Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 167 of 335
Found at i:49345432 original size:9 final size:10
Alignment explanation
Indices: 49345410--49345440 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
49345400 TCAAAAAATG
49345410 TTTATAATTTT
1 TTTA-AATTTT
49345421 TTTAAATTTT
1 TTTAAATTTT
49345431 TTTAAATTTT
1 TTTAAATTTT
49345441 ATAGTGACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:49348813 original size:48 final size:48
Alignment explanation
Indices: 49348757--49348853 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
49348747 AAAATAAGTT
49348757 AAAAATTTTCTCATCTTCACCAAGTGCTAGCCAAAATTTCCAAGAGCC
1 AAAAATTTTCTCATCTTCACCAAGTGCTAGCCAAAATTTCCAAGAGCC
49348805 AAAAATTTTCTCATCTTCACCAAGTGCTAGCCAAAATTTCCAAGAGCC
1 AAAAATTTTCTCATCTTCACCAAGTGCTAGCCAAAATTTCCAAGAGCC
49348853 A
1 A
49348854 TAGCTAAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (48 bp):
AAAAATTTTCTCATCTTCACCAAGTGCTAGCCAAAATTTCCAAGAGCC
Found at i:49349799 original size:45 final size:45
Alignment explanation
Indices: 49349748--49349834 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
49349738 TATGTAATCT
* *
49349748 GAACTCATTTAGCTGTGGTCTGAGTTCATGATATATGTGACATTC
1 GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATTC
* *
49349793 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATATATGACA
1 GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACA
49349835 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (45 bp):
GAACTCATTGAGCTGTGGTCTGAGTTCATGATATATATGACATTC
Found at i:49352448 original size:40 final size:39
Alignment explanation
Indices: 49352411--49352600 Score: 190
Period size: 40 Copynumber: 4.7 Consensus size: 39
49352401 GGATATAGCT
*
49352411 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAGCCCGGTTATAGTA
*
49352451 ACTCGCACAAATGCCTTCGGGACTCAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACT-AGCCCGG-TTATAGTA
* *
49352491 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAGCCCGGTTA-TAGTA
* * *
49352530 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-C-TAGCCCGGTTATAGTA
* *
49352570 ACTTAGCACAAAAGCCTTCGGGACTTAGCCC
1 AC-TCGCACAAATGCCTTCGGGAC-TAGCCC
49352601 AGATATCATT
Statistics
Matches: 128, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 30 0.23
40 69 0.54
41 24 0.19
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAGCCCGGTTATAGTA
Found at i:49352562 original size:79 final size:80
Alignment explanation
Indices: 49352399--49352606 Score: 244
Period size: 79 Copynumber: 2.6 Consensus size: 80
49352389 CAGAATTTAA
* * *
49352399 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAAT
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
49352463 GCCTTCGGGACTCAAC
65 GCCTTCGGGACTCAAC
* *
49352479 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAAT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAAT
* **
49352542 GCCTTC-GGATCTTAGT
65 GCCTTCGGGA-CTCAAC
* * * *
49352558 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCAGATAT
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
49352607 CATTCGAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.04
79 48 0.44
80 44 0.41
81 11 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTCAAC
Found at i:49359634 original size:40 final size:40
Alignment explanation
Indices: 49359585--49359790 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
49359575 TTCAATTTAA
* *
49359585 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49359625 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTCAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49359665 CCGGAT-TA-TAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49359702 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49359742 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49359783 CCGGATAT
1 CCGGATAT
49359791 CATTCGAATA
Statistics
Matches: 142, Mismatches: 15, Indels: 17
0.82 0.09 0.10
Matches are distributed among these distances:
37 9 0.06
38 26 0.18
39 22 0.15
40 54 0.38
41 28 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49359746 original size:77 final size:81
Alignment explanation
Indices: 49359585--49359787 Score: 240
Period size: 77 Copynumber: 2.6 Consensus size: 81
49359575 TTCAATTTAA
* * *
49359585 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAA
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAA
49359648 TGCCTTCGGGACTCAAC
65 TGCCTTCGGGACTCAAC
*
49359665 CCGGAT-TA-TAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAAT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAT
* **
49359726 GCCTTC-GGATCTTAGT
66 GCCTTCGGGA-CTCAAC
* * *
49359742 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
49359788 TATCATTCGA
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
76 3 0.03
77 42 0.40
78 22 0.21
79 5 0.05
80 22 0.21
81 11 0.10
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (81 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAAT
GCCTTCGGGACTCAAC
Found at i:49361856 original size:27 final size:27
Alignment explanation
Indices: 49361823--49361893 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
49361813 CAGAGTTTGT
*
49361823 CACGAAGGCATTCCTTTCATAAATTTC
1 CACGAAGGCATTCCTTTCATAAATTAC
* * *
49361850 CATGAAGGCATTCCTTTCGTATATTAC
1 CACGAAGGCATTCCTTTCATAAATTAC
*
49361877 CACAAAGGCATTCCTTT
1 CACGAAGGCATTCCTTT
49361894 TATAGCGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (27 bp):
CACGAAGGCATTCCTTTCATAAATTAC
Found at i:49366192 original size:31 final size:30
Alignment explanation
Indices: 49366157--49366254 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 30
49366147 GATTGGCTCA
49366157 TTGGTATGCTTTGGTTTGGTAGAATATGATG
1 TTGGTATG-TTTGGTTTGGTAGAATATGATG
* *
49366188 TTGGTATTTGTGTTGGTACTT-GT-GGATGTGA-G
1 TTGGTA--TGT-TTGGT--TTGGTAGAATATGATG
49366220 TTTGGTATGATTTGGTTTGGTAGAATATGATG
1 -TTGGTATG-TTTGGTTTGGTAGAATATGATG
49366252 TTG
1 TTG
49366255 TAAGTATGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
29 2 0.04
30 2 0.04
31 22 0.42
32 4 0.08
33 19 0.36
34 2 0.04
35 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.47
Consensus pattern (30 bp):
TTGGTATGTTTGGTTTGGTAGAATATGATG
Found at i:49367353 original size:58 final size:58
Alignment explanation
Indices: 49367283--49367398 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
49367273 TAGATAAACG
49367283 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
1 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
49367341 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
1 TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
49367399 GTATGAGGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (58 bp):
TTTAATCTCGTTAAATGCGTAATGGATAATCATAGTCACATATTATTGGATTTTATCA
Found at i:49368911 original size:2 final size:2
Alignment explanation
Indices: 49368904--49368933 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49368894 TAATCACGTT
49368904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49368934 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49368981 original size:30 final size:30
Alignment explanation
Indices: 49368946--49369006 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49368936 AAAAATTATC
49368946 TATACATGATGAGTAACTATAAAGTAGAGA
1 TATACATGATGAGTAACTATAAAGTAGAGA
49368976 TATACATGATGAGTAACTATAAAGTAGAGA
1 TATACATGATGAGTAACTATAAAGTAGAGA
49369006 T
1 T
49369007 GCCAAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (30 bp):
TATACATGATGAGTAACTATAAAGTAGAGA
Found at i:49369645 original size:20 final size:21
Alignment explanation
Indices: 49369612--49369650 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49369602 GTCTTGCCCA
*
49369612 TTTTAAATATCTTTAATTATT
1 TTTTAAATAACTTTAATTATT
*
49369633 TTTTAAA-AACTTTCATTA
1 TTTTAAATAACTTTAATTA
49369651 AATTAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAATAACTTTAATTATT
Found at i:49371784 original size:35 final size:35
Alignment explanation
Indices: 49371743--49371814 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
49371733 TTTAGAGGTT
*
49371743 TAATTTCTCTTCTAGTTCTGTTTTTGGCGATAGAG
1 TAATTTCTCTTCTAGTTCTATTTTTGGCGATAGAG
49371778 TAATTTCTCTTCTAGTTCTATTTTTGGCGATAGAG
1 TAATTTCTCTTCTAGTTCTATTTTTGGCGATAGAG
49371813 TA
1 TA
49371815 TTGTGGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (35 bp):
TAATTTCTCTTCTAGTTCTATTTTTGGCGATAGAG
Found at i:49379395 original size:101 final size:101
Alignment explanation
Indices: 49379220--49379421 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
49379210 ACAGTTTTAA
49379220 TATTCTTAACAGAAGAGTCCCTAGAATCGGAAATACTAATGTAGGCCAATAATGCCCCACACCCT
1 TATTCTTAACAGAAGAGTCCCTAGAATCGGAAATACTAATGTAGGCCAATAATGCCCCACACCCT
49379285 TTCCGAACCAACTTTTCCACTACCAAAGATGAGATC
66 TTCCGAACCAACTTTTCCACTACCAAAGATGAGATC
49379321 TATTCTTAACAGAAGAGTCCCTAGAATCGGAAATACTAATGTAGGCCAATAATGCCCCACACCCT
1 TATTCTTAACAGAAGAGTCCCTAGAATCGGAAATACTAATGTAGGCCAATAATGCCCCACACCCT
49379386 TTCCGAACCAACTTTTCCACTACCAAAGATGAGATC
66 TTCCGAACCAACTTTTCCACTACCAAAGATGAGATC
