Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold158
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: 3161772
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 138004 characters in sequence are not A, C, G, or T
File 9 of 9
Found at i:2822543 original size:19 final size:21
Alignment explanation
Indices: 2822506--2822555 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
2822496 ATTTTATAAA
2822506 ATTTATATTATAAAATTTTCAT
1 ATTTAT-TTATAAAATTTTCAT
*
2822528 -TTTATTTAT-AATTTTTCAT
1 ATTTATTTATAAAATTTTCAT
2822547 ATTT-TTTAT
1 ATTTATTTAT
2822556 CTCCTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 14 0.54
20 7 0.27
21 5 0.19
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTATTTATAAAATTTTCAT
Found at i:2827033 original size:17 final size:18
Alignment explanation
Indices: 2827011--2827045 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2827001 TTTTGGGTCA
2827011 TGTGGG-CCACACGGGTG
1 TGTGGGCCCACACGGGTG
2827028 TGTGGGCCCACACGGGTG
1 TGTGGGCCCACACGGGTG
2827046 AACATCATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
TGTGGGCCCACACGGGTG
Found at i:2827948 original size:18 final size:17
Alignment explanation
Indices: 2827919--2827982 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
2827909 AAGAAAACAT
2827919 TTTGAAATTGAATAACGA
1 TTTGAAA-TGAATAACGA
* *
2827937 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAACGA
*
2827955 TTTGAAAATAAATGACACGA
1 TTTG-AAATGAAT-A-ACGA
2827975 TTTGAAAT
1 TTTGAAAT
2827983 TGACATAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 23 0.62
19 8 0.22
20 6 0.16
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.36
Consensus pattern (17 bp):
TTTGAAATGAATAACGA
Found at i:2829918 original size:21 final size:21
Alignment explanation
Indices: 2829880--2829922 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2829870 GAACAAAAAA
**
2829880 TTTCTACAACAGCCAAAATAT
1 TTTCTACAACAGAAAAAATAT
*
2829901 TTTCTACAACTGAAAAAATAT
1 TTTCTACAACAGAAAAAATAT
2829922 T
1 T
2829923 CTAACGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TTTCTACAACAGAAAAAATAT
Found at i:2829924 original size:19 final size:19
Alignment explanation
Indices: 2829873--2829925 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
2829863 TTTTTCAGAA
2829873 CAAAAAATTTCTACAACAG
1 CAAAAAATTTCTACAACAG
* *
2829892 CCAAAATATTTTCTACAACTG
1 -CAAAA-AATTTCTACAACAG
2829913 -AAAAAATATTCTA
1 CAAAAAAT-TTCTA
2829926 ACGATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 9 0.32
20 5 0.18
21 12 0.43
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (19 bp):
CAAAAAATTTCTACAACAG
Found at i:2836275 original size:15 final size:15
Alignment explanation
Indices: 2836255--2836284 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2836245 CACTAAGTCT
2836255 TTTAGGGACCCATAC
1 TTTAGGGACCCATAC
*
2836270 TTTAGGGGCCCATAC
1 TTTAGGGACCCATAC
2836285 ACTCTTAACA
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:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (15 bp):
TTTAGGGACCCATAC
Found at i:2837175 original size:26 final size:26
Alignment explanation
Indices: 2837139--2837191 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2837129 ATCCAAATTG
2837139 TCCCAGATCTCCTTGGCATTGGAACA
1 TCCCAGATCTCCTTGGCATTGGAACA
2837165 TCCCAGATCTCCTTGGCATTGGAACA
1 TCCCAGATCTCCTTGGCATTGGAACA
2837191 T
1 T
2837192 GATGACACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (26 bp):
TCCCAGATCTCCTTGGCATTGGAACA
Found at i:2838708 original size:17 final size:17
Alignment explanation
Indices: 2838686--2838739 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
2838676 TTGTCGTCGA
**
2838686 AAGTCCATCGCCGCTGC
1 AAGTCCATCGCCGCCAC
* *
2838703 AAGTCCATCTCTGCCAC
1 AAGTCCATCGCCGCCAC
*
2838720 AAGTCCATCGCCGTCAC
1 AAGTCCATCGCCGCCAC
2838737 AAG
1 AAG
2838740 CTTATAGCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.19, T:0.19
Consensus pattern (17 bp):
AAGTCCATCGCCGCCAC
Found at i:2843943 original size:40 final size:40
Alignment explanation
Indices: 2843898--2844002 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 40
2843888 ACCGAAATAT
* *
2843898 AAATAGAGGCACGAAAGTGCAATCAGGGGTA-TCAAAGTAC
1 AAATAGAGGCACGTATGTGCAATCAGGGGTACT-AAAGTAC
* * *
2843938 AAATAGGGGCACGTATGCGCAATCAGGGGTACTGAAGTAC
1 AAATAGAGGCACGTATGTGCAATCAGGGGTACTAAAGTAC
*
2843978 AAACA-AGGGCACGTATGTGCAATCA
1 AAATAGA-GGCACGTATGTGCAATCA
2844003 TACAATAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 54 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (40 bp):
AAATAGAGGCACGTATGTGCAATCAGGGGTACTAAAGTAC
Found at i:2844790 original size:12 final size:11
Alignment explanation
Indices: 2844760--2844790 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2844750 TTTGTTTTTC
2844760 TTCTTTTAATT
1 TTCTTTTAATT
2844771 TTCTTTTAATT
1 TTCTTTTAATT
2844782 TTGCTTTTA
1 TT-CTTTTA
2844791 TTATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (11 bp):
TTCTTTTAATT
Found at i:2848479 original size:7 final size:7
Alignment explanation
Indices: 2848433--2848467 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
2848423 TTCTCACTTT
*
2848433 ATCCTTC
1 ATCCCTC
2848440 ATCCCTC
1 ATCCCTC
2848447 ATCCCTC
1 ATCCCTC
2848454 ATCCCTC
1 ATCCCTC
2848461 ATCCCTC
1 ATCCCTC
2848468 TCATCTCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
ATCCCTC
Found at i:2855357 original size:20 final size:20
Alignment explanation
Indices: 2855332--2855369 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2855322 GTTTTTCTAG
2855332 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
2855352 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
2855370 TAAAGGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:2859293 original size:16 final size:16
Alignment explanation
Indices: 2859272--2859302 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2859262 CACTTTATCC
2859272 CTCATCCCTCATCCCT
1 CTCATCCCTCATCCCT
*
2859288 CTCATCTCTCATCCC
1 CTCATCCCTCATCCC
2859303 ACGCCTATCA
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:0.13, C:0.55, G:0.00, T:0.32
Consensus pattern (16 bp):
CTCATCCCTCATCCCT
Found at i:2860405 original size:34 final size:34
Alignment explanation
Indices: 2860367--2860507 Score: 192
Period size: 34 Copynumber: 4.1 Consensus size: 34
2860357 CACGATACAT
*
2860367 CAACATTCAGCCGTAGAATAACTCATCATTTGCA
1 CAACATTCAGCCGTAGAACAACTCATCATTTGCA
* ** **
2860401 CAACATTCAGCCATAGAACAACTTGTCATTTTTA
1 CAACATTCAGCCGTAGAACAACTCATCATTTGCA
*
2860435 CAACATTCAGCCGTAGAACAACTTATCATTTGCA
1 CAACATTCAGCCGTAGAACAACTCATCATTTGCA
** *
2860469 CAACATTCAATCGTAGAATAACTCATCATTTGCA
1 CAACATTCAGCCGTAGAACAACTCATCATTTGCA
2860503 CAACA
1 CAACA
2860508 CTAATTTAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 93 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.28
Consensus pattern (34 bp):
CAACATTCAGCCGTAGAACAACTCATCATTTGCA
Found at i:2862604 original size:19 final size:19
Alignment explanation
Indices: 2862570--2862620 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2862560 ATTAAATCTA
*
2862570 TATAAGATATTA--TTTAT
1 TATAAAATATTATCTTTAT
2862587 TATAAAATATTATCTTTAT
1 TATAAAATATTATCTTTAT
*
2862606 CATAAAATAATTATC
1 TATAAAAT-ATTATC
2862621 AATTGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 11 0.38
19 12 0.41
20 6 0.21
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (19 bp):
TATAAAATATTATCTTTAT
Found at i:2866035 original size:28 final size:27
Alignment explanation
Indices: 2865973--2866037 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
2865963 CTCTTTCGAG
* * *
2865973 ACACCAATAATTTTTTTATAAATGAAT
1 ACACTAATAATTTTTTGATAAATAAAT
**
2866000 ACGGTAATAATTTTTTGATAAGATAAAT
1 ACACTAATAATTTTTTGATAA-ATAAAT
*
2866028 ATACTAATAA
1 ACACTAATAA
2866038 ATTAAAGGCT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (27 bp):
ACACTAATAATTTTTTGATAAATAAAT
Found at i:2875945 original size:39 final size:39
Alignment explanation
Indices: 2875891--2875972 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
2875881 CACAATTACT
* *
2875891 TAGAATGTTACGAACTGCTGAAGGTAACATGAAAAATAC
1 TAGAATGTTACGAACTACTGAAGGTAACATGAAAAAGAC
*
2875930 TAGAATGTTATGAACTACTGAAGGTAACATGAAAAAGAC
1 TAGAATGTTACGAACTACTGAAGGTAACATGAAAAAGAC
2875969 TAGA
1 TAGA
2875973 CCCAAGCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (39 bp):
TAGAATGTTACGAACTACTGAAGGTAACATGAAAAAGAC
Found at i:2884535 original size:43 final size:43
Alignment explanation
Indices: 2884486--2884797 Score: 448
Period size: 43 Copynumber: 7.3 Consensus size: 43
2884476 TTTTAGAAAA
2884486 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
2884529 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
