCGCCGCTAAATGCCTAA
1 AAAAACGCCGCAAAAAGCCTAA
39028675 AAAAACGCCGCAAAAAGCCT
1 AAAAACGCCGCAAAAAGCCT
39028695 GTTTTGGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.10
Consensus pattern (22 bp):
AAAAACGCCGCAAAAAGCCTAA
Found at i:39032795 original size:1 final size:1
Alignment explanation
Indices: 39032789--39032816 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
39032779 AGAGTCGGGG
39032789 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
39032817 GCTTTTGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:39034464 original size:25 final size:25
Alignment explanation
Indices: 39034433--39034507 Score: 69
Period size: 32 Copynumber: 2.7 Consensus size: 25
39034423 AAAATATTCG
*
39034433 AAATATTTTAATATAATTTAATATA
1 AAATATTTTAATATAATTTAAAATA
39034458 AAATATTTAATTTCAAAATATAATTTAAAATA
1 AAATA--T--TTT---AATATAATTTAAAATA
*
39034490 AAATATTTGAATATAATT
1 AAATATTTTAATATAATT
39034508 ATATTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
25 14 0.34
27 1 0.02
28 2 0.05
29 3 0.07
30 1 0.02
32 20 0.49
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATATAATTTAAAATA
Found at i:39034537 original size:14 final size:14
Alignment explanation
Indices: 39034502--39034530 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39034492 ATATTTGAAT
39034502 ATAATTATATTAAA
1 ATAATTATATTAAA
39034516 ATAATTATATTAAA
1 ATAATTATATTAAA
39034530 A
1 A
39034531 ATATTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTATATTAAA
Found at i:39035227 original size:12 final size:12
Alignment explanation
Indices: 39035210--39035235 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39035200 CTTTTCCCTT
39035210 CCATCGGTTCTG
1 CCATCGGTTCTG
39035222 CCATCGGTTCTG
1 CCATCGGTTCTG
39035234 CC
1 CC
39035236 GTCACTTAAT
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:0.38, G:0.23, T:0.31
Consensus pattern (12 bp):
CCATCGGTTCTG
Found at i:39038188 original size:18 final size:17
Alignment explanation
Indices: 39038165--39038217 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
39038155 ATATATTATG
*
39038165 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*
39038183 ATTTTATTAAATTATGT
1 ATTTTATTAAATTATAT
39038200 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
39038218 TTAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:39038444 original size:44 final size:46
Alignment explanation
Indices: 39038377--39038469 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
39038367 TTATACCTCT
*
39038377 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
39038421 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
39038467 ATT
1 ATT
39038470 ACGCATCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 23 0.50
45 4 0.09
46 19 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:39038472 original size:16 final size:16
Alignment explanation
Indices: 39038451--39038503 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
39038441 AGAATTACCT
39038451 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
39038467 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
39038483 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
39038499 ATTAC
1 ATTAC
39038504 AGGGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:39038587 original size:16 final size:15
Alignment explanation
Indices: 39038562--39038620 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
39038552 ATAGTTGAAT
39038562 TATTTATTACAACTC
1 TATTTATTACAACTC
39038577 TATTATATTACAACTC
1 TATT-TATTACAACTC
* * *
39038593 TATTCCATTATAGCTC
1 TATT-TATTACAACTC
39038609 TATTTCATTACA
1 TATTT-ATTACA
39038621 GCGAACCAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 4 0.11
16 32 0.89
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.46
Consensus pattern (15 bp):
TATTTATTACAACTC
Found at i:39038610 original size:116 final size:116
Alignment explanation
Indices: 39038413--39038629 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 116
39038403 CCATTACGCC
** * *
39038413 TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTACGCATCT
1 TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACACATCT
*
39038478 ATTCCATTACACCTCTATTCCATTACAGGGAACCAAACGTGCTATTACAGT
66 ATTCCATTACACCTCTATTCCATTACAGCGAACCAAACGTGCTATTACAGT
* * *** ** *
39038529 TCTATTTCATTCCATTCAACCAAATAGTTGAATTATTTATTACAACTCTATTATATTACA-ACTC
1 TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACACA-TC
* * *
39038593 TATTCCATTATAGCTCTATTTCATTACAGCGAACCAA
65 TATTCCATTACACCTCTATTCCATTACAGCGAACCAA
39038630 GCGTAGTGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
115 1 0.01
116 83 0.99
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (116 bp):
TCTATTCCATTCCATTCAACCAAACAAAAGAATTACCTATTACAACTCTATTACATTACACATCT
ATTCCATTACACCTCTATTCCATTACAGCGAACCAAACGTGCTATTACAGT
Found at i:39038795 original size:22 final size:20
Alignment explanation
Indices: 39038766--39038808 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
39038756 GTTTGATAGT
39038766 AAAATTA-TAAACAATCTAAAA
1 AAAATTATTAAA-AAT-TAAAA
39038787 AAAAGTTATTAAAAATTAAAA
1 AAAA-TTATTAAAAATTAAAA
39038808 A
1 A
39038809 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.50
22 6 0.30
23 4 0.20
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATTATTAAAAATTAAAA
Found at i:39038907 original size:34 final size:35
Alignment explanation
Indices: 39038839--39038908 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
39038829 GATATATCTT
*
39038839 ATAAAAATAATAAAAAACTTATAAATATTATAAAA
1 ATAAAAATAATAAAAAACTTATAAAAATTATAAAA
* *
39038874 ATAAAAAT-ATAATAAA-TTCTAACAAATTATAAAA
1 ATAAAAATAATAAAAAACTTATAA-AAATTATAAAA
39038908 A
1 A
39038909 AATTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 5 0.16
34 18 0.58
35 8 0.26
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (35 bp):
ATAAAAATAATAAAAAACTTATAAAAATTATAAAA
Found at i:39038919 original size:19 final size:19
Alignment explanation
Indices: 39038837--39039010 Score: 78
Period size: 19 Copynumber: 9.2 Consensus size: 19
39038827 TTGATATATC
* *
39038837 TTATAAAAATAATAAAAAAC
1 TTAT-AAAATTATAAAAAAA
39038857 TTATAAATATTAT--AAAAA
1 TTATAAA-ATTATAAAAAAA
*
39038875 -TA-AAAA-TAT-AATAAA
1 TTATAAAATTATAAAAAAA
*
39038890 TTCTAACAAATTATAAAAAAA
1 TTAT-A-AAATTATAAAAAAA
* *
39038911 TTATAAAATTAATAAACATA
1 TTATAAAATT-ATAAAAAAA
* * **
39038931 TT-TAAAATTTTTAAAATT
1 TTATAAAATTATAAAAAAA
***
39038949 TTATAAAAACGTAAAAAAA
1 TTATAAAATTATAAAAAAA
39038968 TCT-TAAAAACTTATAAAAAAA
1 T-TAT-AAAA-TTATAAAAAAA
*
39038989 TTA-AAAATCATAAAAAATA
1 TTATAAAATTATAAAAAA-A
39039008 TTA
1 TTA
39039011 AATATTATTT
Statistics
Matches: 117, Mismatches: 22, Indels: 31
0.69 0.13 0.18
Matches are distributed among these distances:
14 3 0.03
15 5 0.04
16 4 0.03
17 2 0.02
18 21 0.18
19 38 0.32
20 27 0.23
21 17 0.15
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.32
Consensus pattern (19 bp):
TTATAAAATTATAAAAAAA
Found at i:39039037 original size:45 final size:45
Alignment explanation
Indices: 39038981--39039067 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
39038971 TAAAAACTTA
*
39038981 TAAAAAAATTAAAAATCATA-AAAAATATTAAATATTATTTAATGT
1 TAAAAAAATTAAAAATCATATAAAAATATAAAAT-TTATTTAATGT
* * **
39039026 TAAAAATATTAAAATTCATATAAACTTATAAAATTTATTTAA
1 TAAAAAAATTAAAAATCATATAAAAATATAAAATTTATTTAA
39039068 AAAATCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 26 0.72
46 10 0.28
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (45 bp):
TAAAAAAATTAAAAATCATATAAAAATATAAAATTTATTTAATGT
Found at i:39039079 original size:9 final size:9
Alignment explanation
Indices: 39039026--39039208 Score: 50
Period size: 10 Copynumber: 18.7 Consensus size: 9
39039016 TATTTAATGT
39039026 TAAAAA-TA
1 TAAAAATTA
*
39039034 TTAAAATTCA
1 TAAAAATT-A
*
39039044 TATAAACTTA
1 TA-AAAATTA
*
39039054 TAAAATTTA
1 TAAAAATTA
*
39039063 TTTAAAAAATCA
1 --T-AAAAATTA
39039075 TAAAAACTTA
1 TAAAAA-TTA
*
39039085 TAAATATTA
1 TAAAAATTA
*
39039094 TAAAAAAATTC
1 T--AAAAATTA
*
39039105 TAATAACTTA
1 TAA-AAATTA
*
39039115 TTAAAACTT-
1 -TAAAAATTA
*
39039124 TATGAAATTA
1 TA-AAAATTA
*
39039134 TTAAAATATATT
1 -TAAAA-AT-TA
*
39039146 TAAAATTTTA
1 TAAAA-ATTA
39039156 TAAAAGATTTA
1 TAAAA-A-TTA
*
39039167 TAAACATTCA
1 TAAAAATT-A
39039177 TAAAAATTTA
1 TAAAAA-TTA
39039187 TAAAAA-TA
1 TAAAAATTA
*
39039195 -ATAAATTA
1 TAAAAATTA
39039203 TAAAAA
1 TAAAAA
39039209 AATGTTATTT
Statistics
Matches: 130, Mismatches: 24, Indels: 41
0.67 0.12 0.21
Matches are distributed among these distances:
7 4 0.03
8 11 0.08
9 28 0.22
10 44 0.34
11 36 0.28
12 7 0.05
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (9 bp):
TAAAAATTA
Found at i:39039102 original size:30 final size:31
Alignment explanation