49379422 ACATTAGTCA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (101 bp):
TATTCTTAACAGAAGAGTCCCTAGAATCGGAAATACTAATGTAGGCCAATAATGCCCCACACCCT
TTCCGAACCAACTTTTCCACTACCAAAGATGAGATC
Found at i:49386467 original size:39 final size:40
Alignment explanation
Indices: 49386333--49386470 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
49386323 AGATATAACG
* * * **
49386333 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
* *
49386373 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
49386413 ACTTGCAC-AAAGCCTTCGGGA-TTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
49386451 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
49386471 ATCCTAGTCC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 21 0.25
39 22 0.27
40 36 0.43
41 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:49386507 original size:40 final size:37
Alignment explanation
Indices: 49386358--49386519 Score: 117
Period size: 40 Copynumber: 4.1 Consensus size: 37
49386348 TTCGGGACGA
* ** *
49386358 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
49386398 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
49386436 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
49386476 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGAGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTCG-GA-TT
49386516 AGCC
1 AGCC
49386520 TGGACATCAT
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.26
39 20 0.20
40 46 0.47
41 6 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:49388921 original size:22 final size:22
Alignment explanation
Indices: 49388893--49388938 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
49388883 ATATGAATAA
*
49388893 TTAATTCTTCGTATACATCTAT
1 TTAATTCTTCATATACATCTAT
49388915 TTAATTCTTCATATACATCTAT
1 TTAATTCTTCATATACATCTAT
49388937 TT
1 TT
49388939 TAATGGGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.52
Consensus pattern (22 bp):
TTAATTCTTCATATACATCTAT
Found at i:49392771 original size:46 final size:47
Alignment explanation
Indices: 49392711--49393074 Score: 428
Period size: 46 Copynumber: 8.0 Consensus size: 47
49392701 TTTGACATGA
* * * * * * *
49392711 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
** * *
49392757 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
*** * * * *
49392803 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGT-T-ATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCATATCAGGC
*
49392849 TGCCATGGTATCTTTCAACCATAGTCTT--ACATGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTTCATATCAGGC
*
49392895 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
*
49392940 TGCC-TGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
*
49392985 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
49393031 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
49393075 AGAGCACACT
Statistics
Matches: 286, Mismatches: 21, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
44 44 0.15
45 15 0.05
46 220 0.77
47 3 0.01
48 4 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGC
Found at i:49392868 original size:92 final size:92
Alignment explanation
Indices: 49392711--49393074 Score: 491
Period size: 92 Copynumber: 4.0 Consensus size: 92
49392701 TTTGACATGA
* * * * *
49392711 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCTTTCAA
** * *
49392775 CCATGGTCTTATTCATTTCATGTCACGC
65 CCATGGTCTTACACATTTCATATCAGGC
*** *** *
49392803 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTTATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* **
49392868 CATAGTCTTACATGTTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
* *
49392895 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCA-GGTGCC-TGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
49392958 CATGGTCTTACACGTTTCATATCAGGC
66 CATGGTCTTACACATTTCATATCAGGC
*
49392985 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
49393050 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
49393075 AGAGCACACT
Statistics
Matches: 241, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
90 81 0.34
91 14 0.06
92 146 0.61
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGC
Found at i:49392976 original size:21 final size:21
Alignment explanation
Indices: 49392907--49392976 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
49392897 CCATGGTATC
49392907 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
* *
49392928 TTTCATATCA-GGTGCCTGGTA-TC-
1 TTTCA-ACCATGGT--CT--TACACG
49392951 TTTCAACCATGGTCTTACACG
1 TTTCAACCATGGTCTTACACG
49392972 TTTCA
1 TTTCA
49392977 TATCAGGCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 15 0.41
22 6 0.16
23 10 0.27
24 1 0.03
25 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACG
Found at i:49393005 original size:136 final size:137
Alignment explanation
Indices: 49392711--49393074 Score: 453
Period size: 136 Copynumber: 2.7 Consensus size: 137
49392701 TTTGACATGA
* * * * * * * *
49392711 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAA
** * ***
49392775 CCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTC
65 CCATGGTCTTACACATTTCATATCA-GCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
* * * * *
49392840 CCGTTATGT
129 ACATCAGGC
**
49392849 TGCCATGGTATCTTTCAACCATAGTCTTACATGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
* * * *
49392914 CATGGTCTTACACGTTTCATATCAGGTGCC-TGGTATCTTTCAACCATGGTCTTACACGTTTCAT
66 CATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAC
49392978 ATCAGGC
131 ATCAGGC
* *
49392985 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
49393050 CATGGTCTTACACATTTCATATCAG
66 CATGGTCTTACACATTTCATATCAG
49393075 AGAGCACACT
Statistics
Matches: 195, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
136 116 0.59
137 9 0.05
138 70 0.36
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (137 bp):
TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAC
ATCAGGC
Found at i:49393104 original size:136 final size:133
Alignment explanation
Indices: 49392849--49393105 Score: 329
Period size: 136 Copynumber: 1.9 Consensus size: 133
49392839 CCCGTTATGT
**
49392849 TGCCATGGTATCTTTCAACCATAGTCTTACATGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
* * *** **
49392914 CATGGTCTTACACGTTTCATATCAGGTGCCTGGTATCTTTCAACCATGGTCTTACACGTTTCATA
66 CATGGTCTTACACATTTCATATCAGGAGCC--G-ATCCCGCAACCATCATCTTACACGTTTCATA
49392979 TCAGGC
128 TCAGGC
* *
49392985 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
49393050 CATGGTCTTACACATTTCATATCAGAGAGCAC-ACTCCCGCGAACC-TCATCCTTACA
66 CATGGTCTTACACATTTCATATCAG-GAGC-CGA-TCCCGC-AACCATCAT-CTTACA
49393106 GTGGGATTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
134 1 0.01
135 5 0.05
136 95 0.90
137 3 0.03
138 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (133 bp):
TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGGAGCCGATCCCGCAACCATCATCTTACACGTTTCATATCA
GGC
Found at i:49395228 original size:11 final size:11
Alignment explanation
Indices: 49395212--49395249 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49395202 ACTAAATAAT
49395212 TAATAATAAAA
1 TAATAATAAAA
49395223 TAATAATAAAA
1 TAATAATAAAA
*
49395234 T-ATCATTAAAA
1 TAAT-AATAAAA
49395245 TAATA
1 TAATA
49395250 TATATCTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:49409994 original size:20 final size:20
Alignment explanation
Indices: 49409956--49409994 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49409946 ATATTTTTTT
*
49409956 AACTTTTTGAGTTTATAACA
1 AACTTTTTGACTTTATAACA
49409976 AACTTTCTTGACTTT-TAAC
1 AACTTT-TTGACTTTATAAC
49409995 TTTTTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (20 bp):
AACTTTTTGACTTTATAACA
Found at i:49415226 original size:28 final size:29
Alignment explanation
Indices: 49415194--49415248 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
49415184 TAATTTTCTC
49415194 ATAAAAATAT-TAAA-AAATCAGAAAAACA
1 ATAAAAATATATAAACAAATCA-AAAAACA
49415222 ATAAAAATATATAAACAAATCAAAAAA
1 ATAAAAATATATAAACAAATCAAAAAA
49415249 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 10 0.40
29 9 0.36
30 6 0.24
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (29 bp):
ATAAAAATATATAAACAAATCAAAAAACA
Found at i:49415296 original size:19 final size:18
Alignment explanation
Indices: 49415262--49415310 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
49415252 TATTAAATAC
*
49415262 TAAAATTTATATAAACTTA
1 TAAAA-TTATAAAAACTTA
49415281 TTAAAATTATAAAAACTTA
1 -TAAAATTATAAAAACTTA
49415300 TAAATATTATA
1 TAAA-ATTATA
49415311 TATAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTATAAAAACTTA
Found at i:49422654 original size:15 final size:15
Alignment explanation
Indices: 49422624--49422665 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
49422614 CACACATAAT
49422624 GAGGGAGAGAGAGGGG
1 GAGGG-GAGAGAGGGG
*
49422640 GAGGGGAGGGAGGGG
1 GAGGGGAGAGAGGGG
*
49422655 GGGGGGAGAGA
1 GAGGGGAGAGA
49422666 TTTTGAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (15 bp):
GAGGGGAGAGAGGGG