2884571 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
2884614 AAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
2884657 AAACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * ** *
2884700 AAAAGCCGCTATAGACCATGACCTTTAGCGGCACTTTTATCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * ** *
2884743 AAACGCCGCTAAAGAAC-ACACCTTTAGCGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
2884785 AAACGCCGCTAAA
1 AAACGCCGCTAAA
2884798 AACATAATCT
Statistics
Matches: 246, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
42 75 0.30
43 171 0.70
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:2884590 original size:85 final size:86
Alignment explanation
Indices: 2884486--2884797 Score: 448
Period size: 85 Copynumber: 3.7 Consensus size: 86
2884476 TTTTAGAAAA
2884486 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
2884551 CTTTAGCGGCGC-TTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
* * *
2884571 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCACTAAAGACCAGGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
2884636 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTTTTCCCAC
* * * * *
2884657 AAACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTCCCACAAAAGCCGCTATAGACCATGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* ** *
2884722 CTTTAGCGGCACTTTTATCAA
66 CTTTAGCGGCGCTTTTCCCAC
* * * ** *
2884743 AAACGCCGCTAAAGAAC-ACACCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
2884798 AACATAATCT
Statistics
Matches: 202, Mismatches: 24, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
85 103 0.51
86 99 0.49
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:2884631 original size:128 final size:129
Alignment explanation
Indices: 2884484--2884797 Score: 463
Period size: 128 Copynumber: 2.4 Consensus size: 129
2884474 GTTTTTAGAA
2884484 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
* *
2884549 ACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCA-C
66 ACCTTTAGCGGCGCTTTTCCCACAAAAGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTT-ATC
* * * *
2884612 ACAAACGCCACTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGG
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
* * *
2884677 ACCTTTAGCGGTGCTTTTCCCACAAAAGCCGCTATAGACCATGACCTTTAGCGGCACTTTTATC
66 ACCTTTAGCGGCGCTTTTCCCACAAAAGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTATC
* * * ** *
2884741 AAAAACGCCGCTAAAGAAC-ACACCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
2884798 AACATAATCT
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
128 107 0.64
129 59 0.36
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (129 bp):
AAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
ACCTTTAGCGGCGCTTTTCCCACAAAAGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTATC
Found at i:2885993 original size:16 final size:16
Alignment explanation
Indices: 2885972--2886002 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2885962 AGTCCCTAAC
2885972 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
2885988 TATTGTAAACATCAG
1 TATTGTAAACATCAG
2886003 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:2889494 original size:41 final size:39
Alignment explanation
Indices: 2889449--2889647 Score: 211
Period size: 41 Copynumber: 4.9 Consensus size: 39
2889439 TATTGCCCTA
*
2889449 AGCATTAGCGACGCTTCATTAAAAACGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTT--TTAAAAACGCCGCTAAAGACCCG
*
2889490 AGCATTAGCGGCGCTTTTGAGAAAGCGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTTT-A-AAAACGCCGCTAAAGACCCG
* * * *
2889531 ATCATTAGTGGCGCTTTCCCAAAAATGCCGCTAAAGACCCG
1 AGCATTAGCGGCGCTTT--TAAAAACGCCGCTAAAGACCCG
* * *
2889572 ATCATTAGCGACGCTTTTTTAAAACGCCGCTAAA-ACCCTG
1 AGCATTAGCGGCGC-TTTTAAAAACGCCGCTAAAGACCC-G
*
2889612 AGCATTAGCGGCGCTTTTTAAAAAACGCCACTAAAG
1 AGCATTAGCGGCGC-TTTT-AAAAACGCCGCTAAAG
2889648 CCTCGAAAAC
Statistics
Matches: 134, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.04
40 32 0.24
41 92 0.69
42 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (39 bp):
AGCATTAGCGGCGCTTTTAAAAACGCCGCTAAAGACCCG
Found at i:2889588 original size:82 final size:81
Alignment explanation
Indices: 2889469--2889647 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
2889459 ACGCTTCATT
*
2889469 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGC-TTTTGAGAAAGCGCCGCTAAAGACCC-GA
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCTTTTTGA-AAA-CGCCGCTAAA-ACCCTGA
* *
2889532 TCATTAGTGGCGCTTTCCC
63 GCATTAGCGGCGCTTTCCC
* * *
2889551 AAAAATGCCGCTAAAGACCCGATCATTAGCGACGCTTTTTTAAAACGCCGCTAAAACCCTGAGCA
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCTTTTTGAAAACGCCGCTAAAACCCTGAGCA
***
2889616 TTAGCGGCGCTTTTTA
66 TTAGCGGCGCTTTCCC
*
2889632 AAAAACGCCACTAAAG
1 AAAAACGCCGCTAAAG
2889648 CCTCGAAAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 4 0.05
81 40 0.48
82 35 0.42
83 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGACCCGAGCATTAGCGACGCTTTTTGAAAACGCCGCTAAAACCCTGAGCA
TTAGCGGCGCTTTCCC
Found at i:2889821 original size:40 final size:40
Alignment explanation
Indices: 2889688--2889822 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
2889678 GCTTAGATTT
* ** *
2889688 TTTA-CGGCGCTTTTTGAAAAA-CGCCGCTAA-AAATAAGC
1 TTTAGCGGCG-TTTTTTAAAAAGCGCCGCTAATACTTAATC
* *
2889726 ATTAGCGGCGTTTTTAAAAAAGCGCCGCTAATACTTAATC
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATACTTAATC
* * * * * *
2889766 TTTAGCGGCGTTTTTTTAAAAGTGTCGCTAATGCTTGATT
1 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATACTTAATC
2889806 TTTAGCGGCGTTTTTTA
1 TTTAGCGGCGTTTTTTA
2889823 TCCAAACGCC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.16
39 14 0.17
40 53 0.66
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATACTTAATC
Found at i:2890323 original size:15 final size:15
Alignment explanation
Indices: 2890303--2890332 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2890293 GGGGTTTTTC
2890303 CACGTTAAATTTGTG
1 CACGTTAAATTTGTG
2890318 CACGTTAAATTTGTG
1 CACGTTAAATTTGTG
2890333 TGTTCATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
CACGTTAAATTTGTG
Found at i:2899084 original size:3 final size:3
Alignment explanation
Indices: 2899068--2899135 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
2899058 TATGATAAAT
* * *
2899068 ATA ATA ATCT ATA ATA ATA AGA GTA ATA ATA TATA ATA ATA ATA A-A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
** *
2899114 AGG CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
2899136 ACTAATATTA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.86
4 5 0.10
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2899140 original size:20 final size:20
Alignment explanation
Indices: 2899068--2899142 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 20
2899058 TATGATAAAT
*
2899068 ATAATAATCT-ATAATAATA
1 ATAATAAACTAATAATAATA
* *
2899087 AGAGT-AA-TAATATATAATA
1 ATAATAAACTAATA-ATAATA
2899106 ATAATAAAAGGCTAATAATAATA
1 ATAAT-AAA--CTAATAATAATA
2899129 ATAATAAACTAATA
1 ATAATAAACTAATA
2899143 TTAAACAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 4 0.09
19 12 0.27
20 6 0.14
21 2 0.05
22 3 0.07
23 11 0.25
24 5 0.11
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATAAACTAATAATAATA
Found at i:2904909 original size:45 final size:45
Alignment explanation
Indices: 2904847--2905032 Score: 225
Period size: 45 Copynumber: 4.2 Consensus size: 45
2904837 CTACATGTAT
* * * *
2904847 CGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCAT
1 CGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
* *
2904892 CGGGTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCAC
1 CGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
* *
2904937 CGGGTA-CTATTGATTATGAAGGTGGTTGCTATCTGCTGATTCCAC
1 CGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
* * * *
2904982 CGAGTATCGTTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 CGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
*
2905025 CGTGTATC
1 CGGGTATC
2905033 TGTTATTATT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
43 12 0.10
44 13 0.10
45 100 0.79
46 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
CGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
Found at i:2908480 original size:13 final size:13
Alignment explanation
Indices: 2908456--2908487 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2908446 TGTTTAAAAT
2908456 TTAAAA-TTATTA
1 TTAAAATTTATTA
2908468 TTAAAATTTATTA
1 TTAAAATTTATTA
2908481 TTAAAAT
1 TTAAAAT
2908488 ACGGCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATTTATTA
Found at i:2908786 original size:26 final size:27
Alignment explanation
Indices: 2908751--2908818 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
2908741 AAAAATAAAA
*
2908751 ATTTACCAAAATATTATAA-TTTTTTT
1 ATTTATCAAAATATTATAACTTTTTTT
2908777 ATTTATCAAAATATTATAACTTTTTTTT
1 ATTTATCAAAATATTATAAC-TTTTTTT
2908805 ATTTATCAAAATAT
1 ATTTATCAAAATAT
2908819 ACAAAAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 18 0.46
28 21 0.54
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTATCAAAATATTATAACTTTTTTT
Found at i:2908913 original size:27 final size:27
Alignment explanation
Indices: 2908866--2908917 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
2908856 GGCCAATCAC
*
2908866 ATTGGCGGCACTAAAGATGCCAAAGAG
1 ATTGGCGGCACCAAAGATGCCAAAGAG
* *
2908893 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGATGCCAAAG
2908918 GACTAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGATGCCAAAGAG
Found at i:2910090 original size:27 final size:27
Alignment explanation
Indices: 2910058--2910109 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2910048 CATTTTAGTC
*
2910058 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCACCAATCT
*
2910085 CTTTGGCACCTTTGGTGCCACCAAT
1 CTTTGGCACCATTGGTGCCACCAAT
2910110 GTGATTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCACCAATCT
Found at i:2910117 original size:27 final size:27
Alignment explanation
Indices: 2910060--2910118 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
2910050 TTTTAGTCCT
* *
2910060 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCACCAATCTCA
* * *
2910087 TTGGCACCTTTGGTGCCACCAATGTGA
1 TTGGCACCATTGGTGCCACCAATCTCA
2910114 TTGGC
1 TTGGC
2910119 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCACCAATCTCA
Found at i:2910189 original size:28 final size:28
Alignment explanation
Indices: 2910157--2910226 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
2910147 ATTTTTTTGT
* **
2910157 ATATTTTGATAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAAAATTATA
2910185 ATATTTTGGTAAATAAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAAATTATA
2910213 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
2910227 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAATTATA
Found at i:2910419 original size:24 final size:23
Alignment explanation
Indices: 2910374--2910420 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
2910364 AATATGGTTA
*
2910374 ACTAAAACTCCATTTTCTTCTTC
1 ACTAAAACTCCATCTTCTTCTTC
*
2910397 ACTAAAAGCTTCATCTTCTTCTTC
1 ACTAAAA-CTCCATCTTCTTCTTC
2910421 TTCTTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (23 bp):
ACTAAAACTCCATCTTCTTCTTC
Found at i:2911002 original size:150 final size:150
Alignment explanation
Indices: 2910830--2911132 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
2910820 CCCTAAAATA
*
2910830 AAATTGTAATATTAAAATATTTTCTAAAATAATAAATTATTAATATTGAATTATTTAATATAAAT
1 AAATAGTAATATTAAAATATTTTCTAAAATAATAAATTATTAATATTGAATTATTTAATATAAAT
2910895 AATATTTAATTTTAATATTTAAAAATAAAAAATAAAAAATATTATTACTATAATAATATTAGAGT
66 AATATTTAATTTTAATATTTAAAAATAAAAAATAAAAAATATTATTACTATAATAATATTAGAGT
2910960 TGATTCAAATTAATTTTTAT
131 TGATTCAAATTAATTTTTAT
2910980 AAATAGTAATATTAAAATATTTTCTAAAATAATAAATTATTAATATTGAATTATTTAATATAAAT
1 AAATAGTAATATTAAAATATTTTCTAAAATAATAAATTATTAATATTGAATTATTTAATATAAAT
2911045 AATATTTAATTTTAATATTTAAAAATAAAAAATAAAAAATATTATTACTATAATAATATTAGAGT
66 AATATTTAATTTTAATATTTAAAAATAAAAAATAAAAAATATTATTACTATAATAATATTAGAGT
2911110 TGATTCAAATTAATTTTTAT
131 TGATTCAAATTAATTTTTAT
2911130 AAA
1 AAA
2911133 AAATAAAATT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (150 bp):
AAATAGTAATATTAAAATATTTTCTAAAATAATAAATTATTAATATTGAATTATTTAATATAAAT
AATATTTAATTTTAATATTTAAAAATAAAAAATAAAAAATATTATTACTATAATAATATTAGAGT
TGATTCAAATTAATTTTTAT
Found at i:2915970 original size:29 final size:29
Alignment explanation
Indices: 2915936--2916394 Score: 391
Period size: 29 Copynumber: 15.8 Consensus size: 29
2915926 TCATCGAAAA
*** * *
2915936 ATGAAAAGGGATGGTTTTGTCCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** * *
2915965 ATGAAAAGGGATAGTTTCGACTA-CAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * *
2915993 ATGAAAAGGGAAGGTGACAACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
2916022 ATGAAAAGGGATGGTGATGACCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * ** * *
2916051 ATGAAAAGTGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** * * *
2916080 ATGAAAAGGGATAGTTTCAACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
2916109 ATGAAAAAGGATGGTGACGACCATC-AGCT
1 ATGAAAAGGGATGGTGACGACCATCGA-CT
*
2916138 ATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *
2916167 ATGAAAAGGGATGATGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
** * *
2916196 AATGAAAAGGGATGGTTTCAACCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGACT
* *
2916226 ATGGAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* *
2916255 ATGAAAAGGGATGATGACGGCCATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* * ** * *
2916284 ATGAAAAGAGATAGTTTCGACTATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGACT
* ** *** * *
2916313 ATGAAAAAGGATATTTTTGACTATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGACT
*
2916342 ATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATGGTGACGACCATCGACT
**
2916371 ATGAAAAGGGATGGTTTCGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
2916395 TATTAGCATA
Statistics
Matches: 349, Mismatches: 77, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
28 21 0.06
29 303 0.87
30 25 0.07
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGACT
Found at i:2916388 original size:87 final size:87
Alignment explanation
Indices: 2915927--2916394 Score: 478
Period size: 87 Copynumber: 5.4 Consensus size: 87
2915917 TATCGATGAT
* * * *
2915927 CATCGAAAAATGAAAAGGGATGGTTTTGTCCATCGATTATGAAAAGGGATAGTTTCGACTA-CAA
1 CATCG-AATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAA
* *
2915991 CTATGAAAAGGGAAGGTGACAAC
65 CTATGAAAAGGGATGGTGACGAC
* * *
2916014 CATC-AACTATGAAAAGGGATGGTGAT-GACCATCGACTATGAAAAGTGATAGTTTCGACTATCG
1 CATCGAA-TATGAAAAGGGATGGT-TTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCA
* * ** *
2916077 ATTATGAAAAGGGATAGTTTCAAC
64 ACTATGAAAAGGGATGGTGACGAC
* * ** * ** *
2916101 TATC-AACTATGAAAAAGGATGGTGACGACCATC-AGCTATGAAAAGGGATGGTGACGACCATCA
1 CATCGAA-TATGAAAAGGGATGGTTTCGACCATCGA-CTATGAAAAGGGATAGTTTCGACTATCA
*
2916164 ACTATGAAAAGGGATGATGACGAC
64 ACTATGAAAAGGGATGGTGACGAC
* * * * * ** *
2916188 CATCGATTAATGAAAAGGGATGGTTTCAACCATCGAATATGGAAAGGGATGGTGACGACCATCAA
1 CATCGAAT-ATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAA
* *
2916253 CTATGAAAAGGGATGATGACGGC
65 CTATGAAAAGGGATGGTGACGAC
* * * * * * * *
2916276 CATCGACTATGAAAAGAGATAGTTTCGACTATCGATTATGAAAAAGGATATTTTTGACTATCAAC
1 CATCGAATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAAC
2916341 TATGAAAAGGGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
2916363 CATCGAATATGAAAAGGGATGGTTTCGACCAT
1 CATCGAATATGAAAAGGGATGGTTTCGACCAT
2916395 TATTAGCATA
Statistics
Matches: 317, Mismatches: 56, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
85 2 0.01
86 47 0.15
87 189 0.60
88 78 0.25
89 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (87 bp):
CATCGAATATGAAAAGGGATGGTTTCGACCATCGACTATGAAAAGGGATAGTTTCGACTATCAAC
TATGAAAAGGGATGGTGACGAC
Found at i:2925332 original size:30 final size:30
Alignment explanation
Indices: 2925290--2925357 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
2925280 GGTCGTCACC
*
2925290 ATCCCTTCTCATAATTTGATAGCAGAAGCT
1 ATCCCTTTTCATAATTTGATAGCAGAAGCT
* **
2925320 ATCTCTTTTCATAATTTGATAGTTGAAGCT
1 ATCCCTTTTCATAATTTGATAGCAGAAGCT
2925350 ATCCCTTT
1 ATCCCTTT
2925358 CACCATCCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGCAGAAGCT
Found at i:2925368 original size:72 final size:72
Alignment explanation
Indices: 2925285--2925429 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
2925275 TTGATGGTCG
* * **
2925285 TCACCATCCCTTCTCATAATTTGATAGCAGAAGCTATCTCTTTTCATAATTTGATAGTTGAAGCT
1 TCACCATCCCTTCTCATAATTTGATAGCAAAAGCTATCTCTTTTCATAATTCGATAGTCAAAGCT
2925350 ATCCCTT
66 ATCCCTT
2925357 TCACCATCCCTTCTCATAATTTGATAGCAAAAGCTATCTCTTTTCATAATTCGATAGTCAAAGCT
1 TCACCATCCCTTCTCATAATTTGATAGCAAAAGCTATCTCTTTTCATAATTCGATAGTCAAAGCT
2925422 ATCCCTT
66 ATCCCTT
2925429 T
1 T
2925430 TCATAGTTCG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (72 bp):
TCACCATCCCTTCTCATAATTTGATAGCAAAAGCTATCTCTTTTCATAATTCGATAGTCAAAGCT
ATCCCTT
Found at i:2925406 original size:30 final size:30
Alignment explanation
Indices: 2925362--2925612 Score: 186
Period size: 30 Copynumber: 8.4 Consensus size: 30