Indices: 39039036--39039126 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 31
39039026 TAAAAATATT
* * *
39039036 AAAATTCATATAAACTTATAAAATTTATTTA
1 AAAAATCATAAAAACTTATAAAATTTATTAA
39039067 AAAAATCATAAAAACTTAT-AAATATTA-TAA
1 AAAAATCATAAAAACTTATAAAAT-TTATTAA
*
39039097 AAAAATTC-TAATAACTTATTAAAACTTTAT
1 AAAAA-TCATAAAAACTTA-TAAAA-TTTAT
39039127 GAAATTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
30 20 0.40
31 23 0.46
32 6 0.12
33 1 0.02
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (31 bp):
AAAAATCATAAAAACTTATAAAATTTATTAA
Found at i:39039192 original size:10 final size:10
Alignment explanation
Indices: 39039036--39039193 Score: 65
Period size: 10 Copynumber: 15.5 Consensus size: 10
39039026 TAAAAATATT
*
39039036 AAAATTCATA
1 AAAATTTATA
* *
39039046 TAAACTTAT-
1 AAAATTTATA
39039055 AAAATTTATTTA
1 AAAATTTA--TA
* *
39039067 AAAAATCATA
1 AAAATTTATA
*
39039077 AAAACTTATA
1 AAAATTTATA
*
39039087 AATA-TTATAA
1 AAAATTTAT-A
* *
39039097 AAAAATTCTA
1 AAAATTTATA
* *
39039107 ATAACTTATTA
1 AAAATTTA-TA
*
39039118 AAACTTTAT-
1 AAAATTTATA
*
39039127 GAAA-TTATTA
1 AAAATTTA-TA
39039137 AAATATATT-TA
1 AAA-AT-TTATA
*
39039148 AAATTTTATA
1 AAAATTTATA
39039158 AAAGATTTATA
1 AAA-ATTTATA
* *
39039169 AACATTCATA
1 AAAATTTATA
39039179 AAAATTTATA
1 AAAATTTATA
39039189 AAAAT
1 AAAAT
39039194 AATAAATTAT
Statistics
Matches: 108, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
8 3 0.03
9 15 0.14
10 57 0.53
11 25 0.23
12 6 0.06
13 2 0.02
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAATTTATA
Found at i:39043752 original size:18 final size:18
Alignment explanation
Indices: 39043731--39043766 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39043721 GGAGTGCTGA
*
39043731 ATGTGGGTAGTTGCTACG
1 ATGTGAGTAGTTGCTACG
*
39043749 ATGTGAGTAGTTGTTACG
1 ATGTGAGTAGTTGCTACG
39043767 GCGTTCGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.36, T:0.36
Consensus pattern (18 bp):
ATGTGAGTAGTTGCTACG
Found at i:39047290 original size:9 final size:9
Alignment explanation
Indices: 39047278--39047373 Score: 60
Period size: 9 Copynumber: 10.9 Consensus size: 9
39047268 GTAGAGATTT
39047278 TAATTTTTA
1 TAATTTTTA
39047287 TAA-TTTTA
1 TAATTTTTA
*
39047295 T--TTATTA
1 TAATTTTTA
*
39047302 TAATATTTA
1 TAATTTTTA
39047311 TAATATTTTA
1 TAAT-TTTTA
*
39047321 TTATTCTTTA
1 TAATT-TTTA
*
39047331 TAAGTTTATA
1 TAA-TTTTTA
*
39047341 TCA-TTTT-
1 TAATTTTTA
39047348 TAATATTTTA
1 TAAT-TTTTA
*
39047358 -AATTTTAA
1 TAATTTTTA
39047366 TAATTTTT
1 TAATTTTT
39047374 CTGATATATA
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
7 7 0.11
8 13 0.20
9 25 0.38
10 18 0.28
11 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
TAATTTTTA
Found at i:39047294 original size:15 final size:16
Alignment explanation
Indices: 39047274--39047310 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
39047264 GATTGTAGAG
39047274 ATTTTAATTT-TTATA
1 ATTTTAATTTATTATA
39047289 ATTTT-ATTTATTATA
1 ATTTTAATTTATTATA
39047304 ATATTTA
1 AT-TTTA
39047311 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 12 0.63
16 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTATTATA
Found at i:39050721 original size:13 final size:13
Alignment explanation
Indices: 39050703--39050728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39050693 AAAGAGATTT
39050703 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
39050716 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
39050729 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:39052686 original size:19 final size:19
Alignment explanation
Indices: 39052662--39052701 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
39052652 GCAAATGTTC
39052662 TTTCATT-TTTTACGATTTT
1 TTTCATTCTTTT-CGATTTT
*
39052681 TTTCATTCTTTTGGATTTT
1 TTTCATTCTTTTCGATTTT
39052700 TT
1 TT
39052702 CTGCCAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTCATTCTTTTCGATTTT
Found at i:39053669 original size:6 final size:7
Alignment explanation
Indices: 39053652--39053692 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
39053642 AGTGATGTGA
39053652 AAAAATG
1 AAAAATG
39053659 AAAAATG
1 AAAAATG
39053666 -AAAATG
1 AAAAATG
39053672 AAAAATG
1 AAAAATG
39053679 AAAAA-G
1 AAAAATG
39053685 TAAAAATG
1 -AAAAATG
39053693 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 7 0.23
7 23 0.74
8 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:39053671 original size:13 final size:13
Alignment explanation
Indices: 39053653--39053692 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
39053643 GTGATGTGAA
39053653 AAAATGAAAAATG
1 AAAATGAAAAATG
39053666 AAAATGAAAAATG
1 AAAATGAAAAATG
*
39053679 AAAAAGTAAAAATG
1 AAAATG-AAAAATG
39053693 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:39055497 original size:50 final size:50
Alignment explanation
Indices: 39054937--39055501 Score: 270
Period size: 50 Copynumber: 11.3 Consensus size: 50
39054927 AGCAGTGCAG
* * * * *
39054937 TGAAACAGATTGAAGCTACGATGGCAGATCTGGTTTCCCTGATATTGCAAT
1 TGAAA-AGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * ** *** * * *
39054988 TAAAAAGATTGAAGCCACAACGATGGATCTTACTTCCTTAGCAGTGCAGT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * * *
39055038 GGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * *** ** * *
39055088 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * * *
39055138 GGAATAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * *** * * * *
39055188 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGTAGT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * * * *
39055238 GGAACAGATTGAAGCTACGACGACAGATTTGGTTTCCTTGATATTGCAAT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * *** * **
39055288 TAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCTTAGCAGCGCAAT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * * *
39055338 GGAATAGATTGAAACTACGACAGCGGATCTAGTTT--TTCAGACATTGCAAT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTT-A-ACATTGCAAT
* * * * *** * * ** **
39055388 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCGGT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
* * * ** *
39055438 GGGACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCAACATTGCAGT
1 TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
*
39055488 TGAATAGATTGAAG
1 TGAAAAGATTGAAG
39055502 ATTTCAGATC
Statistics
Matches: 350, Mismatches: 160, Indels: 9
0.67 0.31 0.02
Matches are distributed among these distances:
48 2 0.01
49 1 0.00
50 342 0.98
51 4 0.01
52 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (50 bp):
TGAAAAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTAACATTGCAAT
Found at i:39055501 original size:100 final size:100
Alignment explanation
Indices: 39054913--39055475 Score: 849
Period size: 100 Copynumber: 5.6 Consensus size: 100
39054903 CGAAACCATA
* *
39054913 GATCTTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGCTACGATGGCAGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
**
39054978 ATATTGCAATTAAAAAGATTGAAGCCACAACGATG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
39055013 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
39055078 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* *
39055113 GATCTTACTTCCTTAGTAGTGCAGTGGAATAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
*
39055178 ATATTGCAATTAAAAAGATTGAAGCCACAACGACG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * * *
39055213 GATCTTACTTCCTTAGCAGTGTAGTGGAACAGATTGAAGCTACGACGACAGATTTGGTTTCCTTG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
39055278 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * * * * * * * ** *
39055313 AATCTTACTTCCTTAGCAGCGCAATGGAATAGATTGAAACTACGACAGCGGATCTAGTTTTTCAG
1 GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
* *
39055378 ACATTGCAATTAAAAAGATTGAAGCCACAACGGCA
66 ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
* * * * *
39055413 GATCTTACTTCCCT-GACGGTGCGGTGGGACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 GATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCC
39055476 CAACATTGCA
Statistics
Matches: 418, Mismatches: 44, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
99 1 0.00
100 417 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (100 bp):
GATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTG
ATATTGCAATTAAAAAGATTGAAGCCACAACGGCG
Found at i:39055919 original size:131 final size:132
Alignment explanation
Indices: 39055483--39055985 Score: 787
Period size: 132 Copynumber: 3.8 Consensus size: 132
39055473 CCCCAACATT
* *
39055483 GCAGTTGAATAGATTGAAGATTTCAGATCTTGTCTACCTAAGCAG-AGTGGAGCAGATCAAAGAT
1 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
* *
39055547 GGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGG
66 GGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
39055612 CA
131 CA
* * *
39055614 GCAGTGGTATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGTAGTAGTGGAGTAGATCAAAGAT
1 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
* * * * *
39055679 GGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGTCAGTAATTCTA-CTTCACTGT
66 GGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGG
39055743 GCA
130 GCA
*
39055746 TCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
1 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
*
39055811 GGTAAATTTTACCTCCCTGTGGTT-CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
66 GGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
39055875 CA
131 CA
* *
39055877 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCTCTAAGCAGTGGTGGAGCAGATCAAAGAT
1 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
* * * * *
39055942 AGTGGATTTTACCTTCATGTGGTTACAGTGGAGTACATTAAAGC
66 GGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
39055986 TAGTTACCCT
Statistics
Matches: 337, Mismatches: 31, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
131 159 0.47
132 178 0.53
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
GGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
CA
Found at i:39055965 original size:263 final size:263
Alignment explanation
Indices: 39055484--39055980 Score: 852
Period size: 263 Copynumber: 1.9 Consensus size: 263
39055474 CCCAACATTG
*
39055484 CAGTTGAATAGATTGAAGATTTCAGATCTTGTCTACCTAAGCAGAGTGGAGCAGATCAAAGATGG
1 CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTACCTAAGCAGAGTGGAGCAGATCAAAGATGG
*
39055549 CGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCA
66 CAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCA
* * *
39055614 GCAGTGGTATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGTAGTAGTGGAGTAGATCAAAGAT
131 GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
* * *
39055679 GGTGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGTCAGTAATTCTACTTCACTGTG
196 AGTGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTACTTCACTGTG
39055744 CAT
261 CAT
*
39055747 CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
1 CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTACCTAAGCAG-AGTGGAGCAGATCAAAGATG
* *
39055812 GTAAATTTTACCTCCCTGTGGTT-CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGC
65 GCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGC
* *
39055876 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCTCTAAGCAGTGGTGGAGCAGATCAAAGA
130 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
*
39055941 TAGTGGATTTTACCTTCATGTGGTTACAGTGGAGTACATT
195 TAGTGGATTTTACCTCCATGTGGTTACAGTGGAGTACATT
39055981 AAAGCTAGTT
Statistics
Matches: 219, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
263 178 0.81
264 41 0.19
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (263 bp):
CAGTGGAATAGATTGAAGATTTCAGATCTTGTCTACCTAAGCAGAGTGGAGCAGATCAAAGATGG
CAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCA
GCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAT
AGTGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCTACTTCACTGTG
CAT
Found at i:39070313 original size:40 final size:40
Alignment explanation
Indices: 39070268--39070346 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
39070258 TCGACCACGT
39070268 GCACATAGTGTGTGAGATTCTAGAGTATCCAATATTATTA
1 GCACATAGTGTGTGAGATTCTAGAGTATCCAATATTATTA
* *
39070308 GCACATAGTGTGTGAGATTCTCGAGTGTCCAATATTATT
1 GCACATAGTGTGTGAGATTCTAGAGTATCCAATATTATT
39070347 CTAGTGGTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (40 bp):
GCACATAGTGTGTGAGATTCTAGAGTATCCAATATTATTA
Found at i:39079795 original size:20 final size:20
Alignment explanation
Indices: 39079766--39079834 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
39079756 AAATCAATAG
*
39079766 GTATCAATACTTAACTTATA
1 GTATCGATACTTAACTTATA
* *
39079786 GTATCGATACTT-CCTTACAA
1 GTATCGATACTTAACTTA-TA
* * *
39079806 GTATCGATAC-CAAATTCTA
1 GTATCGATACTTAACTTATA
39079825 GTATCGATAC
1 GTATCGATAC
39079835 CATTTTACGA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.38
20 24 0.62
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
GTATCGATACTTAACTTATA
Found at i:39082014 original size:18 final size:17
Alignment explanation
Indices: 39081982--39082032 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
39081972 TCATCAATGG
39081982 TAACATTTT-AAAACTT
1 TAACATTTTGAAAACTT
39081998 TAACAGTTTTGAAAACTT
1 TAACA-TTTTGAAAACTT
39082016 TAACAATTTTGAAAACT
1 TAAC-ATTTTGAAAACT
39082033 AATGCTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.16
17 4 0.12
18 22 0.69
19 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
TAACATTTTGAAAACTT
Found at i:39091088 original size:24 final size:24
Alignment explanation
Indices: 39091056--39091104 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
39091046 CAGGAAATAA
39091056 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
39091080 CCCATTATTTCATAACCTTAGATT
1 CCCATTATTTCATAACCTTAGATT
39091104 C
1 C
39091105 TAGCTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.41
Consensus pattern (24 bp):
CCCATTATTTCATAACCTTAGATT
Found at i:39100043 original size:25 final size:25
Alignment explanation
Indices: 39099960--39100043 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
39099950 GCTCTCTCTC
** * **
39099960 GAGCCATATAAAAGGAAGTTCATGT
1 GAGCCATATAACGGGAAGCTCATAA
* * **
39099985 GAGCCATGTAACGGGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATAA
* *
39100010 GGGCTATATAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
39100035 GAGCCATAT
1 GAGCCATAT
39100044 TTAGGAAGCT
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:39100088 original size:25 final size:25
Alignment explanation
Indices: 39100015--39100090 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
39100005 TATCCGGGCT
*
39100015 ATATAACGGGAAGCTCATA-AGAGCC
1 ATATATCGGGAAGCTC-TAGAGAGCC
** * *
39100040 ATAT-TTAGGAAGCT-TCGGATAGCC
1 ATATATCGGGAAGCTCT-AGAGAGCC
39100064 ATATATCGGGAAGCTCTAGAGAGCC
1 ATATATCGGGAAGCTCTAGAGAGCC
39100089 AT
1 AT
39100091 TAATCAAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
22 1 0.03
24 16 0.42
25 20 0.53
26 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (25 bp):
ATATATCGGGAAGCTCTAGAGAGCC
Found at i:39100119 original size:26 final size:27
Alignment explanation
Indices: 39100083--39100142 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
39100073 GAAGCTCTAG
39100083 AGAGCCATTAATCAAGAAGCTCAC-AA
1 AGAGCCATTAATCAAGAAGCTCACGAA
* * *
39100109 AGAGCCTTTAATTAGGAAGCTCACGAA
1 AGAGCCATTAATCAAGAAGCTCACGAA
39100136 A-AGCCAT
1 AGAGCCAT
39100143 ATATGGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
AGAGCCATTAATCAAGAAGCTCACGAA
Found at i:39103653 original size:6 final size:6
Alignment explanation
Indices: 39103642--39103673 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
39103632 ATTCAATTTT
39103642 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
39103674 CTAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:39107229 original size:139 final size:140
Alignment explanation
Indices: 39106975--39107271 Score: 443
Period size: 139 Copynumber: 2.1 Consensus size: 140
39106965 AATATTTTAA
*
39106975 TGTCGGCCCAAAAGTGTCGGTATAGCATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGCATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* * *
39107040 CATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTACGTCGGCAAGTCTATCCCAACA
*
39107105 C-GAGGAAAG
131 CTGAGAAAAG
* ** * * **
39107114 TGTTGGCCCAAAAGTGTCGGCATAGTGTTGGACAAAGTCGACTCTTATTTAAGTGTTGCCTTAGG
1 TGTCGGCCCAAAAGTGTCGGCATAGCATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
* *
39107179 TATGCATATCCCAACCCTTATAAAAAGATTTGACCAAAGCGTACGTCGGCAAGTCTATCCCAACA
66 CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTACGTCGGCAAGTCTATCCCAACA
*
39107244 CTTAGAAAAG
131 CTGAGAAAAG
*
39107254 TGTCGGACCAAAAGTGTC
1 TGTCGGCCCAAAAGTGTC
39107272 ATCTTAGGAC
Statistics
Matches: 140, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
139 118 0.84
140 22 0.16
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (140 bp):
TGTCGGCCCAAAAGTGTCGGCATAGCATTGAACAAAGCCGACTCTTATTTAAGCATTGCCTTAGG
CATGCATATCCCAACCCTTATAAAAAGAGTTGACCAAAGCGTACGTCGGCAAGTCTATCCCAACA
CTGAGAAAAG
Found at i:39107552 original size:43 final size:43
Alignment explanation
Indices: 39107490--39107687 Score: 299
Period size: 43 Copynumber: 4.6 Consensus size: 43
39107480 GTGTCGCTAA
39107490 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* ** *
39107533 CTTTAGCGGCGCTTATCCCACAAACGCTACTAAAGACCAAGAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