Found at i:49424630 original size:5 final size:5
Alignment explanation
Indices: 49424616--49424648 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
49424606 TTGCTTGGGA
*
49424616 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
49424649 ATCGCAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:49425255 original size:20 final size:21
Alignment explanation
Indices: 49425222--49425262 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
49425212 AATTTAATTT
49425222 TTTTCTTTTATATTCTTTTAA
1 TTTTCTTTTATATTCTTTTAA
*
49425243 TTTT-TTTTCTATTCTTTTAA
1 TTTTCTTTTATATTCTTTTAA
49425263 GCTTCTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCTTTTATATTCTTTTAA
Found at i:49425862 original size:26 final size:26
Alignment explanation
Indices: 49425826--49425878 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
49425816 AGAAATAAAT
* *
49425826 TTAAATAATATTTAATTTTATGATAA
1 TTAAATAATATATAATTTTATAATAA
* *
49425852 TTAAATCATATATAGTTTTATAATAA
1 TTAAATAATATATAATTTTATAATAA
49425878 T
1 T
49425879 ACTATTTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TTAAATAATATATAATTTTATAATAA
Found at i:49426837 original size:10 final size:10
Alignment explanation
Indices: 49426824--49426884 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
49426814 AAAAGCCTTC
49426824 AAAATTATAA
1 AAAATTATAA
* *
49426834 AAAAATATTA
1 AAAATTATAA
* *
49426844 GAAATTATTTA
1 AAAATTA-TAA
*
49426855 AAAATTTTAA
1 AAAATTATAA
49426865 AAAATATATAA
1 AAAAT-TATAA
*
49426876 AAATTTATA
1 AAAATTATA
49426885 GTGAAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 24 0.60
11 16 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
AAAATTATAA
Found at i:49426880 original size:20 final size:20
Alignment explanation
Indices: 49426824--49426881 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
49426814 AAAAGCCTTC
* *
49426824 AAAATTATAAAAAAATATTA
1 AAAATTATATAAAAATTTTA
* *
49426844 GAAATTATTTAAAAATTTTA
1 AAAATTATATAAAAATTTTA
*
49426864 AAAAATATATAAAAATTT
1 AAAATTATATAAAAATTT
49426882 ATAGTGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTATATAAAAATTTTA
Found at i:49430305 original size:41 final size:41
Alignment explanation
Indices: 49430134--49430315 Score: 183
Period size: 41 Copynumber: 4.5 Consensus size: 41
49430124 GGGTTTAAAT
49430134 CCGGGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGGGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
** * *
49430175 CCGAACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCATAA
1 CCGGGCTTGGTTTCGAAGGGCCTTT-GAGCCAGTGCTAATAA
* * * *
49430215 CCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGGGCTTGGTTTCGAAGGGCCTTTGAGCCAGT-G-CTAATAA
* * * *
49430256 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAA
1 CCGGGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
* *
49430297 TCGGGCTTGATTTCGAAGG
1 CCGGGCTTGGTTTCGAAGG
49430316 ATGTTTGTGC
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.04
40 36 0.32
41 71 0.62
43 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (41 bp):
CCGGGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
Found at i:49433426 original size:25 final size:24
Alignment explanation
Indices: 49433398--49433445 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
49433388 CTCGTGTACT
49433398 CTTATAA-CATATAATCCATGTAAAC
1 CTTATAACCATATAA--CATGTAAAC
49433423 CTTATAATCCATATAACATGTAA
1 CTTATAA-CCATATAACATGTAA
49433446 TTCATGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (24 bp):
CTTATAACCATATAACATGTAAAC
Found at i:49433660 original size:22 final size:23
Alignment explanation
Indices: 49433633--49433756 Score: 89
Period size: 22 Copynumber: 5.5 Consensus size: 23
49433623 CTGAGCCGAT
*
49433633 AAACGGTAAGCTCAATTGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
* * *
49433656 -AACGGCAGGCTCCATAGAGCTG
1 AAACGGTAAGCTCAATAGAGCTG
*
49433678 AAACGGTAAGCCCCTAA-AGA-CTG
1 AAACGGTAAG-CTC-AATAGAGCTG
* *
49433701 AAATGGTAAGCTCCAA-AGAGTTG
1 AAACGGTAAGCT-CAATAGAGCTG
* *
49433724 -AACGATAAGCTC-ATAAGAGTTG
1 AAACGGTAAGCTCAAT-AGAGCTG
49433746 AAACGGTAAGC
1 AAACGGTAAGC
49433757 CCATACGAGC
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 40 0.51
23 31 0.39
24 5 0.06
25 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (23 bp):
AAACGGTAAGCTCAATAGAGCTG
Found at i:49433761 original size:23 final size:23
Alignment explanation
Indices: 49433633--49433768 Score: 95
Period size: 23 Copynumber: 6.0 Consensus size: 23
49433623 CTGAGCCGAT
* *
49433633 AAACGGTAAGCTCA-ATTGAGCTG
1 AAACGGTAAGCCCATA-AGAGCTG
* *
49433656 -AACGGCAGGCTCCAT-AGAGCTG
1 AAACGGTAAGC-CCATAAGAGCTG
*
49433678 AAACGGTAAGCCCCTAA-AGACTG
1 AAACGGTAAGCCCATAAGAG-CTG
* *
49433701 AAATGGTAAGCTCCA-AAGAGTTG
1 AAACGGTAAGC-CCATAAGAGCTG
* * *
49433724 -AACGATAAGCTCATAAGAGTTG
1 AAACGGTAAGCCCATAAGAGCTG
*
49433746 AAACGGTAAGCCCATACGAGCTG
1 AAACGGTAAGCCCATAAGAGCTG
49433769 TGGTGAGTCT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 2 0.02
22 35 0.40
23 46 0.53
24 4 0.05
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.18
Consensus pattern (23 bp):
AAACGGTAAGCCCATAAGAGCTG
Found at i:49441076 original size:25 final size:24
Alignment explanation
Indices: 49441048--49441095 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
49441038 CTCATGTACT
49441048 CTTATAA-CATATAATCCATGTAAAC
1 CTTATAACCATATAA--CATGTAAAC
49441073 CTTATAATCCATATAACATGTAA
1 CTTATAA-CCATATAACATGTAA
49441096 TTCATGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.67
27 7 0.33
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (24 bp):
CTTATAACCATATAACATGTAAAC
Found at i:49441407 original size:23 final size:22
Alignment explanation
Indices: 49441351--49441409 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
49441341 CTAAGGATTG
**
49441351 GAACGGTAAGCTCCGAAGAGCT
1 GAACGGTAAGCTTAGAAGAGCT
*
49441373 GAATGGTAAGCTTAGAAGAGCT
1 GAACGGTAAGCTTAGAAGAGCT
49441395 GAAACGGTAAGCTTA
1 G-AACGGTAAGCTTA
49441410 TACGACCTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.36, C:0.15, G:0.31, T:0.19
Consensus pattern (22 bp):
GAACGGTAAGCTTAGAAGAGCT
Found at i:49443432 original size:43 final size:43
Alignment explanation
Indices: 49443369--49443485 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
49443359 AGGGGTGTTA
* * *
49443369 TAAGAATCGCTGCAAAAGATCATGTTCTTTAGTGG-TATTTGTAG
1 TAAGAAT-GCCGCTAAAGATCATGTTCTTTAGTGGCGA-TTGTAG
* *
49443413 TAAGAATGCCGCTAAAGATCATATTCTTTAGTGGCGATTGTGG
1 TAAGAATGCCGCTAAAGATCATGTTCTTTAGTGGCGATTGTAG
49443456 TAA-AAGTGCCGCTAAAGATCATGTTCTTTA
1 TAAGAA-TGCCGCTAAAGATCATGTTCTTTA
49443486 ACTGTGTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
42 2 0.03
43 55 0.85
44 8 0.12
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
TAAGAATGCCGCTAAAGATCATGTTCTTTAGTGGCGATTGTAG
Found at i:49443497 original size:43 final size:43
Alignment explanation
Indices: 49443383--49443513 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 43
49443373 AATCGCTGCA
* *
49443383 AAAGATCATGTTCTTTAGTGGTATTTGTAGTAAGAA-TGCCGCT
1 AAAGATCATGTTCTTTAGTGGTGTTTGTGGTAA-AAGTGCCGCT
* * *
49443426 AAAGATCATATTCTTTAGTGGCGATTGTGGTAAAAGTGCCGCT
1 AAAGATCATGTTCTTTAGTGGTGTTTGTGGTAAAAGTGCCGCT
* * *
49443469 AAAGATCATGTTCTTTAACT-GTGTTTGTGGGAAAAGCGCCGCT
1 AAAGATCATGTTCTTT-AGTGGTGTTTGTGGTAAAAGTGCCGCT
49443512 AA
1 AA
49443514 CATTAACAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
42 2 0.03
43 71 0.95
44 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGTGGTGTTTGTGGTAAAAGTGCCGCT
Found at i:49446708 original size:49 final size:49
Alignment explanation
Indices: 49446652--49446889 Score: 320
Period size: 49 Copynumber: 5.1 Consensus size: 49
49446642 TACATATATG
* * * *
49446652 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
49446701 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
49446750 TGTGATGAGGCCTAATGGCCGA--TG-TG-A--TG--A----ATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
49446787 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
49446836 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
49446885 TGTGA
1 TGTGA
49446890 CCGATGTGGT
Statistics
Matches: 172, Mismatches: 5, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
37 29 0.17
39 2 0.01
40 2 0.01
41 2 0.01
43 4 0.02
45 2 0.01
46 2 0.01
47 2 0.01
49 127 0.74
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:49446785 original size:37 final size:37
Alignment explanation
Indices: 49446743--49446820 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
49446733 GTGAAAGTGG
49446743 ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
*
49446780 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGA
1 ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
49446817 ATGT
1 ATGT
49446821 GAAAGTGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (37 bp):
ATGTATATGTGATGAGGCCTAATGGCCGATGTGATGA
Found at i:49446839 original size:86 final size:85
Alignment explanation
Indices: 49446694--49446939 Score: 356
Period size: 86 Copynumber: 2.9 Consensus size: 85