2925352 CCCTTTCACC
* *
2925362 ATCCCTTCTCATAATTTGATAG-CAAAAGCT
1 ATCCCTTTTCATAATTCGATAGTC-AAAGCT
*
2925392 ATCTCTTTTCATAATTCGATAGTCAAAGCT
1 ATCCCTTTTCATAATTCGATAGTCAAAGCT
* * ** *
2925422 ATCCCTTTTCATAGTTCGATGGTCTTCA-CC
1 ATCCCTTTTCATAATTCGATAGTC-AAAGCT
* * **
2925452 ATCCCTTTTCATTATT-GATGGTCGTCA-CT
1 ATCCCTTTTCATAATTCGATAGTC-AAAGCT
* * *
2925481 ATCCCTTTTCACAATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAATTCGATAGTCAAAGCT
* **
2925511 ATCCCTTTTCATAATTCGATAATTGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCAAAGCT
*** * *
2925541 ATCCCTTTTCATTGGTCAATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCAAAGCT
*** **
2925571 ATCCCTTTTCATTGGTCGATAGTTGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCAAAGCT
*
2925601 AACCCTTTTCAT
1 ATCCCTTTTCAT
2925613 TGGTCAATGA
Statistics
Matches: 183, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
29 26 0.14
30 155 0.85
31 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTCAAAGCT
Found at i:2925484 original size:29 final size:30
Alignment explanation
Indices: 2925420--2925491 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
2925410 ATAGTCAAAG
*
2925420 CTATCCCTTTTCATAGTTCGATGGTCTTCA
1 CTATCCCTTTTCATAGTTCGATGGTCGTCA
*
2925450 CCATCCCTTTTCATTA-TT-GATGGTCGTCA
1 CTATCCCTTTTCA-TAGTTCGATGGTCGTCA
2925479 CTATCCCTTTTCA
1 CTATCCCTTTTCA
2925492 CAATTTGATA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.58
30 14 0.37
31 2 0.05
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (30 bp):
CTATCCCTTTTCATAGTTCGATGGTCGTCA
Found at i:2925545 original size:89 final size:89
Alignment explanation
Indices: 2925390--2925553 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
2925380 ATAGCAAAAG
* * * * ** **
2925390 CTATCTCTTTTCATAATTCGATAGTCAAAGCTATCCCTTTTCATAGTTCGATGGTCTTCACCATC
1 CTATCCCTTTTCACAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATAATCTGAACCATC
2925455 CCTTTTCATTATTGATGGTCGTCA
66 CCTTTTCATTATTGATGGTCGTCA
* *
2925479 CTATCCCTTTTCACAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAAT-TGAAGCTAT
1 CTATCCCTTTTCACAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATAATCTGAA-CCAT
2925543 CCCTTTTCATT
65 CCCTTTTCATT
2925554 GGTCAATAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
88 2 0.03
89 62 0.97
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.41
Consensus pattern (89 bp):
CTATCCCTTTTCACAATTCGATAGCCAAAGCTATCCCTTTTCATAATTCGATAATCTGAACCATC
CCTTTTCATTATTGATGGTCGTCA
Found at i:2925575 original size:119 final size:119
Alignment explanation
Indices: 2925357--2925583 Score: 303
Period size: 119 Copynumber: 1.9 Consensus size: 119
2925347 GCTATCCCTT
* * *
2925357 TCACCATCCCTTCTCATAATTTGATAGCAAAAGCTATCTCTTTTCATAATTCGATAGTCAAAGCT
1 TCACCATCCCTTCTCACAATTTGATAGCAAAAGCTATCCCTTTTCATAATTCGATAATCAAAGCT
* * * **
2925422 ATCCCTTTTCATAGTTCGATGGTCTTCACCATCCCTTTTCATTATTGATGGTCG
66 ATCCCTTTTCATAGGTCAATAGTCTGAACCATCCCTTTTCATTATTGATGGTCG
* * * **
2925476 TCACTATCCCTTTTCACAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAATTGAAGCT
1 TCACCATCCCTTCTCACAATTTGATAGCAAAAGCTATCCCTTTTCATAATTCGATAATCAAAGCT
* *
2925541 ATCCCTTTTCATTGGTCAATAGTC-GAAGCTATCCCTTTTCATT
66 ATCCCTTTTCATAGGTCAATAGTCTGAA-CCATCCCTTTTCATT
2925584 GGTCGATAGT
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
118 1 0.01
119 91 0.99
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (119 bp):
TCACCATCCCTTCTCACAATTTGATAGCAAAAGCTATCCCTTTTCATAATTCGATAATCAAAGCT
ATCCCTTTTCATAGGTCAATAGTCTGAACCATCCCTTTTCATTATTGATGGTCG
Found at i:2929374 original size:29 final size:29
Alignment explanation
Indices: 2929340--2929510 Score: 171
Period size: 29 Copynumber: 5.9 Consensus size: 29
2929330 TCATTGATCA
* *
2929340 ATGAAAAGGGATGGTTTTGCCCATCAATT
1 ATGAAAAGGGATGGTTTTGACCATCAACT
* * *
2929369 ATGAAAAGGGATAGTTTCGACTATCAACT
1 ATGAAAAGGGATGGTTTTGACCATCAACT
**
2929398 ATGAAAAGGGATGGTGATGACCATCAACT
1 ATGAAAAGGGATGGTTTTGACCATCAACT
** ***
2929427 ATGAAAAGGGATGGTGATGACCATCGGTT
1 ATGAAAAGGGATGGTTTTGACCATCAACT
* * * *
2929456 ATGAAAAGGGATAGTTTAGACTATAAACT
1 ATGAAAAGGGATGGTTTTGACCATCAACT
* **
2929485 ATGAAAAGAGATGGTTTCAACCATCA
1 ATGAAAAGGGATGGTTTTGACCATCA
2929511 TTAGCACACT
Statistics
Matches: 114, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 114 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTTGACCATCAACT
Found at i:2929486 original size:87 final size:87
Alignment explanation
Indices: 2929340--2929499 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 87
2929330 TCATTGATCA
** * * *
2929340 ATGAAAAGGGATGGTTTTGCCCATCAATTATGAAAAGGGATAGTTTCGACTATCAACTATGAAAA
1 ATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATAGTTTAGACTATAAACTATGAAAA
*
2929405 GGGATGGTGATGACCATCAACT
66 GAGATGGTGATGACCATCAACT
**
2929427 ATGAAAAGGGATGGTGATGACCATCGGTTATGAAAAGGGATAGTTTAGACTATAAACTATGAAAA
1 ATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATAGTTTAGACTATAAACTATGAAAA
2929492 GAGATGGT
66 GAGATGGT
2929500 TTCAACCATC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (87 bp):
ATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATAGTTTAGACTATAAACTATGAAAA
GAGATGGTGATGACCATCAACT
Found at i:2934041 original size:3 final size:3
Alignment explanation
Indices: 2934035--2934065 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2934025 GCTACTACTA
*
2934035 CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
2934066 AGAAGATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:2940760 original size:25 final size:24
Alignment explanation
Indices: 2940658--2940762 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 24
2940648 TTTCTAAAAA
* *
2940658 AGCTCGTATGAGCTTATCGATTTGT
1 AGCTCGTATGAGCTTACCGATTT-C
*
2940683 AGCTCTTGA-GAGCTTACCGATTCTC
1 AGCTCGT-ATGAGCTTACCGATT-TC
* * * *
2940708 AACTCATATGAGCTTGCCGATCCTC
1 AGCTCGTATGAGCTTACCGAT-TTC
2940733 AGCTCGTATGAGCTTACCGATTTAC
1 AGCTCGTATGAGCTTACCGATTT-C
2940758 AGCTC
1 AGCTC
2940763 ATGAGAGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.03
25 60 0.94
26 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGATTTC
Found at i:2940795 original size:25 final size:25
Alignment explanation
Indices: 2940692--2940799 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 25
2940682 TAGCTCTTGA
* * * *
2940692 GAGCTTACCGATTCTCAACTCATAT
1 GAGCATACCGATTCACAGCTCGTAT
* * * *
2940717 GAGCTTGCCGATCCTCAGCTCGTAT
1 GAGCATACCGATTCACAGCTCGTAT
* * *
2940742 GAGCTTACCGATTTACAGCTCATGA-
1 GAGCATACCGATTCACAGCTCGT-AT
*
2940767 GAGCATACTC-ATTCATAGCTCGTAT
1 GAGCATAC-CGATTCACAGCTCGTAT
2940792 GAGCATAC
1 GAGCATAC
2940800 ATGTACAGGA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.01
25 64 0.96
26 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCGTAT
Found at i:2946789 original size:53 final size:53
Alignment explanation
Indices: 2946721--2946966 Score: 257
Period size: 53 Copynumber: 4.6 Consensus size: 53
2946711 AGGTGTTACA
* * *
2946721 AAGATCGTAACTGATGGGTTATGACATCATATGGAAAAAATATCATATCGTGT
1 AAGACCGTAACTGATGGGTTATGGCATCATATGGAAAAAATACCATATCGTGT
* * * *
2946774 AAGACCGTAATTGATGGGTTATGGCATCATATAGAAAGTAA-ACCATATCATGT
1 AAGACCGTAACTGATGGGTTATGGCATCATATGGAAA-AAATACCATATCGTGT
* *
2946827 AAGACCGTAACT-AGTGGGTTGTGGCATCATATGGAAAAAATACCATATCGTCT
1 AAGACCGTAACTGA-TGGGTTATGGCATCATATGGAAAAAATACCATATCGTGT
** * * * * *
2946880 AAGACTATTAA-TGGTGGATTATGACATCATATGGAAAGAAGACCATATCGTGT
1 AAGAC-CGTAACTGATGGGTTATGGCATCATATGGAAAAAATACCATATCGTGT
** *
2946933 AAGGTCGTAACTGGA-GGGTTGTGGCATCATATGG
1 AAGACCGTAACT-GATGGGTTATGGCATCATATGG
2946967 GAAAGTTTAA
Statistics
Matches: 156, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
52 6 0.04
53 144 0.92
54 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (53 bp):
AAGACCGTAACTGATGGGTTATGGCATCATATGGAAAAAATACCATATCGTGT
Found at i:2946911 original size:106 final size:105
Alignment explanation
Indices: 2946721--2946966 Score: 307
Period size: 106 Copynumber: 2.3 Consensus size: 105
2946711 AGGTGTTACA
* * * * *
2946721 AAGATCGTAACTGATGGGTTATGACATCATATGGAAAAAATATCATATCGTGTAAGACCGTAATT
1 AAGATCGTAACTG-TGGGTTGTGGCATCATATGGAAAAAATACCATATCGTCTAAGACAGTAATT
* *
2946786 GATGGGTTATGGCATCATATAGAAAGTAA-ACCATATCATGT
65 GATGGATTATGACATCATATAGAAAG-AAGACCATATCATGT
* *
2946827 AAGACCGTAACTAGTGGGTTGTGGCATCATATGGAAAAAATACCATATCGTCTAAGACTATTAA-
1 AAGATCGTAACT-GTGGGTTGTGGCATCATATGGAAAAAATACCATATCGTCTAAGAC-AGTAAT
* * *
2946891 TGGTGGATTATGACATCATATGGAAAGAAGACCATATCGTGT
64 TGATGGATTATGACATCATATAGAAAGAAGACCATATCATGT
* *
2946933 AAGGTCGTAACTGGAGGGTTGTGGCATCATATGG
1 AAGATCGTAACT-GTGGGTTGTGGCATCATATGG
2946967 GAAAGTTTAA
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 2 0.02