39107576 CTTTAGCAGCG-TATTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCT-TTTCCCACAAACGCCGCTAAAGACCAAGAC
* * *
39107619 CTTTAGCGGCGCTTTTCCCATAAACGCCGCTAAAGACCGATAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
39107662 CTTTAGCGGCACTTTTCCCACAAACG
1 CTTTAGCGGCGCTTTTCCCACAAACG
39107688 TCGCCAAAAA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 136 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:39107723 original size:16 final size:16
Alignment explanation
Indices: 39107702--39107732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39107692 CAAAAACATG
39107702 AATTAAAAAATATTTT
1 AATTAAAAAATATTTT
*
39107718 AATTAAATAATATTT
1 AATTAAAAAATATTT
39107733 ATTTCTATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAAAAATATTTT
Found at i:39112435 original size:14 final size:14
Alignment explanation
Indices: 39112418--39112471 Score: 81
Period size: 14 Copynumber: 3.8 Consensus size: 14
39112408 CTCTAACGCA
39112418 TAACCCTAAACCCC
1 TAACCCTAAACCCC
39112432 TAACCCTAAACCCC
1 TAACCCTAAACCCC
*
39112446 TAACCCTTAACCCC
1 TAACCCTAAACCCC
*
39112460 CAACCCCTAAAC
1 TAA-CCCTAAAC
39112472 ATTATTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
14 29 0.81
15 7 0.19
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACCCTAAACCCC
Found at i:39112443 original size:21 final size:21
Alignment explanation
Indices: 39112421--39112469 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
39112411 TAACGCATAA
39112421 CCCTAAACCCCTAACCCTAAAC
1 CCCT-AACCCCTAACCCTAAAC
* **
39112443 CCCTAACCCTTAACCCCCAAC
1 CCCTAACCCCTAACCCTAAAC
39112464 CCCTAA
1 CCCTAA
39112470 ACATTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.33, C:0.53, G:0.00, T:0.14
Consensus pattern (21 bp):
CCCTAACCCCTAACCCTAAAC
Found at i:39112464 original size:7 final size:7
Alignment explanation
Indices: 39112421--39112469 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
39112411 TAACGCATAA
39112421 CCCTAAAC
1 CCCT-AAC
39112429 CCCTAA-
1 CCCTAAC
39112435 CCCTAAAC
1 CCCT-AAC
39112443 CCCTAAC
1 CCCTAAC
*
39112450 CCTTAAC
1 CCCTAAC
*
39112457 CCCCAAC
1 CCCTAAC
39112464 CCCTAA
1 CCCTAA
39112470 ACATTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 4 0.11
7 23 0.66
8 8 0.23
ACGTcount: A:0.33, C:0.53, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAC
Found at i:39112628 original size:14 final size:15
Alignment explanation
Indices: 39112609--39112641 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
39112599 CTTAAACTAG
39112609 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
39112623 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
39112638 AATC
1 AATC
39112642 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:39113100 original size:41 final size:41
Alignment explanation
Indices: 39113042--39113316 Score: 365
Period size: 41 Copynumber: 6.7 Consensus size: 41
39113032 AAATGTTTTT
* * *
39113042 GCGGCGCTTTTCTAAAAACACCGTTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
*
39113083 GCGGCGCTTTTCCAAAAACGCCGCTAAAAGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
** * * *
39113124 GCGGCGCTTTTTTAAAAACACCGCTATAGGTCTAAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * * *
39113165 GCGGCGCTTTTTCAAAAATGCCACTAAAGGTTTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
* * *
39113206 GCGGCGCTTTTCCATAAACGCCGCTAAAGGTCTAATCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
39113247 GCGGCGCTTTTCCAAAAACGGCCGCTAAAGGTCTGAGCATTA
1 GCGGCGCTTTTCCAAAAAC-GCCGCTAAAGGTCTGAGCATTA
*
39113289 --GGCGCTTTTCCAAAAAATGCCGCTAAAG
1 GCGGCGCTTTTCC-AAAAACGCCGCTAAAG
39113317 CCTCGAAAGG
Statistics
Matches: 204, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
40 21 0.10
41 163 0.80
42 20 0.10
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGGTCTGAGCATTA
Found at i:39113427 original size:39 final size:38
Alignment explanation
Indices: 39113384--39113488 Score: 138
Period size: 39 Copynumber: 2.7 Consensus size: 38
39113374 AAAAATGCCA
*
39113384 CTAATGCTCATTTTTAGCGGCGTTTTCCAAAAAGCACCG
1 CTAATGCTGATTTTTAGCGGCGTTTT-CAAAAAGCACCG
* **
39113423 CTAATGCTGATCTTTAGCGGCGATTTTTGAAAAGCACCG
1 CTAATGCTGATTTTTAGCGGCG-TTTTCAAAAAGCACCG
*
39113462 CTAATACTTGATTTTTAGCGGCGTTTT
1 CTAATGC-TGATTTTTAGCGGCGTTTT
39113489 TTATTCAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 40 0.69
40 18 0.31
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (38 bp):
CTAATGCTGATTTTTAGCGGCGTTTTCAAAAAGCACCG
Found at i:39119835 original size:45 final size:45
Alignment explanation
Indices: 39119771--39119868 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
39119761 TACGACTTAC
*
39119771 CTTCATTTCCTTTGAACCTATCTAGTGCACGGTTCACATTCACTT
1 CTTCATTTCCTTGGAACCTATCTAGTGCACGGTTCACATTCACTT
39119816 CTTCATTTCCTTGGAACCTATCTAGTGCACGGTTCACATTCACTT
1 CTTCATTTCCTTGGAACCTATCTAGTGCACGGTTCACATTCACTT
39119861 CTTCATTT
1 CTTCATTT
39119869 TTTCCTTGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.41
Consensus pattern (45 bp):
CTTCATTTCCTTGGAACCTATCTAGTGCACGGTTCACATTCACTT
Found at i:39140650 original size:20 final size:20
Alignment explanation
Indices: 39140616--39140665 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
39140606 AGTAAGTTTA
*
39140616 AAATTAA-TAAATCCTAATT
1 AAATTAACTAATTCCTAATT
39140635 AAATTAACTAATTCCTAATT
1 AAATTAACTAATTCCTAATT
*
39140655 AACTT-ACTAAT
1 AAATTAACTAAT
39140666 GATTATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTAACTAATTCCTAATT
Found at i:39147609 original size:21 final size:20
Alignment explanation
Indices: 39147572--39147610 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
39147562 ATTCTTCTTA
*
39147572 TAAAATGAGGAAAAGAAACC
1 TAAAATAAGGAAAAGAAACC
*
39147592 TAAAATAATGGAATAGAAA
1 TAAAATAA-GGAAAAGAAA
39147611 AACTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (20 bp):
TAAAATAAGGAAAAGAAACC
Found at i:39148263 original size:21 final size:21
Alignment explanation
Indices: 39148239--39148279 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39148229 TCAAAAAAGC
39148239 TCTCAAA-CATCTCTCTAAATT
1 TCTCAAAGC-TCTCTCTAAATT
*
39148260 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTCTAAAT
39148280 CACAATTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCAAAGCTCTCTCTAAATT
Found at i:39149999 original size:18 final size:18
Alignment explanation
Indices: 39149976--39150019 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
39149966 ATGCCGGGTG
* *
39149976 TGTATCCTAGCCTTTATA
1 TGTATCCTAACCCTTATA
*
39149994 TGTATCTTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
39150012 TGTTTCCT
1 TGTATCCT
39150020 TTTCCCAGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:39151692 original size:97 final size:97
Alignment explanation
Indices: 39151526--39151734 Score: 251
Period size: 97 Copynumber: 2.1 Consensus size: 97
39151516 TTCTCAAAAT
* * * * * * *
39151526 TATTTTTTCAAAAACTATTGTAGAAAAATAACGTCCAAATGGGAGCTTTTTTTAGTACTTTTGTT
1 TATTTTTTC-AAAACTACTGTAGAAAAAGAACATCCAAATGGAAGCATTTTTCAGTACTTTTGCT
* *
39151591 GACAGCGCATCCTTCTTGAAGC-GTTTTTATC-C
65 GACAGCGCATCCTGCTTGAAGCATTTTTTA-CAC
** **
39151623 TATTTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCT
1 TATTTTTTCA-AAACTACTGTAGAAAAAGAACATCCAAATGGAAGCATTTTTCAGTACTTTTGCT
*
39151688 GACAGTGCATCCTGCTTGAAGCATTTTTTACAC
65 GACAGCGCATCCTGCTTGAAGCATTTTTTACAC
39151721 TATTTTTTCAAAAC
1 TATTTTTTCAAAAC
39151735 CATCTTCTCA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
96 1 0.01
97 77 0.81
98 17 0.18
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (97 bp):
TATTTTTTCAAAACTACTGTAGAAAAAGAACATCCAAATGGAAGCATTTTTCAGTACTTTTGCTG
ACAGCGCATCCTGCTTGAAGCATTTTTTACAC
Found at i:39151809 original size:222 final size:223
Alignment explanation
Indices: 39151416--39151853 Score: 603
Period size: 222 Copynumber: 2.0 Consensus size: 223
39151406 AAGCAGGATG
** * *
39151416 TACTGTAGAAAAAGAGCATTTAGGTGGGACACTTTTTCAGTACTTTTTCTGACAATGCATCCTGC
1 TACTGTAGAAAAAGAGCATCCAGGTGGAACACTTTTTCAGTACTTTTGCTGACAATGCATCCTGC
* * *
39151481 TTGAAGCATTTTTTACCCTGTTTTTCAAAATCATCTTCTCAAAATTATTTTTTCAAAAACTATTG
66 TTGAAGCATTTTTTACACTGTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAAAAACTACTG
* * * * * * * *
39151546 TAGAAAAATAACGTCCAAATGGGAGCTTTTTTTAGTACTTTTGTTGACAGCGCATCCTTCTTGAA
131 TAGAAAAAGAACATCCAAACGGGAGCTTTTTTCAATACTTTTGCTGAAAGCGCATCCTGCTTGAA
*
39151611 GCG-TTTTTATCCTATTTTTTCAGAAAC
196 GCGCTTTTTACCCTATTTTTTCAGAAAC
* *
39151638 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCA-TTTTTCAGTACTTTTGCTGACAGTGCATCCTG
1 TACTGTAGAAAAAGAGCATCCAGGTGGAA-CACTTTTTCAGTACTTTTGCTGACAATGCATCCTG
* *
39151702 CTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTA-TTTTTCAGAAACTAC
65 CTTGAAGCATTTTTTACACT-GTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAAAAACTAC
* * ** *
39151766 TGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTG
129 TGTAGAAAAAGAACATCCAAACGGGAGCTTTTTTCAATACTTTTGCTGAAAGCGCATCCTGCTTG
*
39151831 TAGCGCTTTTTACCCTATTTTTT
194 AAGCGCTTTTTACCCTATTTTTT
39151854 TAAAAATCAT
Statistics
Matches: 187, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
222 143 0.76
223 44 0.24
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (223 bp):
TACTGTAGAAAAAGAGCATCCAGGTGGAACACTTTTTCAGTACTTTTGCTGACAATGCATCCTGC
TTGAAGCATTTTTTACACTGTTTTTCAAAACCATCTTCTCAAAATTATTTTTTCAAAAACTACTG
TAGAAAAAGAACATCCAAACGGGAGCTTTTTTCAATACTTTTGCTGAAAGCGCATCCTGCTTGAA
GCGCTTTTTACCCTATTTTTTCAGAAAC
Found at i:39151849 original size:125 final size:125
Alignment explanation
Indices: 39151623--39152028 Score: 589
Period size: 125 Copynumber: 3.2 Consensus size: 125
39151613 GTTTTTATCC
* * * * *
39151623 TATTTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCT
* *
39151688 GACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAAT
66 GACAGTGCATCCTGCTTGAAGC-GTTTTTACCCTATTTTTTCAAAACCATCTTCTCAAAAT
*
39151749 TA-TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCT
* * * * *
39151813 GAAAGTGCATCCTGCTTGTAGCGCTTTTTACCCTATTTTTTTAAAAATCATATTCTCAAAAT
66 GACAGTGCATCCTGCTTGAAGCG-TTTTTACCCTA-TTTTTTCAAAACCATCTTCTCAAAAT
* * *
39151875 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCT
* * *
39151940 GACACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAAT
66 GACAGTGCATCCTGCTTGAAGCGTTTT-TACCCTATTTTTTCAAAACCATCTTCTCAAAAT
*
39152001 TATTTTTTTAGAAACTACTGTAGAAAAA
1 TATTTTTTCAGAAACTACTGTAGAAAAA
39152029 TAATGTTTAG
Statistics
Matches: 251, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
125 86 0.34
126 81 0.32
127 84 0.33
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (125 bp):
TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCT
GACAGTGCATCCTGCTTGAAGCGTTTTTACCCTATTTTTTCAAAACCATCTTCTCAAAAT
Found at i:39152063 original size:126 final size:124
Alignment explanation
Indices: 39151623--39152028 Score: 562
Period size: 126 Copynumber: 3.2 Consensus size: 124
39151613 GTTTTTATCC
* * * * *
39151623 TATTTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGCTGG-AGCTTTTTTCAATACTTTTGCT
* *
39151688 GACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAAT
65 GACAGTGCATCCTGCTTGAAGC-GTTTTTACCCTATTTTTTCAAAACCATCTTCTCAAAAT
*
39151749 TA-TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTA-GCTGGAGCTTTTTTCAATACTTTTGCT
* * * * *
39151813 GAAAGTGCATCCTGCTTGTAGCGCTTTTTACCCTATTTTTTTAAAAATCATATTCTCAAAAT
65 GACAGTGCATCCTGCTTGAAGCG-TTTTTACCCTA-TTTTTTCAAAACCATCTTCTCAAAAT
* * *
39151875 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGCTG-GAGCTTTTTTCAATACTTTTGCT
* * *
39151940 GACACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAAT
65 GACAGTGCATCCTGCTTGAAGCGTTTT-TACCCTATTTTTTCAAAACCATCTTCTCAAAAT
*
39152001 TATTTTTTTAGAAACTACTGTAGAAAAA
1 TATTTTTTCAGAAACTACTGTAGAAAAA
39152029 TAATGTTTAG
Statistics
Matches: 249, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
125 82 0.33
126 86 0.35
127 81 0.33
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (124 bp):
TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGCTGGAGCTTTTTTCAATACTTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTTACCCTATTTTTTCAAAACCATCTTCTCAAAAT
Found at i:39152105 original size:252 final size:251
Alignment explanation
Indices: 39151623--39152107 Score: 528
Period size: 252 Copynumber: 1.9 Consensus size: 251
39151613 GTTTTTATCC
* *
39151623 TATTTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCT
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGGTGGAAGCATTTTTCAATACTTTTGCT
* * *
39151688 GACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATT
66 GACACTGCATCCTACTTGAAGCATTTTATACACTATTTTTTCAAAACCATCTTCTCAAAATTATT
* * *
39151753 TTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAG
131 TTTCAGAAACTACTGTAGAAAAAGAACATCTAGGCAGGAGCTCTTTTCAATACTTTTGCTGAAAG
* ******* ** ** * ***
39151818 TGCATCCTGCTTGTAGCGCTTTTTACCCTATTTTTTTAAAAATCATATTCTCAAAAT
196 TACAAAAAAAATCCA-CGCTCGTCAAAATATTTTTTTAAAAATCATATTCTCAAAAT
* * * *
39151875 TATTTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGT-GAGAGCTTTTTTCAATACTTTTGC
1 TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGGTGGA-AGCATTTTTCAATACTTTTGC
* * *
39151939 TGACACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTAT
65 TGACACTGCATCCTACTTGAAGCATTTTATACACTATTTTTTCAAAACCATCTTCTCAAAATTA-
* * ** * * *
39152004 TTTTTTAGAAACTACTGTAGAAAAATAATGTTTA-GCTAGGAGCTCTTTTCAGTACTTTTGTTGA
129 TTTTTCAGAAACTACTGTAGAAAAAGAACATCTAGGC-AGGAGCTCTTTTCAATACTTTTGCTGA
* *
39152068 CTAG-ACAAAAAAAATCCA-TCTCGTCAAAATAATTTTTTTA
193 -AAGTACAAAAAAAATCCACGCTCGTCAAAAT-ATTTTTTTA
39152108 GAACTCATCC
Statistics
Matches: 188, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
251 7 0.04
252 124 0.66
253 55 0.29
254 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (251 bp):
TATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCAGGTGGAAGCATTTTTCAATACTTTTGCT
GACACTGCATCCTACTTGAAGCATTTTATACACTATTTTTTCAAAACCATCTTCTCAAAATTATT
TTTCAGAAACTACTGTAGAAAAAGAACATCTAGGCAGGAGCTCTTTTCAATACTTTTGCTGAAAG
TACAAAAAAAATCCACGCTCGTCAAAATATTTTTTTAAAAATCATATTCTCAAAAT
Found at i:39152614 original size:125 final size:125
Alignment explanation
Indices: 39152391--39152793 Score: 529
Period size: 125 Copynumber: 3.2 Consensus size: 125
39152381 TTTATCCTAT
* ** * * * *
39152391 TTTTTCAGAAACTACTGTAGAAAAATAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGAC
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
*
39152456 AGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTA-
66 AGTGCATCCTGCTTGAAGC-GTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTAC
*
39152516 TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAA
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
* * * ** *
39152581 AGTGCATCCTGCTTGTAGCGCTTTTTACGCTATTTTTTTTAAATTCATATTCTCAAAATTAC
66 AGTGCATCCTGCTTGAAGCG-TTTTTACACTA-TTTTTTCAAAACCATCTTCTCAAAATTAC
* * *
39152643 TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTGTGCTGAC
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
* * * * * * *
39152708 ACTGCATCCTACTTGAAGCGTTTTATACCCAATTTTTTGAGAACCATCTTCTCAAAATTAT
66 AGTGCATCCTGCTTGAAGCGTTTT-TACACTATTTTTTCAAAACCATCTTCTCAAAATTAC
*
39152769 TTTTTTAGAAACTACTGTAGAAAAA
1 TTTTTCAGAAACTACTGTAGAAAAA
39152794 TAATGTTTAG
Statistics
Matches: 244, Mismatches: 30, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
125 85 0.35
126 76 0.31
127 83 0.34
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (125 bp):
TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
AGTGCATCCTGCTTGAAGCGTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTAC
Found at i:39152688 original size:127 final size:121
Alignment explanation
Indices: 39152388--39152793 Score: 506
Period size: 127 Copynumber: 3.2 Consensus size: 121
39152378 TTTTTTATCC
* ** * * *
39152388 TATTTTTTCAGAAACTACTGTAGAAAAATAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCT
1 TATTTTTT-AGAAACTACTGTAGAAAAAGAGCGTCTAGGTGG-AGCTTTTTTCAATACTTTTGCT
*
39152453 GACAGTGCATCCTGCTTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAAT
64 GACAGTGCATCCTGCTTGAAGC-GTTTTTAC-CTATTTTTTC-AAACCATCTTCTCAAAAT
*
39152514 TATTTTTCAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTG
1 TATTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGT-GGAGCTTTTTTCAATACTTTTGCTG
* * * * *
39152579 AAAGTGCATCCTGCTTGTAGCGCTTTTTACGCTATTTTTTTTAAATTCATATTCTCAAAAT
65 ACAGTGCATCCTGCTTGAAGCG-TTTTTAC-CTA-TTTTTTCAAA-CCATCTTCTCAAAAT
*
39152640 TACTTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTGTGCT
1 TA-TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTG-GAGCTTTTTTCAATACTTTTGCT
* * * *
39152705 GACACTGCATCCTACTTGAAGCGTTTTATACCCAATTTTTTGAGAACCATCTTCTCAAAAT
64 GACAGTGCATCCTGCTTGAAGCGTTTT-TA-CCTATTTTTTCA-AACCATCTTCTCAAAAT
39152766 TATTTTTTTAGAAACTACTGTAGAAAAA
1 TA-TTTTTTAGAAACTACTGTAGAAAAA
39152794 TAATGTTTAG
Statistics
Matches: 246, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
125 80 0.33
126 82 0.33
127 83 0.34
128 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (121 bp):
TATTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGGTGGAGCTTTTTTCAATACTTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTTACCTATTTTTTCAAACCATCTTCTCAAAAT
Found at i:39153002 original size:29 final size:30
Alignment explanation
Indices: 39152940--39153002 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
39152930 TAAAGTTCTT
* * *
39152940 TAAACCCTAATTTAATTTTTTTTAAATCCA
1 TAAACCCTAATTTAATTTTCTCTAAAACCA
*
39152970 TAAACCCTAATTT-ATTTTCTCTAAAACCC
1 TAAACCCTAATTTAATTTTCTCTAAAACCA
39152999 TAAA
1 TAAA