49446684 GTGAAAGTGT
* *
49446694 ATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAG
1 ATGTATATGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAG
49446759 GCCTAATGGCCGATGTGATGA
65 GCCTAATGGCCGATGTGATGA
49446780 ATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAG
1 ATGTATATGTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAG
*
49446845 GCCTAATGGCCGATGTGGTGA
65 GCCTAATGGCCGATGTGATGA
* *
49446866 ATGTGA-AAGTG-TATG--TATATGTGACCGATGTGGTGAATGTGAAAGTGTATGTATATGTGAT
1 ATGT-ATATGTGATAGGCCTA-ATG-G-CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGAT
*
49446927 AAGGCCTAATGGC
62 GAGGCCTAATGGC
49446940 TAATGTAAAA
Statistics
Matches: 149, Mismatches: 7, Indels: 9
0.90 0.04 0.05
Matches are distributed among these distances:
82 2 0.01
83 3 0.02
84 3 0.02
85 50 0.34
86 90 0.60
87 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (85 bp):
ATGTATATGTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGG
CCTAATGGCCGATGTGATGA
Found at i:49446889 original size:18 final size:18
Alignment explanation
Indices: 49446866--49446925 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
49446856 GATGTGGTGA
49446866 ATGTGAAAGTGTATGTAT
1 ATGTGAAAGTGTATGTAT
** *
49446884 ATGTGACCGATGT-GGTGA-
1 ATGTGAAAG-TGTATGT-AT
49446902 ATGTGAAAGTGTATGTAT
1 ATGTGAAAGTGTATGTAT
49446920 ATGTGA
1 ATGTGA
49446926 TAAGGCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 24 0.75
19 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.32, T:0.35
Consensus pattern (18 bp):
ATGTGAAAGTGTATGTAT
Found at i:49446894 original size:36 final size:36
Alignment explanation
Indices: 49446854--49446925 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
49446844 GGCCTAATGG
49446854 CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
1 CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
49446890 CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
1 CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
49446926 TAAGGCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.33
Consensus pattern (36 bp):
CCGATGTGGTGAATGTGAAAGTGTATGTATATGTGA
Found at i:49447091 original size:37 final size:37
Alignment explanation
Indices: 49447041--49447125 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
49447031 GGAATATGTT
*
49447041 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
49447078 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
49447115 CCGGGTAAGAC
1 CCGGGTAAGAC
49447126 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:49449021 original size:40 final size:40
Alignment explanation
Indices: 49448939--49449023 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
49448929 GAGAATTGAG
** * * *
49448939 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
* *
49448979 AGTGATGTATCCGGGCTAGGCCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
49449019 AGTGA
1 AGTGA
49449024 CGTGTATTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
Found at i:49449263 original size:29 final size:29
Alignment explanation
Indices: 49449221--49449383 Score: 301
Period size: 29 Copynumber: 5.7 Consensus size: 29
49449211 GCGAATGATT
49449221 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
49449250 GAGGCACTATGTGTGCGAGATCAGTAAT-
1 GAGGCACTATGTGTGCGAGATCAGTAATC
49449278 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
49449307 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
49449336 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
49449365 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
49449384 TTTTTCAACA
Statistics
Matches: 131, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
28 28 0.21
29 103 0.79
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:49449291 original size:57 final size:57
Alignment explanation
Indices: 49449220--49449383 Score: 301
Period size: 57 Copynumber: 2.9 Consensus size: 57
49449210 TGCGAATGAT
49449220 TGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA
1 TGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA
49449277 TGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA
1 TGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA
* *
49449334 TCGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAG
1 T-GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAG
49449384 TTTTTCAACA
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
57 58 0.56
58 46 0.44
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA
Found at i:49449334 original size:86 final size:87
Alignment explanation
Indices: 49449221--49449383 Score: 310
Period size: 86 Copynumber: 1.9 Consensus size: 87
49449211 GCGAATGATT
49449221 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAA-TGAGGCAC
1 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
49449285 TATGTGTGCGAGATCAGTAATC
66 TATGTGTGCGAGATCAGTAATC
49449307 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
1 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
*
49449372 TGTGTGTGCGAG
66 TATGTGTGCGAG
49449384 TTTTTCAACA
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
86 56 0.75
87 19 0.25
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (87 bp):
GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
TATGTGTGCGAGATCAGTAATC
Found at i:49449965 original size:40 final size:41
Alignment explanation
Indices: 49449867--49449965 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
49449857 TTCGAATGGT
* ** * *
49449867 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
49449908 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
49449949 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
49449966 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:49452740 original size:49 final size:49
Alignment explanation
Indices: 49452684--49452921 Score: 345
Period size: 49 Copynumber: 5.1 Consensus size: 49
49452674 TACATATATG
* * * *
49452684 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
49452733 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
49452781 TGTGATGAGGCCTAATGGCCGA--TG-TG-A--TG-AA-TG--TGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
49452820 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
49452869 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
49452918 TGTG
1 TGTG
49452922 CCGATGTGGT
Statistics
Matches: 174, Mismatches: 5, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
39 28 0.16
40 2 0.01
41 4 0.02
42 4 0.02
43 1 0.01
44 1 0.01
45 4 0.02
46 4 0.02
47 2 0.01
48 28 0.16
49 96 0.55
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:49452806 original size:39 final size:39
Alignment explanation
Indices: 49452763--49452894 Score: 142
Period size: 39 Copynumber: 3.1 Consensus size: 39
49452753 GATGTGATGA
49452763 ATGTGAAAGTGATGTATATGTGATGAGGCCTAATGGCCG
1 ATGTGAAAGTGATGTATATGTGATGAGGCCTAATGGCCG
49452802 ATGTGATGAA-TG-TGTATATGTGATGAGGCCTAATGGCCGATGTGATG
1 ATGTGA--AAGTGATGTATATGTGATGAGGCCTAATGGCC--------G
49452849 AATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCG
1 -ATGTGAAAGTG-ATGTATATGTGATGAGGCCTAATGGCCG
49452890 ATGTG
1 ATGTG
49452895 GTGAATGTGA
Statistics
Matches: 79, Mismatches: 0, Indels: 27
0.75 0.00 0.25
Matches are distributed among these distances:
39 32 0.41
40 7 0.09
41 3 0.04
46 2 0.03
47 3 0.04
48 6 0.08
49 26 0.33
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.30
Consensus pattern (39 bp):
ATGTGAAAGTGATGTATATGTGATGAGGCCTAATGGCCG
Found at i:49452926 original size:35 final size:35
Alignment explanation
Indices: 49452886--49452956 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
49452876 AGGCCTAATG
49452886 GCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
1 GCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
49452921 GCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
1 GCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
49452956 G
1 G
49452957 ATAAGGCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.06, G:0.35, T:0.34
Consensus pattern (35 bp):
GCCGATGTGGTGAATGTGAAAGTGTATGTATATGT
Found at i:49452968 original size:84 final size:87
Alignment explanation
Indices: 49452727--49452971 Score: 349
Period size: 84 Copynumber: 2.8 Consensus size: 87
49452717 TGAAAGTGTA
* *
49452727 TGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATATGTGATGAGG
1 TGTATAAGTGATGAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGG
49452791 CCTAATGGCCGATGTGATGAATG
65 CCTAATGGCCGATGTGATGAATG
*
49452814 TGTATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGG
1 TGTATAAGTGATGAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGG
*
49452879 CCTAATGGCCGATGTGGTGAATG
65 CCTAATGGCCGATGTGATGAATG
* * *
49452902 TG-A-AAGTG-T-ATG-TATATGTGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
1 TGTATAAGTGATGAGGCTA-ATG-GCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAG
49452962 GCCTAATGGC
64 GCCTAATGGC
49452972 TAATGTAAAA
Statistics
Matches: 149, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
82 2 0.01
83 3 0.02
84 51 0.34