106 115 0.95
107 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (105 bp):
AAGATCGTAACTGTGGGTTGTGGCATCATATGGAAAAAATACCATATCGTCTAAGACAGTAATTG
ATGGATTATGACATCATATAGAAAGAAGACCATATCATGT
Found at i:2947222 original size:57 final size:58
Alignment explanation
Indices: 2947144--2947254 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 58
2947134 ACTAAGTGTA
* * * *
2947144 AAGGATGCCATTGTGGCAAAACTCTT-AAAAGGTAAGCTTTTTTGGC-AACCTCTATTT
1 AAGGATGCCATTGCGGAAAAACT-TTGAAAAGGTAAGCCTTTATGGCGAACCTCTATTT
* *
2947201 AAGGATGCCTTTGCGGAAAAACTTTGGAAAGGTAAGCCTTTATGGCGAACCTCT
1 AAGGATGCCATTGCGGAAAAACTTTGAAAAGGTAAGCCTTTATGGCGAACCTCT
2947255 TAAGGAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.04
57 37 0.80
58 7 0.15
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (58 bp):
AAGGATGCCATTGCGGAAAAACTTTGAAAAGGTAAGCCTTTATGGCGAACCTCTATTT
Found at i:2951632 original size:21 final size:21
Alignment explanation
Indices: 2951608--2951647 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2951598 TTAAACTTCA
*
2951608 AAATTAGTTAAATTGTTGTTT
1 AAATTAGTTAAATTATTGTTT
**
2951629 AAATTTTTTAAATTATTGT
1 AAATTAGTTAAATTATTGT
2951648 ATATGAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
AAATTAGTTAAATTATTGTTT
Found at i:2965013 original size:29 final size:29
Alignment explanation
Indices: 2964981--2965059 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
2964971 AAACTCTGGA
* *
2964981 AAGGTAAGCTTTTGTGGC-AACCTTTGTTT
1 AAGG-AAGCCTTTGTGGCGAACCTCTGTTT
2965010 AAGGACA-CCTTTGTGGCGAACCTCTGTTT
1 AAGGA-AGCCTTTGTGGCGAACCTCTGTTT
*
2965039 AAGGACGCCTTTGTGGCGAAC
1 AAGGAAGCCTTTGTGGCGAAC
2965060 ATCTTAAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.23
29 34 0.77
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCGAACCTCTGTTT
Found at i:2972895 original size:19 final size:19
Alignment explanation
Indices: 2972871--2972907 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2972861 ATAGATATAT
*
2972871 TTTTATAGTTTATAATTTC
1 TTTTATAGTTTAAAATTTC
*
2972890 TTTTATATTTTAAAATTT
1 TTTTATAGTTTAAAATTT
2972908 TATATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAGTTTAAAATTTC
Found at i:2973327 original size:16 final size:16
Alignment explanation
Indices: 2973297--2973354 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
2973287 ATGACAATGC
2973297 AAAAATATC--AAATA
1 AAAAATATCAAAAATA
2973311 AAAAATATCAAAAAT-
1 AAAAATATCAAAAATA
2973326 ---AA-AT-AAAAATA
1 AAAAATATCAAAAATA
2973337 AAAAATATCAAAAATA
1 AAAAATATCAAAAATA
2973353 AA
1 AA
2973355 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
14 11 0.31
15 2 0.06
16 13 0.36
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATATCAAAAATA
Found at i:2973333 original size:10 final size:10
Alignment explanation
Indices: 2973306--2973372 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
2973296 CAAAAATATC
2973306 AAATAAAAA-
1 AAATAAAAAT
*
2973315 ATATCAAAAAT
1 AAAT-AAAAAT
2973326 AAATAAAAAT
1 AAATAAAAAT
2973336 --A-AAAAAT
1 AAATAAAAAT
2973343 --ATCAAAAAT
1 AAAT-AAAAAT
2973352 AAATAAAAAT
1 AAATAAAAAT
2973362 -AA-AAAAAT
1 AAATAAAAAT
2973370 AAA
1 AAA
2973373 CAATGACAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
7 7 0.14
8 7 0.14
9 13 0.27
10 17 0.35
11 5 0.10
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:2973339 original size:26 final size:26
Alignment explanation
Indices: 2973306--2973367 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
2973296 CAAAAATATC
2973306 AAATAAAAAATATCAAAAATAAATAA
1 AAATAAAAAATATCAAAAATAAATAA
2973332 AAATAAAAAATATCAAAAATAAATAA
1 AAATAAAAAATATCAAAAATAAATAA
2973358 AAATAAAAAA
1 AAATAAAAAA
2973368 ATAAACAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (26 bp):
AAATAAAAAATATCAAAAATAAATAA
Found at i:2973370 original size:40 final size:40
Alignment explanation
Indices: 2973297--2973372 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
2973287 ATGACAATGC
** *
2973297 AAAAATATCAAATAAAAAATATCAAAAATAAATAAAAATA
1 AAAAATATCAAATAAAAAATAAAAAAAAAAAATAAAAATA
*
2973337 AAAAATATCAAA-AATAAATAAAAATAAAAAAATAAA
1 AAAAATATCAAATAAAAAATAAAAA-AAAAAAATAAA
2973373 CAATGACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.29
40 22 0.71
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (40 bp):
AAAAATATCAAATAAAAAATAAAAAAAAAAAATAAAAATA
Found at i:2973894 original size:24 final size:25
Alignment explanation
Indices: 2973867--2973922 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
2973857 TATTAGTTTG
*
2973867 AAAAAAAGTATA-A-ATACATACAT
1 AAAAAAAATATACATATACATACAT
* *
2973890 AAAAATAAATATACATATATATAGAT
1 AAAAA-AAATATACATATACATACAT
2973916 AAAAAAA
1 AAAAAAA
2973923 TAATAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 6 0.22
25 3 0.11
26 13 0.48
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAAAAATATACATATACATACAT
Found at i:2975601 original size:44 final size:43
Alignment explanation
Indices: 2975412--2975830 Score: 198
Period size: 44 Copynumber: 9.7 Consensus size: 43
2975402 TTCTAATCCA
* * * * *
2975412 CTCCACTACAACTTTAGGGAGATAGGAT-TTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTTG--GATTTAATCTG
* * ** *
2975456 CCCCACTGCAATTTCAAGGG-GATAAGA-CTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGATCTTG-GAT-TT-AATCTG
* ** * * *
2975501 CTGCACTGCAACTTCAGGGAGATAAGA-C-CCGATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTTGGATTTAATCTG
* * *
2975542 CTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-TGGATTTAATCTG
* * * *
2975586 CTCCACTGCAACTTCAAGGAGATAAGAT-TCGCCATTATCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTTG-GATT-T-AATCTG
* * * *
2975631 C-CTCACTGCAACTTCA-GGAGGATAAGA-CTTGCTTACTTAGTCTT
1 CTC-CACTGCAACTTCAGGGA-GATAAGATCTTG--GATTTAATCTG
* *** *
2975675 CTCCACTGCAACTTCAGGGAGATAAGA-C-TAGATGCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTTGGATTTAATCTG
* * * * *
2975716 CT-CTCTACAACTTTAGAGAGATAAGATC-TGTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTTG-GA-TTTAATCTG
* * * *
2975759 CTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TCTTGGATTTAATCTG
* * *
2975803 CTTCACTACAACTTTAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
2975831 TCGCCATCTT
Statistics
Matches: 281, Mismatches: 71, Indels: 47
0.70 0.18 0.12
Matches are distributed among these distances:
40 20 0.07
41 34 0.12
42 5 0.02
43 15 0.05
44 138 0.49
45 65 0.23
46 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTTGGATTTAATCTG
Found at i:2975680 original size:89 final size:86
Alignment explanation
Indices: 2975450--2975702 Score: 250
Period size: 89 Copynumber: 2.9 Consensus size: 86
2975440 TTGTTTATTT
* * * *
2975450 AGTCTGCCCCACTGCAATTTCAAGG-GGATAAGACTTGCTTTCTTGAGTCTGCTGCACTGCAACT
1 AGTCTGCCTCACTGCAACTTC-AGGAGGATAAGACTTGCTTACTT-AGTCTGCTCCACTGCAACT
* *
2975514 TCAGGGAGATAAGACCCGATGTG
64 TCAGGGAGATAAGACCCGATATC
* * * * *
2975537 A-TCT-ACTCTACAGCAACTTCA-GAGAGATAAGA-TCTG-TGGATTTAATCTGCTCCACTGCAA
1 AGTCTGCCTC-ACTGCAACTTCAGGAG-GATAAGACT-TGCT-TACTTAGTCTGCTCCACTGCAA
*
2975597 CTTCAAGGAGATAAGATTCGCC-ATTATC
62 CTTCAGGGAGATAAGA--C-CCGA-TATC
*
2975625 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC
2975690 AGGGAGATAAGAC
66 AGGGAGATAAGAC
2975703 TAGATGCGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 28
0.74 0.11 0.16
Matches are distributed among these distances:
84 1 0.01
85 36 0.27
86 23 0.17
87 4 0.03
88 5 0.04
89 56 0.42
90 8 0.06
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (86 bp):
AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACCCGATATC
Found at i:2976323 original size:267 final size:267
Alignment explanation
Indices: 2975838--2976383 Score: 781
Period size: 267 Copynumber: 2.0 Consensus size: 267
2975828 GATTCGCCAT
* * * * * * *
2975838 CTTCAGTCTTTTTAATTGAAATGTTGGGGAAATAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGAAATGTTGAGGAAACAAGATCCACCATCGTAGCTTCAATCTATTCCA
* ** * *
2975903 CTACACCGCCAAAGAAGTAAGATTCGCCGTTCCGGCTTCAATCTTTTTCATTGTAATGCCAAAAA
66 CTACACCGCCAAAGAAGTAAGATTCGCCGTTCCGGCTTCAATATGCTCCACTGTAATGCCAAAAA
*
2975968 GATAGGATTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
131 GATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
* *
2976033 GAGATAAGATTCGCCGCCGTGGCTTAAATCTGCTCCGTTACAACGCCAGGGAAGTAAGATTCGCC
196 GAGATAAGATTCGCCGCCGTGGCTTAAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCC
2976098 GTTGCGG
261 GTTGCGG
*
2976105 CTTGAATCTTTTTAATT-ATAATGTTGAGGAAACAAGATCCACCATCGTAGCTTCAATCTATTCC
1 CTTCAATCTTTTTAATTGA-AATGTTGAGGAAACAAGATCCACCATCGTAGCTTCAATCTATTCC
* ** * * *
2976169 ACTACACTGCCAGGGGAGTAAGATTCGTCGTTGCGGCCTT-AATATGCTCCACTGTAATGCCAAA