39153003 GTTTAAACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAACCCTAATTTAATTTTCTCTAAAACCA
Found at i:39153380 original size:124 final size:126
Alignment explanation
Indices: 39153155--39153556 Score: 547
Period size: 127 Copynumber: 3.2 Consensus size: 126
39153145 TTTTATCCTA
* * * * * *
39153155 TTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGGC
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
* * * * * *
39153220 AGTGCATCCTGCTTGAAGC-ATTTTTACTCTATTTTTTCAAAACCATAATCCCAAAATTA-
66 AGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTAAAATCATATTCTCAAAATTAT
* * *
39153279 TTTTTCAAAAACTACTGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAA
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
*
39153344 AGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTAT
66 AGTGCATCCTGCTTGAAGCGTTTTTTACCCTA-TTTTTTTAAAATCATATTCTCAAAATTAT
* * * *
39153406 TTTTTTAGAAATTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGAC
1 TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
* * * * *
39153471 ACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTTAGAATCATCTTCTCAAAATTAT
66 AGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTAAAATCATATTCTCAAAATTAT
*
39153532 TTTTTTAGAAACTACTGTAGAAAAA
1 TTTTTCAGAAACTACTGTAGAAAAA
39153557 TAATGTTTAA
Statistics
Matches: 245, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
124 75 0.31
125 10 0.04
126 73 0.30
127 87 0.36
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (126 bp):
TTTTTCAGAAACTACTGTAGAAAAAGAGCATCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAC
AGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTAAAATCATATTCTCAAAATTAT
Found at i:39153580 original size:127 final size:123
Alignment explanation
Indices: 39153155--39153596 Score: 508
Period size: 126 Copynumber: 3.5 Consensus size: 123
39153145 TTTTATCCTA
* ** * * * * *
39153155 TTTTTCAGAAACTACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGGC
1 TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGCTGG-AGCTTTTTTCAATACTTTTGCTGAC
* * * * * *
39153220 AGTGCATCCTGCTTGAAGCATTTTTACTCTATTTTTTCAAAACCATAATCCCAAAATTA-
65 AGTGCATCCTGCTTGAAGCGTTTTTACCCTATTTTTT-TAAATCATATTCTCAAAATTAT
* * * * *
39153279 TTTTTCAAAAACTACTGTAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAA
1 TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTA-GCTGGAGCTTTTTTCAATACTTTTGCTGAC
39153344 AGTGCATCCTGCTTGAAGCGTTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTAT
65 AGTGCATCCTGCTTGAAGCG-TTTTTACCCTA-TTTTTTTAAA-TCATATTCTCAAAATTAT
* *
39153406 TTTTTTAGAAATTACTGTAGAAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGAC
1 TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGCTG-GAGCTTTTTTCAATACTTTTGCTGAC
* * *
39153471 ACTGCATCCTACTTGAAGCGTTTTATACCCTATTTTTTTAGAATCATCTTCTCAAAATTAT
65 AGTGCATCCTGCTTGAAGCGTTTT-TACCCTATTTTTTTA-AATCATATTCTCAAAATTAT
* ** * * * *
39153532 TTTTTTAGAAACTACTGTAGAAAAATAATGTTTAACTAGGAGCTTTTTTCAGTACTTTTGTTGAC
1 TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGCT-GGAGCTTTTTTCAATACTTTTGCTGAC
39153597 TAGACAAAAA
Statistics
Matches: 275, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
124 71 0.26
125 16 0.06
126 105 0.38
127 83 0.30
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (123 bp):
TTTTTTAGAAACTACTGTAGAAAAAGAGCGTCTAGCTGGAGCTTTTTTCAATACTTTTGCTGACA
GTGCATCCTGCTTGAAGCGTTTTTACCCTATTTTTTTAAATCATATTCTCAAAATTAT
Found at i:39153635 original size:763 final size:765
Alignment explanation
Indices: 39151574--39153855 Score: 4246
Period size: 765 Copynumber: 3.0 Consensus size: 765
39151564 ATGGGAGCTT
*
39151574 TTTTTAGTACTTTTGTTGACAGCGCATCCTTCTTGAAGCG-TTTTTATCCTATTTTTTCAGAAAC
1 TTTTTAGTACTTTTGTTGACAGTGCATCCTTCTTGAAGCGTTTTTTATCCTATTTTTTCAGAAAC
39151638 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
66 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
39151703 TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
131 TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
39151768 TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
196 TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
* *
39151833 GCGCTTTTTACCCTATTTTTTTAAAAATCATATTCTCAAAATTATTTTTTTAGAAACTACTGTAG
261 GCGCTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTATTTTTTTAGAAACTACTGTAG
39151898 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
326 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
39151963 TTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
391 TTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
39152028 ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
456 ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
39152093 AAAATAATTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
521 AAAATAATTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
39152158 TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTAAAATCCATAAACCCTAATTTATTTT
586 TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTAAAATCCATAAACCCTAATTTATTTT
39152223 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
651 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
39152288 AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAACTATAACTTTA
716 AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAACTATAACTTTA
39152338 TTTTTAGTACTTTTGTTGACAGTGCATCCTTCTTGAAGCGTTTTTTATCCTATTTTTTCAGAAAC
1 TTTTTAGTACTTTTGTTGACAGTGCATCCTTCTTGAAGCGTTTTTTATCCTATTTTTTCAGAAAC
*
39152403 TACTGTAGAAAAATAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
66 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
39152468 TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
131 TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
* *
39152533 TAGAAAAAGAGCGTCTAGGTGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
196 TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
* *
39152598 GCGCTTTTTACGCTATTTTTTTTAAATTCATATTCTCAAAATTACTTTTTTAGAAACTACTGTAG
261 GCGCTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTATTTTTTTAGAAACTACTGTAG
*
39152663 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTGTGCTGACACTGCATCCTACTTGAAGCG
326 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
* *
39152728 TTTTATACCCAATTTTTTGAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
391 TTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
39152793 ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
456 ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
*
39152858 AAAATAACTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
521 AAAATAATTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
*
39152923 TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTTAAATCCATAAACCCTAATTTATTTT
586 TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTAAAATCCATAAACCCTAATTTATTTT
39152988 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
651 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
39153053 AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAACTATAACTTTA
716 AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAACTATAACTTTA
*
39153103 TTTTTAGTACTTTTGTTGACAGTGCATCATTCTTGAAGCGTTTTTTATCCTA-TTTTTCAGAAAC
1 TTTTTAGTACTTTTGTTGACAGTGCATCCTTCTTGAAGCGTTTTTTATCCTATTTTTTCAGAAAC
*
39153167 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGGCAGTGCATCCTGC
66 TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
* ** * *
39153232 TTGAAGCA-TTTTTACTCTATTTTTTCAAAACCATAATCCCAAAATTATTTTTCAAAAACTACTG
131 TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
*
39153296 TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGAA
196 TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
* *
39153361 GCGTTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTATTTTTTTAGAAATTACTGTAG
261 GCGCTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTATTTTTTTAGAAACTACTGTAG
39153426 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
326 AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
* *
39153491 TTTTATACCCTATTTTTTTAGAATCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
391 TTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
* *
39153556 ATAATGTTTAACTAGGAGCTTTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
456 ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
* *
39153621 AAAATAATTTTTTTAGAACTCATCCCTAAAACTATTACAAAAATCTTAAAACCCTAAATAAAAAT
521 AAAATAATTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
** *
39153686 TTATTTTTAAAAATCTTTAAACCCTAATTTAATTTTTTAAAAATCCATAAACCCTAATTTATTTT
586 TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTAAAATCCATAAACCCTAATTTATTTT
39153751 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
651 CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
*
39153816 AACCCTAAAACCCTAAACATCTAAACCTTAAGCCCTAAAC