85 1 0.01
86 4 0.03
87 47 0.32
88 41 0.28
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.31
Consensus pattern (87 bp):
TGTATAAGTGATGAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGC
CTAATGGCCGATGTGATGAATG
Found at i:49453123 original size:37 final size:37
Alignment explanation
Indices: 49453073--49453157 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
49453063 GGAATATGTT
*
49453073 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
49453110 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
49453147 CCGGGTAAGAC
1 CCGGGTAAGAC
49453158 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:49455087 original size:11 final size:12
Alignment explanation
Indices: 49455071--49455099 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49455061 TCGTCTCTCG
49455071 CACACGG-CAGC
1 CACACGGCCAGC
49455082 CACACGGCCAGC
1 CACACGGCCAGC
49455094 CACACG
1 CACACG
49455100 CCCGTGTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.28, C:0.48, G:0.24, T:0.00
Consensus pattern (12 bp):
CACACGGCCAGC
Found at i:49458176 original size:56 final size:56
Alignment explanation
Indices: 49458110--49458221 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
49458100 GATGAATAGA
49458110 ATTTTTAGCCCTTATTTAGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGGT
1 ATTTTTAGCCCTTATTTAGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGGT
49458166 ATTTTTAGCCCTTATTTAGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGGT
1 ATTTTTAGCCCTTATTTAGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGGT
49458222 TTACTCTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.23, C:0.07, G:0.21, T:0.48
Consensus pattern (56 bp):
ATTTTTAGCCCTTATTTAGACAAGTTTGTGGTGGTATTTATAGATGATATTTTGGT
Found at i:49460657 original size:28 final size:28
Alignment explanation
Indices: 49460625--49460723 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
49460615 GCAATAAGCC
*
49460625 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
49460653 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
49460681 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
49460710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49460724 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:49468338 original size:28 final size:28
Alignment explanation
Indices: 49468306--49468404 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
49468296 GCAATAAGCC
*
49468306 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
49468334 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
49468362 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
49468391 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49468405 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:49478499 original size:140 final size:139
Alignment explanation
Indices: 49478247--49478506 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 139
49478237 TTGCCGATGC
* * * *
49478247 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGTTGATGCATGTGCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCACTCATATAT-CGTGCTGAAGCATGTCCCAGACATGT
* * * *
49478312 CTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGATACGTCTTACACTGGCTACCTCTGTC
65 CTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAAACACGTCTTACACTGGCTACCTCTGTC
49478377 GAGGATAATT
130 GAGGATAATT
*
49478387 CATGTCCCAGACAT-GTCTTACTCTGGCACTCATAATAT-G-GCTGAAGCATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCACTCAT-ATATCGTGCTGAAGCATGTCCCAGACATGT
** *
49478449 CTTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAAACATGTCTTACACTGGC
65 CTTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAAACACGTCTTACACTGGC
49478507 GCACAAATCA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
136 2 0.02
137 34 0.33
138 2 0.02
139 24 0.23
140 41 0.40
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (139 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCATATATCGTGCTGAAGCATGTCCCAGACATGTC
TTACACTAGCACAACTCTGAGCCGATGCATGTCCCAAACACGTCTTACACTGGCTACCTCTGTCG
AGGATAATT
Found at i:49478885 original size:30 final size:30
Alignment explanation
Indices: 49478844--49478901 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
49478834 AAATTCATAA
* *
49478844 CTTTGGTAAAATGACCATTTTGCCCCTAGG
1 CTTTGGCAAAATGACCATTTTACCCCTAGG
49478874 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
49478902 TGCCCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGG
Found at i:49480416 original size:13 final size:13
Alignment explanation
Indices: 49480398--49480424 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49480388 TCACTTGAAG
49480398 CCATCGCTTCATA
1 CCATCGCTTCATA
49480411 CCATCGCTTCATA
1 CCATCGCTTCATA
49480424 C
1 C
49480425 TCTGCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (13 bp):
CCATCGCTTCATA
Found at i:49499420 original size:19 final size:19
Alignment explanation
Indices: 49499384--49499426 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
49499374 CCATTTTGCA
49499384 TAAATTGTAAAATAAGTGG
1 TAAATTGTAAAATAAGTGG
*
49499403 TAAATGTGTGAAAT-AGTGG
1 TAAAT-TGTAAAATAAGTGG
49499422 -AAATT
1 TAAATT
49499427 TGGGGTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 4 0.18
19 10 0.45
20 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
TAAATTGTAAAATAAGTGG
Found at i:49499998 original size:46 final size:47
Alignment explanation
Indices: 49499852--49500170 Score: 253
Period size: 46 Copynumber: 6.7 Consensus size: 47
49499842 GGGTTATTGT
* * * * *
49499852 GAGCTAGTGTAAGA-CATGTTTGGGACATGCATCAGTCAC-ATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * *
49499898 GAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGATGA
49499946 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATG-A
* * * * *
49499993 -AGCTAGTGTAAGA-TATGTCTAGGACATGCATC-GACTACAAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGA
* * *
49500038 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGGTATGCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG-AT--GA
* * * * *
49500086 GAGCTAGAGTAATACCATGTCTGAGACATGGCGTCAGCCTCGATGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA-GATGA
* *
49500135 TAG-TCAGTGTAAGACCAGGTCTGGGACATGGCATCG
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCG
49500171 ACTCTCTACC
Statistics
Matches: 218, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 71 0.33
47 31 0.14
48 25 0.11
49 31 0.14
50 27 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:49521888 original size:40 final size:39
Alignment explanation
Indices: 49521768--49521953 Score: 153
Period size: 40 Copynumber: 4.7 Consensus size: 39
49521758 GCTACTCGTT
* * *
49521768 CAAATGCCTTCGGGACATAGCCCGG-TTATGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTA-GTCACCAGCA
* * *
49521807 CAAAGGCCTTCGGGACTTAACCCGGATT--TCACAATTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTCACCA---GCA
* *
49521847 CAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTCACCAGCA
* * * * * *
49521887 CAATTGCCTTCGGGTCTTAACCCAGATGTAATTACCAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTCACCAGCA
* *
49521927 TAAATGTCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
49521954 ATCATTCAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
37 3 0.03
39 22 0.19
40 87 0.74
41 1 0.01
43 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTCACCAGCA
Found at i:49524367 original size:47 final size:44
Alignment explanation
Indices: 49524249--49524423 Score: 149
Period size: 47 Copynumber: 3.8 Consensus size: 44
49524239 GGGTTATCGT
* * *
49524249 GAGCTAATGTAAGACACGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G-CACATTATCA
49524295 GAGCTAGTGTAAGACTATGTCTGGGACATGGCATCG-ACATTGAGTCA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGCACATT-A-TCA
* * *
49524342 GGAGCTAGTGTAAGACATGTTTGGGACATTGCATCGGCCTCGA-TATGTA
1 -GAGCTAGTGTAAGACATGTCTGGGACA-TGCATC-G-CAC-ATTAT-CA
* *
49524391 -AGCTAGTGTAAAACATGCCTGGGACATGCATCG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG
49524424 GCTACGAGAT
Statistics
Matches: 109, Mismatches: 9, Indels: 23
0.77 0.06 0.16
Matches are distributed among these distances:
45 6 0.06
46 21 0.19
47 54 0.50
48 23 0.21
49 2 0.02
50 2 0.02
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCACATTATCA
Found at i:49524413 original size:94 final size:93
Alignment explanation
Indices: 49524249--49524423 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 93
49524239 GGGTTATCGT
*
49524249 GAGCTAATGTAAGACACGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAGACTATG
1 GAGCTAATGTAAGACACGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAAACTATG
*
49524314 TCTGGGACATGGCATCGACATTGAGTCAG
66 CCTGGGACAT-GCATCGACATTGAGTCAG
* * * *
49524343 GAGCTAGTGTAAGACATGTTTGGGACATTGCATCGGCCTCGA-TATGTA-AGCTAGTGTAAAAC-
1 GAGCTAATGTAAGACACGTCTGGGACA-TGCATCGGCCAC-ATTATG-AGAGCTAGTGTAAAACT
49524405 ATGCCTGGGACATGCATCG
63 ATGCCTGGGACATGCATCG
49524424 GCTACGAGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
93 6 0.08
94 36 0.50
95 28 0.39