65 ACTACACCGCCAAAGAAGTAAGATTCGCCGTTCCGG-CTTCAATATGCTCCACTGTAATGCCAAA
* **
2976233 GAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAATTCCA
129 AAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCA
* * * * *
2976298 GGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTATAACGCCAGGGAAATAAGATTCG
194 AGGAGATAAGATTCGCCGCCGTGGCTTAAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCG
*
2976363 CCGTTGTGG
259 CCGTTGCGG
2976372 CTTCAATCTTTT
1 CTTCAATCTTTT
2976384 CCATTGCTAC
Statistics
Matches: 245, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
266 1 0.00
267 241 0.98
268 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (267 bp):
CTTCAATCTTTTTAATTGAAATGTTGAGGAAACAAGATCCACCATCGTAGCTTCAATCTATTCCA
CTACACCGCCAAAGAAGTAAGATTCGCCGTTCCGGCTTCAATATGCTCCACTGTAATGCCAAAAA
GATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
GAGATAAGATTCGCCGCCGTGGCTTAAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCC
GTTGCGG
Found at i:2976478 original size:45 final size:45
Alignment explanation
Indices: 2976423--2976567 Score: 150
Period size: 45 Copynumber: 3.3 Consensus size: 45
2976413 TATCTTCGAT
* *
2976423 CTACTTCACTGCCAATACAGGAAGGCAAGATCTGCTATTTTCAAC
1 CTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
*** * * * * * *
2976468 CTACTCCACTGCTGCT-CAGGGAGACAAG-GCTGGTATCTTCGAT
1 CTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
* * *
2976511 CTACTTCACCGCCAATATAGGAAGACAAGATCTGCTATTTTCAAC
1 CTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
2976556 CTACTCCACTGC
1 CTACTCCACTGC
2976568 TGTTCAGGGA
Statistics
Matches: 73, Mismatches: 25, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
43 21 0.29
44 20 0.27
45 32 0.44
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (45 bp):
CTACTCCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAAC
Found at i:2976539 original size:44 final size:45
Alignment explanation
Indices: 2976405--2976567 Score: 134
Period size: 45 Copynumber: 3.7 Consensus size: 45
2976395 TCAAGGCAAT
* *
2976405 AAGA-CTGATATCTTCGATCTACTTCACTGCCAATACAGGAAGGC
1 AAGAGCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGAC
* * * * * *** *
2976449 AAGATCTGCTATTTTCAACCTACTCCACTGCTGCT-CAGGGAGAC
1 AAGAGCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGAC
* * *
2976493 AAG-GCTGGTATCTTCGATCTACTTCACCGCCAATATAGGAAGAC
1 AAGAGCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGAC
* * * * *
2976537 AAGATCTGCTATTTTCAACCTACTCCACTGC
1 AAGAGCTGCTATCTTCGATCTACTTCACTGC
2976568 TGTTCAGGGA
Statistics
Matches: 87, Mismatches: 29, Indels: 5
0.72 0.24 0.04
Matches are distributed among these distances:
43 21 0.24
44 24 0.28
45 42 0.48
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (45 bp):
AAGAGCTGCTATCTTCGATCTACTTCACTGCCAATACAGGAAGAC
Found at i:2976562 original size:88 final size:88
Alignment explanation
Indices: 2976413--2976584 Score: 308
Period size: 88 Copynumber: 2.0 Consensus size: 88
2976403 ATAAGACTGA
* *
2976413 TATCTTCGATCTACTTCACTGCCAATACAGGAAGGCAAGATCTGCTATTTTCAACCTACTCCACT
1 TATCTTCGATCTACTTCACCGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT
2976478 GCTGCTCAGGGAGACAAGGCTGG
66 GCTGCTCAGGGAGACAAGGCTGG
*
2976501 TATCTTCGATCTACTTCACCGCCAATATAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT
1 TATCTTCGATCTACTTCACCGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT
*
2976566 GCTGTTCAGGGAGACAAGG
66 GCTGCTCAGGGAGACAAGG
2976585 TTGGAGTTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (88 bp):
TATCTTCGATCTACTTCACCGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACT
GCTGCTCAGGGAGACAAGGCTGG
Found at i:2976581 original size:44 final size:44
Alignment explanation
Indices: 2976448--2976583 Score: 141
Period size: 44 Copynumber: 3.1 Consensus size: 44
2976438 TACAGGAAGG
*
2976448 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
* * * * * * * ** *
2976492 CAAG-GCTGGTATCTTCGATCTACTTCACCGCCAATAT-AGGAAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTG-CTGT-TCAGGGAGA
2976536 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
2976580 CAAG
1 CAAG
2976584 GTTGGAGTTT
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 20 0.30
44 27 0.40
45 20 0.30
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
Found at i:2977870 original size:12 final size:11
Alignment explanation
Indices: 2977847--2977903 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 11
2977837 CCTTTTCCTC
2977847 TTCTTCTTTCTTT
1 TTCTT-TTTC-TT
*
2977860 TTCGTTTTCTTT
1 TTCTTTTTC-TT
2977872 TTCTTTTTTCTT
1 TTC-TTTTTCTT
2977884 TTCTTTTTCTT
1 TTCTTTTTCTT
2977895 TTCCTTTTT
1 TT-CTTTTT
2977904 TCCATCATCA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.25
12 21 0.52
13 9 0.22
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:2977874 original size:18 final size:17
Alignment explanation
Indices: 2977847--2977902 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 17
2977837 CCTTTTCCTC
2977847 TTCTTCTTTCTTTTTCGTT
1 TTCTT-TTTCTTTTTC-TT
2977866 TTCTTTTTCTTTTTTCTT
1 TTCTTTTTC-TTTTTCTT
*
2977884 TTCTTTTTCTTTTCCTT
1 TTCTTTTTCTTTTTCTT
2977901 TT
1 TT
2977903 TTCCATCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
17 9 0.26
18 15 0.43
19 11 0.31
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (17 bp):
TTCTTTTTCTTTTTCTT
Found at i:2977903 original size:18 final size:18
Alignment explanation
Indices: 2977838--2977903 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
2977828 TTGGCCTCTC
*
2977838 CTTTTCC-TCTTCTTCTTT
1 CTTTTCCTTTTTCTT-TTT
* *
2977856 CTTTTTCGTTTTCTTTTT
1 CTTTTCCTTTTTCTTTTT
*
2977874 CTTTT-TTCTTTTCTTTTT
1 CTTTTCCT-TTTTCTTTTT
2977892 CTTTTCCTTTTT
1 CTTTTCCTTTTT
2977904 TCCATCATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 33 0.82
19 7 0.17
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTTTCCTTTTTCTTTTT
Found at i:2983912 original size:22 final size:22
Alignment explanation
Indices: 2983882--2983931 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2983872 ATTCTTTTAA
* *
2983882 AATATAAATGAA-GACATAAATC
1 AATAAAAATGAATGAAATAAA-C
2983904 AATAAAAATGAATGAAATAAAC
1 AATAAAAATGAATGAAATAAAC
2983926 AA-AAAA
1 AATAAAA
2983932 TATAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 14 0.56
23 7 0.28
ACGTcount: A:0.68, C:0.06, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAAAAATGAATGAAATAAAC
Found at i:2988223 original size:25 final size:25
Alignment explanation
Indices: 2988195--2988262 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
2988185 GAAACTCTTG
*
2988195 TGAGCCATATAACGGGAAGCTCATT
1 TGAGCCATATAACGGGAAGCTCATA
*
2988220 TGAGCCATGTAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* *
2988245 CGAGCCA-ATAACAGGAAG
1 TGAGCCATATAACGGGAAG
2988263 GTTCAAGCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATA
Found at i:2992131 original size:51 final size:51
Alignment explanation
Indices: 2992055--2992249 Score: 198
Period size: 51 Copynumber: 3.8 Consensus size: 51
2992045 CATGAGAACT
* * **
2992055 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAGTTATGGTCA
* *
2992106 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTT-TCGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAG-TTATGGTCA
* * * * * *
2992157 CGTGTGTAGTATTATGTGCAGGCTACTA-CATGTACCGGAT-GGTAGTGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGA-GTACCAGATAGTTA-TGGTCA
* * * *
2992208 CATGTTTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAG
2992250 CATTGATCAT
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 112 0.96
52 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGAGTACCAGATAGTTATGGTCA
Found at i:3003659 original size:348 final size:348
Alignment explanation
Indices: 3003022--3003717 Score: 1392
Period size: 348 Copynumber: 2.0 Consensus size: 348
3003012 TTTCTTGGAC
3003022 TAACCAAGGAGCTGGACCCAGTAACACTTATGCACAACCTAGACCGACCTAACCACATGTATTTA
1 TAACCAAGGAGCTGGACCCAGTAACACTTATGCACAACCTAGACCGACCTAACCACATGTATTTA
3003087 CCTAACAAGTTCAAAAACAACCTTAAGCTGAATCTTCCAATGGCTTAGAAAACCTATTGAAGGCA
66 CCTAACAAGTTCAAAAACAACCTTAAGCTGAATCTTCCAATGGCTTAGAAAACCTATTGAAGGCA
3003152 TACATAGAAAAAAATGATGCCTTAATACAAAGTCAAGTAGCCACATTGAAAAACCTAGAAAACCA
131 TACATAGAAAAAAATGATGCCTTAATACAAAGTCAAGTAGCCACATTGAAAAACCTAGAAAACCA
3003217 AATGGGGCAGCTTGCAACTGAACATAGGAACCGACCACAAGGTGCTTTGCCTAGTGATACGAAAA
196 AATGGGGCAGCTTGCAACTGAACATAGGAACCGACCACAAGGTGCTTTGCCTAGTGATACGAAAA
3003282 ACCCAAGAAATCCAAGGAAAGAACATTGTAAAGCATTGATGTTGAGAAGCAAGAAGACATTAGAT
261 ACCCAAGAAATCCAAGGAAAGAACATTGTAAAGCATTGATGTTGAGAAGCAAGAAGACATTAGAT
3003347 CCCAACACTGTCGAAGTTGAAGA
326 CCCAACACTGTCGAAGTTGAAGA
3003370 TAACCAAGGAGCTGGACCCAGTAACACTTATGCACAACCTAGACCGACCTAACCACATGTATTTA