716 AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAAC
39153856 ATGCAAATAA
Statistics
Matches: 1475, Mismatches: 42, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
763 590 0.40
764 122 0.08
765 763 0.52
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (765 bp):
TTTTTAGTACTTTTGTTGACAGTGCATCCTTCTTGAAGCGTTTTTTATCCTATTTTTTCAGAAAC
TACTGTAGAAAAAGAGTATCCAGGTGGAAGCATTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
TTGAAGCATTTTTTACACTATTTTTTCAAAACCATCTTCTCAAAATTATTTTTCAGAAACTACTG
TAGAAAAAGAGCATCTAGGCGGGAGCTTTTTTCAATACTTTTGCTGAAAGTGCATCCTGCTTGTA
GCGCTTTTTACCCTATTTTTTTTAAATTCATATTCTCAAAATTATTTTTTTAGAAACTACTGTAG
AAAAAGAGCGTCTAGGTGAGAGCTTTTTTCAATACTTTTGCTGACACTGCATCCTACTTGAAGCG
TTTTATACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAGAAAA
ATAATGTTTAGCTAGGAGCTCTTTTCAGTACTTTTGTTGACTAGACAAAAAAAATCCATCTCGTC
AAAATAATTTTTTTAGAACTCATCCCTAAAATTATTACAAAAACCTTAAAACCCTAAATAAAAAT
TTATTTTTAAAGTTCTTTAAACCCTAATTTAATTTTTTTAAAATCCATAAACCCTAATTTATTTT
CTCTAAAACCCTAAAGTTTAAACAAATAAAACCCTAATTTATTTTAACAAAAACTATAACTTTAA
AACCCTAAAACCCTAAATATCTAAACCTTAAGCCCTAAACTATAACTTTA
Found at i:39153749 original size:29 final size:29
Alignment explanation
Indices: 39153683--39153750 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
39153673 CCTAAATAAA
**
39153683 AATTTA-TTTTTAAAAATCTTTAAACCCT
1 AATTTATTTTTTAAAAATCCATAAACCCT
39153711 AATTTAATTTTTTAAAAATCCATAAACCCT
1 AATTT-ATTTTTTAAAAATCCATAAACCCT
39153741 AATTTATTTT
1 AATTTATTTT
39153751 CTCTAAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 5 0.14
29 6 0.17
30 25 0.69
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTTATTTTTTAAAAATCCATAAACCCT
Found at i:39157838 original size:54 final size:54
Alignment explanation
Indices: 39157765--39157923 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 54
39157755 GTTAAGGAGT
* * *
39157765 CAAACGTCCAATGAATTCTTAAAAATAGATCCATATTGTGATTCCTATTCGAGC
1 CAAACGTCCAATGATTTCTTGAAAAGAGATCCATATTGTGATTCCTATTCGAGC
* * ** *
39157819 CAAATGTCCAATGATTTCTTGAGAAGAGATCCATATCATGATTCCTATTCGAGT
1 CAAACGTCCAATGATTTCTTGAAAAGAGATCCATATTGTGATTCCTATTCGAGC
* *
39157873 CAAACGTCCTATGATTTCTTGAAAAGAGATCCA-AGTTGTAATTCCTATTCG
1 CAAACGTCCAATGATTTCTTGAAAAGAGATCCATA-TTGTGATTCCTATTCG
39157924 TCGAGGAATT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 89 0.99
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (54 bp):
CAAACGTCCAATGATTTCTTGAAAAGAGATCCATATTGTGATTCCTATTCGAGC
Found at i:39159048 original size:17 final size:17
Alignment explanation
Indices: 39159005--39159051 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
39158995 AATGAGTTCT
39159005 TGAAAATAGAAGAGAGCG
1 TGAAAA-AGAAGAGAGCG
39159023 TGAAGAAAAGAAGAGAGAC-
1 TG-A-AAAAGAAGAGAG-CG
39159042 TGAAAAAGAA
1 TGAAAAAGAA
39159052 ATGAGTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 12 0.46
20 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.30, T:0.09
Consensus pattern (17 bp):
TGAAAAAGAAGAGAGCG
Found at i:39159081 original size:33 final size:33
Alignment explanation
Indices: 39159036--39159126 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
39159026 AGAAAAGAAG
* *
39159036 AGAGACTGAAAAAGAAATGAGTGAAAAGGAAAA
1 AGAGACTAAAAAAGAAACGAGTGAAAAGGAAAA
39159069 AGAGACTAAAAAAGAAACGAGTGAAAAGGAAAGA
1 AGAGACTAAAAAAGAAACGAGTGAAAAGGAAA-A
**
39159103 A-A-ACTTGTAAAAGAAACGAGTGAA
1 AGAGAC-TAAAAAAGAAACGAGTGAA
39159127 GAGAGTAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
32 2 0.04
33 48 0.92
34 2 0.04
ACGTcount: A:0.59, C:0.05, G:0.25, T:0.10
Consensus pattern (33 bp):
AGAGACTAAAAAAGAAACGAGTGAAAAGGAAAA
Found at i:39164563 original size:46 final size:46
Alignment explanation
Indices: 39164496--39164749 Score: 406
Period size: 46 Copynumber: 5.6 Consensus size: 46
39164486 TTTGAGTACT
39164496 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
39164542 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
39164588 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * **
39164634 TCTGATCAAGTAATAAAGTGATAAGTAATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
39164680 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
39164725 TCTGATC-AGGGAC-AAGTAATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
39164750 ATCATATGTA
Statistics
Matches: 195, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
43 11 0.06
44 5 0.03
45 19 0.10
46 160 0.82
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:39167953 original size:37 final size:37
Alignment explanation
Indices: 39167902--39168014 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
39167892 ATTCCAAAAA
* *
39167902 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAATTTAATATT
*
39167938 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATATT
* *
39167976 AAAGTTATTATCTTAATA-TTTAAT-TTAATTTAATTTT
1 TAA--TATTATCTTAATAGTTTAATATTAATTTAATATT
39168013 TA
1 TA
39168015 TCTTGTAGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
36 5 0.08
37 37 0.58
38 9 0.14
39 11 0.17
40 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATATT
Found at i:39168075 original size:12 final size:13
Alignment explanation
Indices: 39168044--39168076 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
39168034 ATTATTTTAG
39168044 TAATATTTAATAT
1 TAATATTTAATAT
39168057 TAA-ATTTAATA-
1 TAATATTTAATAT
39168068 TAATATTTA
1 TAATATTTA
39168077 TCTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 13 0.68
13 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATTTAATAT
Found at i:39175980 original size:15 final size:15
Alignment explanation
Indices: 39175957--39175987 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39175947 AAAAAATAAT
39175957 TACAATAATTAAAAA
1 TACAATAATTAAAAA
*
39175972 TACATTAATTAAAAA
1 TACAATAATTAAAAA
39175987 T
1 T
39175988 TAAATACGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
TACAATAATTAAAAA
Found at i:39176564 original size:20 final size:22
Alignment explanation
Indices: 39176539--39176589 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
39176529 TTTATACTTA
*
39176539 TTTAATAATTTT-AATA-ATTT
1 TTTAATAATTTTAAAGATATTT
39176559 TTTAAT--TTTTAAAGATATTT
1 TTTAATAATTTTAAAGATATTT
39176579 TTTAA-AATTTT
1 TTTAATAATTTT
39176590 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.15
19 3 0.12
20 15 0.58
21 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTAATAATTTTAAAGATATTT
Found at i:39176590 original size:10 final size:10
Alignment explanation
Indices: 39176547--39176597 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
39176537 TATTTAATAA
39176547 TTTTAATAATT
1 TTTTAA-AATT
39176558 TTTT--AATT
1 TTTTAAAATT
*
39176566 TTTAAAGATATT
1 TTTTAA-A-ATT
39176578 TTTTAAAATT
1 TTTTAAAATT
39176588 TTTTAAAATT
1 TTTTAAAATT
39176598 AATTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.21
10 13 0.38
11 6 0.18
12 8 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:39177628 original size:46 final size:47
Alignment explanation
Indices: 39177502--39177807 Score: 483
Period size: 46 Copynumber: 6.6 Consensus size: 47
39177492 ATTCATGAAT
* ** **
39177502 TTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
39177549 TTGGACAGCATATATGTAACAAACTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
39177596 TTGGACAGCAT-TATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
39177642 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
39177688 TTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
39177735 TTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
39177781 TTGGACAGCATATATGTAATAAATTGG
1 TTGGACAGCATATATGTAACAAATTGG
39177808 TTCAACTCAT
Statistics
Matches: 240, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
46 131 0.55
47 109 0.45
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:39177639 original size:93 final size:93
Alignment explanation
Indices: 39177525--39177807 Score: 523
Period size: 93 Copynumber: 3.0 Consensus size: 93
39177515 ATAAAACAGT
* *
39177525 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAACTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCA
39177590 TCAAAATTGGACAGCAT-TATGTAATAAA
65 TCAAAATTGGACAGCATATATGTAATAAA
*
39177618 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCAT
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCAT
39177683 CAAAATTGGACAGCATATATGTAATAAA
66 CAAAATTGGACAGCATATATGTAATAAA
39177711 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCAT
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCAT
39177776 CAAAATTGGACAGCATATATGTAATAAA
66 CAAAATTGGACAGCATATATGTAATAAA
39177804 TTGG
1 TTGG
39177808 TTCAACTCAT
Statistics
Matches: 185, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 43 0.23
93 142 0.77
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (93 bp):
TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCAT
CAAAATTGGACAGCATATATGTAATAAA
Found at i:39177729 original size:139 final size:140
Alignment explanation
Indices: 39177502--39177807 Score: 497
Period size: 139 Copynumber: 2.2 Consensus size: 140
39177492 ATTCATGAAT
* ** **
39177502 TTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTA
*
39177567 ACAAACTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAATAAATTGGGCAGCATTTA
66 ACAAACTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTA
39177632 AGCATCAAAA
131 AGCATCAAAA
* *
39177642 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTA
* *
39177706 ATAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTA
66 ACAAACTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTA
*
39177771 TGCATCAAAA
131 AGCATCAAAA
*
39177781 TTGGACAGCATATATGTAATAAATTGG
1 TTGGACAGCATATATGTAACAAATTGG
39177808 TTCAACTCAT
Statistics
Matches: 153, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
139 129 0.84
140 24 0.16
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (140 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTA
ACAAACTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTA
AGCATCAAAA
Found at i:39178716 original size:43 final size:42
Alignment explanation
Indices: 39178650--39178778 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 42
39178640 AACTCGTACA
*
39178650 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
39178693 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
39178736 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
39178779 GAAATCCTAT
Statistics
Matches: 77, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
42 4 0.05
43 66 0.86
44 7 0.09
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:39181126 original size:17 final size:16
Alignment explanation
Indices: 39181100--39181167 Score: 52
Period size: 17 Copynumber: 4.2 Consensus size: 16
39181090 TTTTGTTTAA
39181100 ATTT-AATATATAAAAT
1 ATTTAAATATA-AAAAT
*
39181116 ATTTAAATATATCAAAT
1 ATTTAAATATA-AAAAT
* *
39181133 GAATTAGAT-TAAATAAT
1 -ATTTAAATATAAA-AAT
39181150 -TTTAAATATAAAAAT
1 ATTTAAATATAAAAAT
39181165 ATT
1 ATT
39181168 AATTGATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
15 8 0.20
16 11 0.27
17 16 0.39
18 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTTAAATATAAAAAT
Found at i:39181176 original size:33 final size:33
Alignment explanation
Indices: 39181117--39181181 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
39181107 ATATAAAATA
**
39181117 TTTAAATATATCAAATGAATTAGATTAAATAAT
1 TTTAAATATAAAAAATGAATTAGATTAAATAAT
* *
39181150 TTTAAATATAAAAATATTAATT-GATTATATAA
1 TTTAAATATAAAAA-ATGAATTAGATTAAATAA
39181182 AATAATTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (33 bp):
TTTAAATATAAAAAATGAATTAGATTAAATAAT
Found at i:39181444 original size:31 final size:32
Alignment explanation
Indices: 39181401--39181467 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 32
39181391 TTTTGTCTTT
39181401 TTTTTTTCTTTACTTTTTTT-TT-TGTTATATAA
1 TTTTTTTCTTTACTTTTTTTATTAT-TTAT-TAA
39181433 TTTTTTT-TTTACTTTTTTTATTATTTATTAA
1 TTTTTTTCTTTACTTTTTTTATTATTTATTAA
39181464 TTTT
1 TTTT
39181468 CTACTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 19 0.58
32 13 0.39
33 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (32 bp):
TTTTTTTCTTTACTTTTTTTATTATTTATTAA
Found at i:39186015 original size:19 final size:19
Alignment explanation
Indices: 39185980--39186018 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39185970 TTTATTTATG
*
39185980 TTAATTAAGTTAGGTTAAT
1 TTAATTAAGTTAAGTTAAT
39185999 TTAATTAA-TCTAAGTTAAT
1 TTAATTAAGT-TAAGTTAAT
39186018 T
1 T
39186019 AAAGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (19 bp):
TTAATTAAGTTAAGTTAAT
Found at i:39188648 original size:54 final size:54
Alignment explanation
Indices: 39188566--39188672 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
39188556 ATCTTATTCT
* * * *
39188566 AGAAAACATCATTGTTCAAGGGGAAGCTACTATTTAAGGGGAGACTACTGTTCC
1 AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTCC
*
39188620 AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAGGGGGAGACTACTGTTC
1 AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTC
39188673 AAAAGGAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (54 bp):
AGAAAACACCATTGTTCAACGGGAAGCTACTACTCAAGGGGAGACTACTGTTCC
Found at i:39191879 original size:3 final size:3
Alignment explanation
Indices: 39191833--39191859 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39191823 GTCACCACTG
39191833 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
39191860 CTGCCATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:39195654 original size:31 final size:31
Alignment explanation
Indices: 39195569--39195656 Score: 140
Period size: 31 Copynumber: 2.8 Consensus size: 31
39195559 TTTTTTAATA
*
39195569 TTTCCCTCCAAAATTTTACTCCCCCATTTAT
1 TTTCCCTCCAAAATTTTACTCCCTCATTTAT
*
39195600 TTTTCCTCCAAAATTTTACTCCCTCATTTAT
1 TTTCCCTCCAAAATTTTACTCCCTCATTTAT
* *
39195631 TTTCCCCCCAAAATTTTATTCCCTCA
1 TTTCCCTCCAAAATTTTACTCCCTCA
39195657 ACCTTCAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTCCCTCCAAAATTTTACTCCCTCATTTAT
Found at i:39195860 original size:28 final size:28
Alignment explanation
Indices: 39195812--39195886 Score: 123
Period size: 28 Copynumber: 2.6 Consensus size: 28
39195802 ACTGATTATA
*
39195812 AAAGATTAATAAATAAATTATGAGGGAATG
1 AAAG-TTAAT-AACAAATTATGAGGGAATG
39195842 AAAGTTAATAACAAATTATGAGGGAATG
1 AAAGTTAATAACAAATTATGAGGGAATG
39195870 AAAGTTAATAACAAATT
1 AAAGTTAATAACAAATT
39195887 TGATTATGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 35 0.80
29 5 0.11
30 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (28 bp):
AAAGTTAATAACAAATTATGAGGGAATG
Found at i:39197835 original size:20 final size:21
Alignment explanation
Indices: 39197797--39197860 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
39197787 TAATTTGTTT
39197797 TATATTATATTAAATATTATA
1 TATATTATATTAAATATTATA
39197818 TATATATATATT-AA-ATTATA
1 TATAT-TATATTAAATATTATA
*
39197838 CATATTAATCATTAAAATATTAT
1 TATATT-AT-ATT-AAATATTAT
39197861 TATGCTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 10 0.28
22 6 0.17
23 2 0.06
24 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTATATTAAATATTATA
Found at i:39197842 original size:22 final size:21
Alignment explanation
Indices: 39197797--39197859 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
39197787 TAATTTGTTT
*
39197797 TATATTATATTAAATATTATA
1 TATATTATATTAAATATTACA
39197818 TATATATATATTAAAT-TATACA
1 TATAT-TATATTAAATAT-TACA
*
39197840 TAT-TAATCATTAAAATATTA
1 TATATTAT-ATT-AAATATTA
39197860 TTATGCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 22 0.63
23 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTATATTAAATATTACA
Found at i:39199816 original size:3 final size:3
Alignment explanation
Indices: 39199810--39199841 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
39199800 AGGAGGAGAA
*
39199810 GGT GGT GGT GGT GGT GGT GGT GGT GGG GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
39199842 GGTTCTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.72, T:0.28
Consensus pattern (3 bp):
GGT
Found at i:39203219 original size:3 final size:3
Alignment explanation
Indices: 39203211--39203283 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
39203201 AACTTGATCT
39203211 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39203259 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
39203284 ACATAAAATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:39203883 original size:2 final size:2
Alignment explanation
Indices: 39203876--39203933 Score: 68
Period size: 2 Copynumber: 30.5 Consensus size: 2
39203866 AACTTATGCT
* *
39203876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA GA TA -A TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
39203916 TA TA GA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA T
39203934 GATTAATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:39210634 original size:25 final size:25
Alignment explanation
Indices: 39210606--39210721 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
39210596 CGATACTTGG
39210606 CTCTCATGAGCTTCCCGATTAATGA
1 CTCTCATGAGCTTCCCGATTAATGA
* * * *
39210631 CTCTCTTGAGCTTCTC-ATTTATGG
1 CTCTCATGAGCTTCCCGATTAATGA
*
39210655 CTCGT-ATGAGCTTCCCGA-TAATTGT
1 CTC-TCATGAGCTTCCCGATTAA-TGA
* * **
39210680 CTCGCAAGAGCTTCCCG-TTATACAA
1 CTCTCATGAGCTTCCCGATTA-ATGA
*
39210705 CTCACATGAGCTTCCCG
1 CTCTCATGAGCTTCCCG
39210722 TTATACAACT
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
24 20 0.29
25 49 0.70
26 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATTAATGA
Done.