96 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
GAGCTAATGTAAGACACGTCTGGGACATGCATCGGCCACATTATGAGAGCTAGTGTAAAACTATG
CCTGGGACATGCATCGACATTGAGTCAG
Found at i:49529454 original size:52 final size:52
Alignment explanation
Indices: 49529372--49529472 Score: 159
Period size: 52 Copynumber: 1.9 Consensus size: 52
49529362 GGTGGTATTT
* *
49529372 TTTTGTGGACCCGTCAATCATATCAGCAAAGTTAACTATCAAACTAATCAAA
1 TTTTGTGGACCCATCAATCATATCAACAAAGTTAACTATCAAACTAATCAAA
*
49529424 TTTTGT-GACCTCATCAATCATATCAACAAAGTTAACTATCAACCTAATC
1 TTTTGTGGACC-CATCAATCATATCAACAAAGTTAACTATCAAACTAATC
49529473 GACTAATGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 4 0.09
52 41 0.91
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.31
Consensus pattern (52 bp):
TTTTGTGGACCCATCAATCATATCAACAAAGTTAACTATCAAACTAATCAAA
Found at i:49533929 original size:22 final size:22
Alignment explanation
Indices: 49533901--49533945 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
49533891 CTCATAACTT
49533901 ATTGAGCATTGGACATTGAATG
1 ATTGAGCATTGGACATTGAATG
*
49533923 ATTGAGCATTGGACATTTAATG
1 ATTGAGCATTGGACATTGAATG
49533945 A
1 A
49533946 CTAGTGGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (22 bp):
ATTGAGCATTGGACATTGAATG
Found at i:49534525 original size:49 final size:49
Alignment explanation
Indices: 49534453--49534560 Score: 207
Period size: 49 Copynumber: 2.2 Consensus size: 49
49534443 TTTAAGGCAT
*
49534453 TGGTGGAGAAGCAAAGTGGGAGAGGCATAAAAGCACTTCGAATTGATCG
1 TGGTGGTGAAGCAAAGTGGGAGAGGCATAAAAGCACTTCGAATTGATCG
49534502 TGGTGGTGAAGCAAAGTGGGAGAGGCATAAAAGCACTTCGAATTGATCG
1 TGGTGGTGAAGCAAAGTGGGAGAGGCATAAAAGCACTTCGAATTGATCG
49534551 TGGTGGTGAA
1 TGGTGGTGAA
49534561 CTTTTATCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.20
Consensus pattern (49 bp):
TGGTGGTGAAGCAAAGTGGGAGAGGCATAAAAGCACTTCGAATTGATCG
Found at i:49537177 original size:28 final size:28
Alignment explanation
Indices: 49537137--49537192 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
49537127 TTTCCTTACA
49537137 AAAACAAAATGAAAGGTATACGTGATGT
1 AAAACAAAATGAAAGGTATACGTGATGT
49537165 AAAACAAAATGAAAGGTATACGTGATGT
1 AAAACAAAATGAAAGGTATACGTGATGT
49537193 TGAGTGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAACAAAATGAAAGGTATACGTGATGT
Found at i:49540900 original size:22 final size:22
Alignment explanation
Indices: 49540862--49540909 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
49540852 AGAAATTAAG
49540862 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
49540885 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
49540907 TAG
1 TAG
49540910 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:49541245 original size:28 final size:28
Alignment explanation
Indices: 49541176--49541252 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
49541166 ATTATGGAAT
49541176 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * *
49541203 T-AAGTATTGATATTGAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
49541231 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
49541253 TCGTATATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:49541427 original size:41 final size:39
Alignment explanation
Indices: 49541381--49541477 Score: 99
Period size: 38 Copynumber: 2.5 Consensus size: 39
49541371 TCGACCTTGA
* *
49541381 GTCGATGAGACACTGGGTGTCACTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGT-ACCACTTTACTTCGGATAG
* ** *
49541421 ATTCGATGAGGTACT-GG-GTACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTACCACTTTACTTCGGATAG
*
49541459 GCCGATGAGACACTGGGTG
1 GTCGATGAGACACTGGGTG
49541478 GCATTATATT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
37 10 0.23
38 18 0.41
39 3 0.07
40 2 0.05
41 11 0.25
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTACCACTTTACTTCGGATAG
Found at i:49542493 original size:40 final size:40
Alignment explanation
Indices: 49542448--49542615 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49542438 CGGAATATAA
49542448 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
49542488 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49542528 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49542568 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49542608 CCGGATAT
1 CCGGATAT
49542616 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49542598 original size:80 final size:80
Alignment explanation
Indices: 49542464--49542613 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49542454 ATAACCACGT
* *
49542464 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
49542529 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
49542544 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
49542607 CCCGGAT
64 CCCGGAT
49542614 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49549533 original size:40 final size:40
Alignment explanation
Indices: 49549488--49549655 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49549478 CGGAATATAA
49549488 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
49549528 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49549568 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49549608 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49549648 CCGGATAT
1 CCGGATAT
49549656 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49549638 original size:80 final size:80
Alignment explanation
Indices: 49549504--49549653 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49549494 ATAACCACGT
* *
49549504 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
49549569 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
49549584 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
49549647 CCCGGAT
64 CCCGGAT
49549654 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49553471 original size:2 final size:2
Alignment explanation
Indices: 49553464--49553496 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49553454 ATTGTACATG
49553464 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49553497 TCGGCCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49554015 original size:27 final size:28
Alignment explanation
Indices: 49553958--49554027 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
49553948 AAATTTGTAC
**
49553958 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49553986 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49554013 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49554028 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49560708 original size:17 final size:17
Alignment explanation
Indices: 49560688--49560732 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
49560678 ATTTTTGGGT
*
49560688 ACTTATTTTTTTTTATC
1 ACTTATTTTTTTTTAGC
*
49560705 ACTTA-TTATTTTTAGC
1 ACTTATTTTTTTTTAGC
49560721 ACTTAATTTTTT
1 ACTT-ATTTTTT
49560733 AGTTTTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.64
Consensus pattern (17 bp):
ACTTATTTTTTTTTAGC
Found at i:49560731 original size:15 final size:15
Alignment explanation
Indices: 49560667--49560734 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
49560657 TTAACTTACA
49560667 TTTAGCACTTAATTT
1 TTTAGCACTTAATTT
** * *
49560682 TTGGGTACTTATTTTTT
1 TTTAGCACTTA--ATTT
* *
49560699 TTTATCACTTATTATT
1 TTTAGCACTTAAT-TT
49560715 TTTAGCACTTAATTT
1 TTTAGCACTTAATTT
49560730 TTTAG
1 TTTAG
49560735 TTTTTCAAAC
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
15 17 0.43
16 13 0.32
17 10 0.25
ACGTcount: A:0.22, C:0.10, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTAGCACTTAATTT
Found at i:49563204 original size:57 final size:58
Alignment explanation
Indices: 49563051--49563204 Score: 156
Period size: 57 Copynumber: 2.7 Consensus size: 58
49563041 CCACATATCA
* ** * * *
49563051 TATAACAGGATTACTTGTCCAAGCTAAAT-CTTGTTT-TCAACATATGCTCATAAGAGTT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTT-TTTGT-AACATATGCTCAGAAGAGCT
* * * *
49563109 TA-ATCAGGATTACCCGTCCAGGTTAAATCCTATCTGTAA-ATATGCTCAAGAAG-GCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATGCTC-AGAAGAGCT
49563165 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAA
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAA
49563205 TGAGGTCAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
56 12 0.15
57 62 0.78
58 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATGCTCAGAAGAGCT
Found at i:49566824 original size:40 final size:39
Alignment explanation
Indices: 49566779--49566907 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
49566769 CGGAATACAA
49566779 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
49566819 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
49566859 CCGGATGT-AGCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
49566898 CCGGATATAA
1 CCGGATATAA
49566908 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 3 0.04
39 29 0.38
40 44 0.58
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:49574881 original size:40 final size:39
Alignment explanation
Indices: 49574836--49574965 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