1 TAACCAAGGAGCTGGACCCAGTAACACTTATGCACAACCTAGACCGACCTAACCACATGTATTTA
3003435 CCTAACAAGTTCAAAAACAACCTTAAGCTGAATCTTCCAATGGCTTAGAAAACCTATTGAAGGCA
66 CCTAACAAGTTCAAAAACAACCTTAAGCTGAATCTTCCAATGGCTTAGAAAACCTATTGAAGGCA
3003500 TACATAGAAAAAAATGATGCCTTAATACAAAGTCAAGTAGCCACATTGAAAAACCTAGAAAACCA
131 TACATAGAAAAAAATGATGCCTTAATACAAAGTCAAGTAGCCACATTGAAAAACCTAGAAAACCA
3003565 AATGGGGCAGCTTGCAACTGAACATAGGAACCGACCACAAGGTGCTTTGCCTAGTGATACGAAAA
196 AATGGGGCAGCTTGCAACTGAACATAGGAACCGACCACAAGGTGCTTTGCCTAGTGATACGAAAA
3003630 ACCCAAGAAATCCAAGGAAAGAACATTGTAAAGCATTGATGTTGAGAAGCAAGAAGACATTAGAT
261 ACCCAAGAAATCCAAGGAAAGAACATTGTAAAGCATTGATGTTGAGAAGCAAGAAGACATTAGAT
3003695 CCCAACACTGTCGAAGTTGAAGA
326 CCCAACACTGTCGAAGTTGAAGA
3003718 GGAGCCAACT
Statistics
Matches: 348, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
348 348 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (348 bp):
TAACCAAGGAGCTGGACCCAGTAACACTTATGCACAACCTAGACCGACCTAACCACATGTATTTA
CCTAACAAGTTCAAAAACAACCTTAAGCTGAATCTTCCAATGGCTTAGAAAACCTATTGAAGGCA
TACATAGAAAAAAATGATGCCTTAATACAAAGTCAAGTAGCCACATTGAAAAACCTAGAAAACCA
AATGGGGCAGCTTGCAACTGAACATAGGAACCGACCACAAGGTGCTTTGCCTAGTGATACGAAAA
ACCCAAGAAATCCAAGGAAAGAACATTGTAAAGCATTGATGTTGAGAAGCAAGAAGACATTAGAT
CCCAACACTGTCGAAGTTGAAGA
Found at i:3005323 original size:15 final size:16
Alignment explanation
Indices: 3005303--3005346 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
3005293 AATGAAAAGG
*
3005303 ATGAAAAGGTTTTC-A
1 ATGAAAAGGTTATCGA
3005318 ATGAAAAGGTTATCGA
1 ATGAAAAGGTTATCGA
*
3005334 TTGAAAAGGTTAT
1 ATGAAAAGGTTAT
3005347 TGATTAGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (16 bp):
ATGAAAAGGTTATCGA
Found at i:3005340 original size:16 final size:16
Alignment explanation
Indices: 3005304--3005351 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
3005294 ATGAAAAGGA
* *
3005304 TGAAAAGGTTTTC-AA
1 TGAAAAGGTTATCGAT
3005319 TGAAAAGGTTATCGAT
1 TGAAAAGGTTATCGAT
*
3005335 TGAAAAGGTTATTGAT
1 TGAAAAGGTTATCGAT
3005351 T
1 T
3005352 AGAACAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (16 bp):
TGAAAAGGTTATCGAT
Found at i:3020185 original size:61 final size:60
Alignment explanation
Indices: 3020037--3020186 Score: 140
Period size: 61 Copynumber: 2.5 Consensus size: 60
3020027 ATTTACACAT
* * *
3020037 TCTATCAATTTGATCCTAAATATAAAAAATTCAATAAATTTAGCCCTCAATATTTTTAAAA
1 TCTATCAATTAG-TCCTAAATATAAAAAATTCAATAAATTTAACCCTCAATATTTATAAAA
** * * * * * *
3020098 -AAATTCATTTTAGTTCTAATTGTAAAAAATTTAATAAATTTAACTCTCAATATTTATAAAA
1 TCTA-TCA-ATTAGTCCTAAATATAAAAAATTCAATAAATTTAACCCTCAATATTTATAAAA
* *
3020159 TCTATCAATTCAGTCCTAACTCTAAAAA
1 TCTATCAATT-AGTCCTAAATATAAAAA
3020187 TTAAAAATAT
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
60 3 0.04
61 61 0.90
62 4 0.06
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (60 bp):
TCTATCAATTAGTCCTAAATATAAAAAATTCAATAAATTTAACCCTCAATATTTATAAAA
Found at i:3023798 original size:10 final size:10
Alignment explanation
Indices: 3023785--3023826 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
3023775 TACCAAAATT
3023785 AAAATTTACC
1 AAAATTTACC
3023795 AAAA-TT---
1 AAAATTTACC
3023801 AAAATTTACC
1 AAAATTTACC
3023811 AAAATTTACC
1 AAAATTTACC
3023821 AAAATT
1 AAAATT
3023827 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
9 2 0.07
10 20 0.71
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTACC
Found at i:3023832 original size:16 final size:16
Alignment explanation
Indices: 3023771--3023816 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
3023761 AAACTATATT
3023771 AATTTACCAAAATTAA
1 AATTTACCAAAATTAA
3023787 AATTTACCAAAATTAA
1 AATTTACCAAAATTAA
3023803 AATTTACCAAAATT
1 AATTTACCAAAATT
3023817 TACCAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTACCAAAATTAA
Found at i:3025812 original size:5 final size:5
Alignment explanation
Indices: 3025802--3025845 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
3025792 TAATGTATTC
* *
3025802 CATAT CATAT CATAT CATAT CAGAT CATAT CACAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
3025846 TTAATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:3029234 original size:25 final size:25
Alignment explanation
Indices: 3029166--3029241 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
3029156 TTCTCATTCT
* *
3029166 AATTTTACCCCAGTAAATTTTTTGAC
1 AATTTTACCCCGGTAAA-ATTTTGAC
* *
3029192 AATTTTACCCCCGATAAAATTTTGAT
1 AATTTTA-CCCCGGTAAAATTTTGAC
*
3029218 GATTTTACCCCGGTAAAATTTTGA
1 AATTTTACCCCGGTAAAATTTTGA
3029242 GAAAATTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
25 16 0.37
26 19 0.44
27 8 0.19
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (25 bp):
AATTTTACCCCGGTAAAATTTTGAC
Found at i:3035130 original size:69 final size:69
Alignment explanation
Indices: 3035048--3035198 Score: 284
Period size: 69 Copynumber: 2.2 Consensus size: 69
3035038 CAAGAAACTG
*
3035048 AATCTCGGTCCAATTTTGCTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCT
1 AATCTTGGTCCAATTTTGCTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCT
3035113 TGGA
66 TGGA
*
3035117 AATCTTGGTCCAATTTTGCTGTTTTGAGCGATTTCAAGAATCAAGGAAATCAAGATTTCAAATCT
1 AATCTTGGTCCAATTTTGCTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCT
3035182 TGGA
66 TGGA
3035186 AATCTTGGTCCAA
1 AATCTTGGTCCAA
3035199 GAAACCTAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 80 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (69 bp):
AATCTTGGTCCAATTTTGCTGTTTTGAGCGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCT
TGGA
Found at i:3053602 original size:13 final size:11
Alignment explanation
Indices: 3053574--3053616 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
3053564 AGTTAAATAT
3053574 TATTTTATTAA
1 TATTTTATTAA
3053585 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
3053598 TA-TTTATTAT
1 TATTTTATTAA
3053608 TATTTTATT
1 TATTTTATT
3053617 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:3053603 original size:23 final size:23
Alignment explanation
Indices: 3053577--3053620 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3053567 TAAATATTAT
3053577 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
3053600 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
3053621 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:3060510 original size:17 final size:18
Alignment explanation
Indices: 3060488--3060523 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3060478 CCTCCAGCCA
3060488 ATGTTT-ATAGATGAAAC
1 ATGTTTGATAGATGAAAC
*
3060505 ATGTTTGATAGATTAAAC
1 ATGTTTGATAGATGAAAC
3060523 A
1 A
3060524 ATAAGAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (18 bp):
ATGTTTGATAGATGAAAC
Found at i:3063976 original size:20 final size:20
Alignment explanation
Indices: 3063942--3063997 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
3063932 GCATCATAGA
*
3063942 TGCATAACAGGGGCATCGAA-G
1 TGCA-AACAGGGGCA-CAAATG
*
3063963 TGCAAACAGAGGCACAAATG
1 TGCAAACAGGGGCACAAATG
3063983 TGCAAACAGGGGCAC
1 TGCAAACAGGGGCAC
3063998 CGTAGTGGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACAAATG
Found at i:3082841 original size:41 final size:40
Alignment explanation
Indices: 3082756--3082864 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 40
3082746 ACCAGCTTTT
* * * * * *
3082756 AGCCTGCTAGACTTATAGTCCGAATAATTTCACTGGCATTA
1 AGCCTGCTAGAC-AATAGTCTGAATTATATCACCGGCATCA
*
3082797 AGCCTGCTAGACAATGAGTCTGAATTATATCACCGGTATCA
1 AGCCTGCTAGACAAT-AGTCTGAATTATATCACCGGCATCA
*
3082838 AGCCTGTTAGACAATAAGTCTGAATTA
1 AGCCTGCTAGACAAT-AGTCTGAATTA
3082865 CATTCGATCA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.03
41 56 0.97
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (40 bp):
AGCCTGCTAGACAATAGTCTGAATTATATCACCGGCATCA
Found at i:3084540 original size:13 final size:13
Alignment explanation
Indices: 3084522--3084546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3084512 TCAAACGACT
3084522 AAATTTTCACACG
1 AAATTTTCACACG
3084535 AAATTTTCACAC
1 AAATTTTCACAC
3084547 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:3094955 original size:51 final size:51
Alignment explanation
Indices: 3094842--3095043 Score: 205
Period size: 51 Copynumber: 4.0 Consensus size: 51
3094832 AAAAAATCAT
* * * * *
3094842 GGCTTTGCGGAGAAAGGTTGGTAT-ATACGAGAAACAAAATTTATTT-AAAATA
1 GGCTTTGCGGAGGAAGGTTGGTATGTTACGAG-AATATAA-TGATTTGAAAA-A
* * **
3094894 -ACTTTACGGAGGAAGGTTGGTATGTTACGAGAATATAATGATTTGAGGAA
1 GGCTTTGCGGAGGAAGGTTGGTATGTTACGAGAATATAATGATTTGAAAAA
*
3094944 GGCTTTGCGGAGGAAGGTTGGTATGTTAC-AGGACTATAATGATTTGAAAAA
1 GGCTTTGCGGAGGAAGGTTGGTATGTTACGA-GAATATAATGATTTGAAAAA
* * * * *