49574826 CGGAATACAA
49574836 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
49574876 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
49574916 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
49574956 CCGGATATAA
1 CCGGATATAA
49574966 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:49579216 original size:46 final size:46
Alignment explanation
Indices: 49579122--49579247 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
49579112 GGTGCAATAA
* * * * *
49579122 TACCTTGATTTGGCAATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGG-TATGGGCCATGGTATAGGTACTCTGAGAGAAGT
* *
49579169 TACCTTGATTTGGTATGGAG-CATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGTATGG-GCCATGGTATAGGTACTCTGAGAGAAGT
* * *
49579215 TACCTTGATTTGCTACGGGTCATGGTATAGGTA
1 TACCTTGATTTGGTATGGGCCATGGTATAGGTA
49579248 TTTATCGATT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
45 1 0.01
46 53 0.78
47 14 0.21
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (46 bp):
TACCTTGATTTGGTATGGGCCATGGTATAGGTACTCTGAGAGAAGT
Found at i:49585838 original size:40 final size:39
Alignment explanation
Indices: 49585711--49585840 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
49585701 ATGCTGGAAA
*
49585711 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
49585751 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
49585791 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
49585831 TTATATCCGG
1 TTATATCCGG
49585841 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:49590813 original size:17 final size:17
Alignment explanation
Indices: 49590791--49590836 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
49590781 TTAGATTTTA
49590791 GGCCCACACGACCGTGT
1 GGCCCACACGACCGTGT
49590808 GGCCCACACGACCGTGT
1 GGCCCACACGACCGTGT
49590825 GGCCCACACGAC
1 GGCCCACACGAC
49590837 TTACTTGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.20, C:0.43, G:0.28, T:0.09
Consensus pattern (17 bp):
GGCCCACACGACCGTGT
Found at i:49592702 original size:30 final size:30
Alignment explanation
Indices: 49592668--49592744 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
49592658 TTAGCCAGGA
49592668 TGAGTAACCTTGATATAATGTCAACTTATG
1 TGAGTAACCTTGATATAATGTCAACTTATG
* ** * *
49592698 TGAGTAA-TTTCCTTATAATTTCAACTTGTG
1 TGAGTAACCTT-GATATAATGTCAACTTATG
* *
49592728 TGAGGAACCCTGATATA
1 TGAGTAACCTTGATATA
49592745 CTATCAGCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
29 2 0.06
30 32 0.91
31 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (30 bp):
TGAGTAACCTTGATATAATGTCAACTTATG
Found at i:49596234 original size:80 final size:80
Alignment explanation
Indices: 49596150--49596298 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49596140 TATGGTAACC
* * * *
49596150 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49596214 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49596230 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49596295 CCGG
66 CCGG
49596299 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49596240 original size:40 final size:38
Alignment explanation
Indices: 49596191--49596298 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49596181 ATCACGATTT
*
49596191 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49596231 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49596271 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49596299 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49604354 original size:80 final size:80
Alignment explanation
Indices: 49604270--49604418 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49604260 TATGGTAACC
* * * *
49604270 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49604334 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49604350 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49604415 CCGG
66 CCGG
49604419 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49604360 original size:40 final size:38
Alignment explanation
Indices: 49604311--49604418 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49604301 ATCACGATTT
*
49604311 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49604351 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49604391 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49604419 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49608996 original size:31 final size:31
Alignment explanation
Indices: 49608958--49609047 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
49608948 CCTTTTCATA
*
49608958 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49608989 TTTCATATTTCATATTACTGGGCCGAAG-C-
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49609018 ---CATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49609046 TT
1 TT
49609048 ACTGTAAACG
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
26 25 0.46
27 1 0.02
30 1 0.02
31 27 0.50
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:49609028 original size:26 final size:26
Alignment explanation
Indices: 49608961--49609044 Score: 114
Period size: 26 Copynumber: 3.0 Consensus size: 26
49608951 TTTCATATTT
*
49608961 CATATTTCATAATACTGGGCCGAAGCC
1 CATATTTCATATTACTGGGCCGAAG-C
49608988 TTTTCATATTTCATATTACTGGGCCGAAGC
1 ----CATATTTCATATTACTGGGCCGAAGC
49609018 CATATTTCATATTACTGGGCCGAAGC
1 CATATTTCATATTACTGGGCCGAAGC
49609044 C
1 C
49609045 TTTACTGTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
26 27 0.52
30 1 0.02
31 24 0.46
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
CATATTTCATATTACTGGGCCGAAGC
Found at i:49609290 original size:24 final size:24
Alignment explanation
Indices: 49609239--49609403 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
49609229 GCTTTATCAT
* *
49609239 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
49609264 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
49609288 ATAACT-GGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
49609309 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49609333 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49609357 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49609381 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49609404 TCACTTCCTC
Statistics
Matches: 131, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
21 6 0.05
22 14 0.11
23 14 0.11
24 85 0.65
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:49609479 original size:20 final size:20
Alignment explanation
Indices: 49609454--49609513 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
49609444 TATGATTACC
49609454 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
49609474 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
49609494 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
49609514 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:49609484 original size:11 final size:11
Alignment explanation
Indices: 49609454--49609508 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49609444 TATGATTACC
49609454 TCATGTGCATA
1 TCATGTGCATA
*
49609465 TCA--TACATA
1 TCATGTGCATA
49609474 TCATGTGCATA
1 TCATGTGCATA
* *
49609485 TCA--TACATT
1 TCATGTGCATA
49609494 TCATGTGCATA
1 TCATGTGCATA
49609505 TCAT
1 TCAT
49609509 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:49609588 original size:25 final size:25
Alignment explanation
Indices: 49609556--49609603 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49609546 ATACATAAAC
* * *
49609556 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49609581 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49609604 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49614716 original size:46 final size:46
Alignment explanation
Indices: 49614666--49614841 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49614656 TGGTTGAGCA
*
49614666 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49614712 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49614757 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
49614805 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49614842 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49614822 original size:93 final size:93
Alignment explanation
Indices: 49614663--49614833 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
49614653 GGATGGTTGA
* * *
49614663 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49614728 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49614756 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49614821 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49614834 ACTTATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49619701 original size:38 final size:35
Alignment explanation
Indices: 49619642--49619758 Score: 126
Period size: 30 Copynumber: 3.5 Consensus size: 35
49619632 TCAATCATGC
*
49619642 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
49619681 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
49619712 ACTGGGCCGAAGCCTTTT-ATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