3094995 GGTTTTGCAGATGAAGGTTGGTATGTTATGGGAATATAATGATTTGAAA
1 GGCTTTGCGGAGGAAGGTTGGTATGTTACGAGAATATAATGATTTGAAA
3095044 TGGTCTTGGG
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
50 7 0.06
51 112 0.90
52 6 0.05
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (51 bp):
GGCTTTGCGGAGGAAGGTTGGTATGTTACGAGAATATAATGATTTGAAAAA
Found at i:3095745 original size:1 final size:1
Alignment explanation
Indices: 3095739--3095769 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
3095729 AGTACCTAGA
3095739 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3095770 GTAAATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3097591 original size:20 final size:20
Alignment explanation
Indices: 3097555--3097604 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3097545 ATCATGATCT
* *
3097555 TTACTTTCTTCTTTACTTAC
1 TTACTTACTTGTTTACTTAC
3097575 TCT-CTTACTTGTTTACTTAC
1 T-TACTTACTTGTTTACTTAC
3097595 TTACTTACTT
1 TTACTTACTT
3097605 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (20 bp):
TTACTTACTTGTTTACTTAC
Found at i:3107221 original size:21 final size:20
Alignment explanation
Indices: 3107176--3107221 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
3107166 TTGCTGGAAT
3107176 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
3107195 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
3107216 GGTTGA
1 GGTTGA
3107222 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:3107911 original size:24 final size:24
Alignment explanation
Indices: 3107882--3107930 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3107872 TATTTAGTTC
3107882 ACTTAGTTTAAAATCTTAGTTTTT
1 ACTTAGTTTAAAATCTTAGTTTTT
3107906 ACTTAGTTTAAAATCTTAGTTTTT
1 ACTTAGTTTAAAATCTTAGTTTTT
3107930 A
1 A
3107931 ATCACCCTCT
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:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (24 bp):
ACTTAGTTTAAAATCTTAGTTTTT
Found at i:3107933 original size:13 final size:13
Alignment explanation
Indices: 3107883--3107927 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
3107873 ATTTAGTTCA
3107883 CTTAGTTTAAAAT
1 CTTAGTTTAAAAT
**
3107896 CTTAGTTT-TTA-
1 CTTAGTTTAAAAT
3107907 CTTAGTTTAAAAT
1 CTTAGTTTAAAAT
3107920 CTTAGTTT
1 CTTAGTTT
3107928 TTAATCACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (13 bp):
CTTAGTTTAAAAT
Found at i:3122997 original size:25 final size:25
Alignment explanation
Indices: 3122938--3122999 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
3122928 CAGCTCGTAT
* * *
3122938 AAGCATACCAATTTATAGCTCATGA
1 AAGCATACCGATCTATAGCTCAAGA
3122963 AAGCATACCGATCTATAGCTCAAGA
1 AAGCATACCGATCTATAGCTCAAGA
3122988 AAGCATACCGAT
1 AAGCATACCGAT
3123000 TAACAGCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (25 bp):
AAGCATACCGATCTATAGCTCAAGA
Found at i:3124268 original size:12 final size:12
Alignment explanation
Indices: 3124251--3124278 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3124241 TCACACGGCT
3124251 GTGTGCTAGGCC
1 GTGTGCTAGGCC
3124263 GTGTGCTAGGCC
1 GTGTGCTAGGCC
3124275 GTGT
1 GTGT
3124279 AACAGCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:3129202 original size:5 final size:5
Alignment explanation
Indices: 3129192--3129216 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3129182 TGAACACAGA
3129192 CCTTT CCTTT CCTTT CCTTT CCTTT
1 CCTTT CCTTT CCTTT CCTTT CCTTT
3129217 TTCATTCCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CCTTT
Found at i:3132832 original size:25 final size:25
Alignment explanation
Indices: 3132742--3132833 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 25
3132732 TCATGTACAT
* * * *
3132742 GTATGCTCATACGAGCTCTGAATCT
1 GTATGCTCACACGAGCTATAAATCA
** * * *
3132767 GTATGCTCACTTGAGCTTTAGATCG
1 GTATGCTCACACGAGCTATAAATCA
* *
3132792 GTATGCTCTCATGAGCTATAAATCA
1 GTATGCTCACACGAGCTATAAATCA
3132817 GTATGCTCACACGAGCT
1 GTATGCTCACACGAGCT
3132834 GTGGGTTGGA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATCA
Found at i:3137911 original size:28 final size:28
Alignment explanation
Indices: 3137870--3137986 Score: 173
Period size: 28 Copynumber: 4.2 Consensus size: 28
3137860 TATGCAAGTA
*
3137870 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
3137897 ACAGCAACAATGTGGGCCTTATCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
3137925 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* * *
3137953 ACAATAATAATGTGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
3137981 ACAGTA
1 ACAGTA
3137987 TCGATACAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 4 0.05
28 76 0.95
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:3138372 original size:27 final size:27
Alignment explanation
Indices: 3138342--3138400 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
3138332 ATCTCCTAGC
3138342 GGTATAAT-AGTCATTTTACCCTATGAG
1 GGTAT-ATCAGTCATTTTACCCTATGAG
* * *
3138369 GGTATTTCGGTCATTTTACCCTATGGG
1 GGTATATCAGTCATTTTACCCTATGAG
3138396 GGTAT
1 GGTAT
3138401 TTTGATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (27 bp):
GGTATATCAGTCATTTTACCCTATGAG
Found at i:3138401 original size:27 final size:27
Alignment explanation
Indices: 3138354--3138518 Score: 156
Period size: 27 Copynumber: 6.1 Consensus size: 27
3138344 TATAATAGTC
* * *
3138354 ATTTTACCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCAGTT
*
3138381 ATTTTACCCTATGGGGGTATTT-TGATT
1 ATTTTACCCTATGGGGGTATTTCAG-TT
* *
3138408 ATTTTACCGTATTGGGG-ACTTT-AGTT
1 ATTTTACCCTATGGGGGTA-TTTCAGTT
* *
3138434 ATTTTACCCTATGGAGGTATTTCATTT
1 ATTTTACCCTATGGGGGTATTTCAGTT
* **
3138461 ATTTTATCCTATGGGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCAGTT
* * * *
3138488 ATTTTAACCTATAGAGGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCAGTT
3138515 ATTT
1 ATTT
3138519 ATTGACCTCT
Statistics
Matches: 113, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
26 21 0.19
27 92 0.81
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCAGTT
Found at i:3138510 original size:54 final size:52
Alignment explanation
Indices: 3138354--3138511 Score: 174
Period size: 54 Copynumber: 3.0 Consensus size: 52
3138344 TATAATAGTC
* * * * *
3138354 ATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTGATT
1 ATTTTA-CCTATGGGGGTATTTTGGTTATTTTACCCTATGGAGGTA-TTTCATT
* * *
3138408 ATTTTACCGTATTGGGG-ACTTTAGTTATTTTACCCTATGGAGGTATTTCATTT
1 ATTTTACC-TATGGGGGTATTTTGGTTATTTTACCCTATGGAGGTATTTCA-TT
* *
3138461 ATTTTATCCTATGGGGGTATTTTGGTTATTTTAACCTATAGAGGTATTTCA
1 ATTTTA-CCTATGGGGGTATTTTGGTTATTTTACCCTATGGAGGTATTTCA
3138512 GTCATTTATT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.05
53 40 0.46
54 43 0.49
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (52 bp):
ATTTTACCTATGGGGGTATTTTGGTTATTTTACCCTATGGAGGTATTTCATT
Found at i:3139756 original size:7 final size:7
Alignment explanation
Indices: 3139744--3139778 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
3139734 GTCTCCCTAT
3139744 AGTTTCC
1 AGTTTCC
3139751 AGTTTCC
1 AGTTTCC
*
3139758 AGTTTCT
1 AGTTTCC
*
3139765 AGTTTCT
1 AGTTTCC
3139772 AGTTTCC
1 AGTTTCC
3139779 TACAGTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (7 bp):
AGTTTCC
Found at i:3140891 original size:22 final size:22
Alignment explanation
Indices: 3140866--3140909 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3140856 TAGACATGCC
*
3140866 ACCATTAATTTGTAGATAAACT
1 ACCATTAATTTGCAGATAAACT
*
3140888 ACCATTGATTTGCAGATAAACT
1 ACCATTAATTTGCAGATAAACT
3140910 TCCACTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
ACCATTAATTTGCAGATAAACT
Found at i:3140918 original size:22 final size:22
Alignment explanation
Indices: 3140873--3140918 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3140863 GCCACCATTA
* *
3140873 ATTTGTAGATAAACTACCATTG
1 ATTTGCAGATAAACTACCACTG
*
3140895 ATTTGCAGATAAACTTCCACTG
1 ATTTGCAGATAAACTACCACTG
3140917 AT
1 AT
3140919 AACACTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (22 bp):
ATTTGCAGATAAACTACCACTG
Found at i:3145893 original size:17 final size:18
Alignment explanation
Indices: 3145857--3145893 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3145847 CAAGTTTGTG
*
3145857 TCGCATAATAACATTGGT
1 TCGCATAACAACATTGGT
3145875 TCGCATAACAACA-TGGT
1 TCGCATAACAACATTGGT
3145892 TC
1 TC
3145894 ACATGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (18 bp):
TCGCATAACAACATTGGT
Found at i:3155817 original size:13 final size:13
Alignment explanation
Indices: 3155799--3155823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3155789 AATCATACAG
3155799 TTCGATAAAATTT
1 TTCGATAAAATTT
3155812 TTCGATAAAATT
1 TTCGATAAAATT
3155824 CTTGTAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTCGATAAAATTT
Done.