49619742 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
49619759 ACTGTAAACG
Statistics
Matches: 77, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
30 29 0.38
31 19 0.25
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:49619736 original size:30 final size:31
Alignment explanation
Indices: 49619665--49619758 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
49619655 CCTTTTCATA
*
49619665 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49619696 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49619727 TTT-ATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
49619757 TT
1 TT
49619759 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 29 0.47
31 33 0.53
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:49620014 original size:23 final size:24
Alignment explanation
Indices: 49619950--49620091 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
49619940 GCTTTATCAT
*
49619950 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
49619975 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
49619999 ATAACT-GGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
49620021 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49620045 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
49620069 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49620092 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 6 0.06
23 30 0.28
24 61 0.56
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49620050 original size:70 final size:72
Alignment explanation
Indices: 49619949--49620091 Score: 211
Period size: 70 Copynumber: 2.0 Consensus size: 72
49619939 TGCTTTATCA
*
49619949 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACT-GGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
49620013 GCCCTTT
66 GCCCTTT
* * **
49620020 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
49620083 AGCCCTTT
65 AGCCCTTT
49620091 T
1 T
49620092 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 36 0.55
71 29 0.45
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:49620167 original size:20 final size:20
Alignment explanation
Indices: 49620142--49620201 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
49620132 TATGATTACC
49620142 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
49620162 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
49620182 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
49620202 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:49620172 original size:11 final size:11
Alignment explanation
Indices: 49620142--49620196 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49620132 TATGATTACC
49620142 TCATGTGCATA
1 TCATGTGCATA
*
49620153 TCA--TACATA
1 TCATGTGCATA
49620162 TCATGTGCATA
1 TCATGTGCATA
* *
49620173 TCA--TACATT
1 TCATGTGCATA
49620182 TCATGTGCATA
1 TCATGTGCATA
49620193 TCAT
1 TCAT
49620197 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:49620276 original size:25 final size:25
Alignment explanation
Indices: 49620244--49620291 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49620234 ATACATAAAC
* * *
49620244 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49620269 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49620292 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49622382 original size:41 final size:40
Alignment explanation
Indices: 49622284--49622392 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 40
49622274 TGATATTTTG
* *
49622284 ATCTGCATTCTATATCTGATTGGACTGAGGCTCTAATATAT
1 ATCTG-ATTCTATATCTGAGTGGACTAAGGCTCTAATATAT
* * *
49622325 -TCCTGACTCTATATCTGAGGTGGGCTAAGGC-CTTAATTTAT
1 AT-CTGATTCTATATCTGA-GTGGACTAAGGCTC-TAATATAT
*
49622366 ATCTGATTCTATATCTGAATGGACTAA
1 ATCTGATTCTATATCTGAGTGGACTAA
49622393 CGCCCACACT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
40 21 0.38
41 34 0.61
42 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (40 bp):
ATCTGATTCTATATCTGAGTGGACTAAGGCTCTAATATAT
Found at i:49633960 original size:46 final size:43
Alignment explanation
Indices: 49633896--49634055 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 43
49633886 GTGTCGATTC
* * *
49633896 CATGTCCCTGACAGGTCTTACACTGACACATGTAACCGT-GCCAATG
1 CATGT-CCAGACATGTCTTACACTGACACATCT---CGTAGCCAATG
* *
49633942 CATGTCTCAGACATGTCTTACGCT-AGCACATCTCGTAGCCGATG
1 CATGTC-CAGACATGTCTTACACTGA-CACATCTCGTAGCCAATG
* * *
49633986 AATGTCCAGACATGTCTGACACTGACTAACATCTCG-AGGCCGATG
1 CATGTCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCAATG
49634031 CATGTCCTAGACATGTCTTACACTG
1 CATGTCC-AGACATGTCTTACACTG
49634056 GCGCACATAT
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
43 19 0.20
44 13 0.14
45 23 0.24
46 41 0.43
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
CATGTCCAGACATGTCTTACACTGACACATCTCGTAGCCAATG
Found at i:49634028 original size:45 final size:46
Alignment explanation
Indices: 49633969--49634055 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
49633959 TTACGCTAGC
49633969 ACATCTCGTAGCCGATGAATGTCC-AGACATGTCTGACACTGACTA
1 ACATCTCGTAGCCGATGAATGTCCTAGACATGTCTGACACTGACTA
* *
49634014 ACATCTCG-AGGCCGATGCATGTCCTAGACATGTCTTACACTG
1 ACATCTCGTA-GCCGATGAATGTCCTAGACATGTCTGACACTG
49634056 GCGCACATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.03
45 21 0.55
46 16 0.42
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (46 bp):
ACATCTCGTAGCCGATGAATGTCCTAGACATGTCTGACACTGACTA
Found at i:49639706 original size:45 final size:46
Alignment explanation
Indices: 49639613--49639727 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 46
49639603 CCGTGCCAAT
* **
49639613 GCATATCCCAGACATGTCTTACACT-A-GCACATCTCGTAGCCGAC
1 GCATGTCCCAGACATGTCTTACACTGATTAACATCTCGTAGCCGAC
*
49639657 GCATGT-CCAGACATGT-TTGACACTGATTAACATCTCG-AGGCCGAT
1 GCATGTCCCAGACATGTCTT-ACACTGATTAACATCTCGTA-GCCGAC
49639702 GCATGTCCCAGACATGTCTTACACTG
1 GCATGTCCCAGACATGTCTTACACTG
49639728 GCACACATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
42 2 0.03
43 15 0.25
44 7 0.11
45 19 0.31
46 16 0.26
47 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGATTAACATCTCGTAGCCGAC
Found at i:49645898 original size:46 final size:46
Alignment explanation
Indices: 49645845--49646016 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
49645835 AACCCGCCCC
*
49645845 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
49645891 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
49645939 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
49645984 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
49646017 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:49645957 original size:93 final size:93
Alignment explanation
Indices: 49645850--49646020 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
49645840 GCCCCTAAGT
* *
49645850 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49645915 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
49645943 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49646008 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49646021 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49658370 original size:93 final size:93
Alignment explanation
Indices: 49658263--49658433 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
49658253 GCCCCTAAGT
* *
49658263 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49658328 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
49658356 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49658421 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49658434 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49658430 original size:46 final size:46
Alignment explanation
Indices: 49658258--49658430 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
49658248 AACCCGCCCC
* * *
49658258 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
49658304 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
49658352 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49658397 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49658431 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:49665875 original size:45 final size:46
Alignment explanation
Indices: 49665763--49665887 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
49665753 AACCCGCCCC
* * *
49665763 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49665809 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49665855 T-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49665888 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 32 0.42
46 44 0.58
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:49666344 original size:30 final size:30
Alignment explanation
Indices: 49666310--49666369 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49666300 ATTTAATACG
49666310 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
49666340 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
49666370 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.