Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 99 of 328
Found at i:27723142 original size:26 final size:26
Alignment explanation
Indices: 27723109--27723161 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
27723099 ACACGAGGTA
27723109 AGAGTAAGGTCCCCGCTCAGTCCAAG
1 AGAGTAAGGTCCCCGCTCAGTCCAAG
*
27723135 AGAGTAAGGTGCCCGCTCAGTCCAAG
1 AGAGTAAGGTCCCCGCTCAGTCCAAG
27723161 A
1 A
27723162 AATGAAAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.15
Consensus pattern (26 bp):
AGAGTAAGGTCCCCGCTCAGTCCAAG
Found at i:27725611 original size:46 final size:44
Alignment explanation
Indices: 27725507--27725614 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
27725497 TGTCTTTGAC
** * * *
27725507 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
27725551 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27725597 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27725615 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27731560 original size:46 final size:44
Alignment explanation
Indices: 27731456--27731563 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
27731446 TGTCTTTGAC
** * * *
27731456 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
27731500 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27731546 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27731564 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27741850 original size:22 final size:22
Alignment explanation
Indices: 27741825--27741867 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27741815 TATAGTTACA
* *
27741825 GAACATATCAAATACAGATGCG
1 GAACAAATCAAATACAAATGCG
*
27741847 GAACAAATCAGATACAAATGC
1 GAACAAATCAAATACAAATGC
27741868 AGATTCCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (22 bp):
GAACAAATCAAATACAAATGCG
Found at i:27743570 original size:42 final size:41
Alignment explanation
Indices: 27743486--27743600 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 41
27743476 TCATATAAGT
* * * * *
27743486 TTCAGTTTAACCCTTCTGGGTTTCAGTTCAGCTTTTTCGAGC
1 TTCAGTTTAA-CCTTATGGGTTTCCGTTTAGCTCTATCGAGC
27743528 TTCAGTTTAACCTTTATGGGTTTCCGTTTAGCTCCTAT-GAGC
1 TTCAGTTTAACC-TTATGGGTTTCCGTTTAGCT-CTATCGAGC
* * * *
27743570 TTCCGTTCAACCTTAAGGGTTTCCATTTAGC
1 TTCAGTTTAACCTTATGGGTTTCCGTTTAGC
27743601 ACTTATGTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 19 0.31
42 41 0.66
43 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (41 bp):
TTCAGTTTAACCTTATGGGTTTCCGTTTAGCTCTATCGAGC
Found at i:27743613 original size:41 final size:42
Alignment explanation
Indices: 27743524--27743613 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 42
27743514 CAGCTTTTTC
* * * *
27743524 GAGCTTCAGTTTAACCTTTATGGGTTTCCGTTTAGCTCCTAT
1 GAGCTTCAGTTCAACCTTTAAGGGTTTCCATTTAGCACCTAT
* *
27743566 GAGCTTCCGTTCAACC-TTAAGGGTTTCCATTTAGCACTTAT
1 GAGCTTCAGTTCAACCTTTAAGGGTTTCCATTTAGCACCTAT
*
27743607 GTGCTTC
1 GAGCTTC
27743614 TATGCAGCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 27 0.66
42 14 0.34
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (42 bp):
GAGCTTCAGTTCAACCTTTAAGGGTTTCCATTTAGCACCTAT
Found at i:27746744 original size:5 final size:5
Alignment explanation
Indices: 27746734--27746763 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
27746724 AGGTATAGGA
27746734 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
27746764 TTTGACACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:27750904 original size:19 final size:18
Alignment explanation
Indices: 27750880--27750922 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27750870 AGGAAAAAGG
*
27750880 GAGGAATAAAAGAAGAAAA
1 GAGGAAGAAAAGAA-AAAA
*
27750899 GAGGAAAGAAAAGAAAATA
1 GAGG-AAGAAAAGAAAAAA
27750918 GAGGA
1 GAGGA
27750923 GAAGGGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (18 bp):
GAGGAAGAAAAGAAAAAA
Found at i:27753742 original size:21 final size:21
Alignment explanation
Indices: 27753716--27753755 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27753706 TGGAGAAATA
*
27753716 AAAG-AAGAAAGAGGAAAGAGG
1 AAAGAAAGAAA-AGAAAAGAGG
27753737 AAAGAAAGAAAAGAAAAGA
1 AAAGAAAGAAAAGAAAAGA
27753756 AAAGAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAGAAAGAAAAGAAAAGAGG
Found at i:27754489 original size:2 final size:2
Alignment explanation
Indices: 27754482--27754507 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27754472 TGAAATACTT
27754482 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
27754508 CAAACAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27755823 original size:24 final size:24
Alignment explanation
Indices: 27755795--27755844 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
27755785 TTAGGTTCTT
27755795 AGTAGCAACAATTACAAGAGGCAG
1 AGTAGCAACAATTACAAGAGGCAG
27755819 AGTAGCAACAATTACAAGAGGCAG
1 AGTAGCAACAATTACAAGAGGCAG
27755843 AG
1 AG
27755845 AAAAGAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (24 bp):
AGTAGCAACAATTACAAGAGGCAG
Found at i:27757793 original size:23 final size:23
Alignment explanation
Indices: 27757758--27757811 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
27757748 CCTGCAAAGG
* * **
27757758 ACAAAACCTGAATAATCACTGGC
1 ACAAAGCCCGAATAATCACCAGC
27757781 ACAAAGCCCGAATAATCACCAGC
1 ACAAAGCCCGAATAATCACCAGC
27757804 ACAAAGCC
1 ACAAAGCC
27757812 TGCTAGGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.31, G:0.13, T:0.11
Consensus pattern (23 bp):
ACAAAGCCCGAATAATCACCAGC
Found at i:27757833 original size:39 final size:39
Alignment explanation
Indices: 27757785--27757913 Score: 143
Period size: 39 Copynumber: 3.3 Consensus size: 39
27757775 ACTGGCACAA
27757785 AGCCCGAATAATCACCAGCACAAAGCCTGCTAGGCACTT
1 AGCCCGAATAATCACCAGCACAAAGCCTGCTAGGCACTT
* * *
27757824 AGCCTGAATAATCACCAGCACAAAGTCTGCTAGGCACAT
1 AGCCCGAATAATCACCAGCACAAAGCCTGCTAGGCACTT
* * * * * * *
27757863 AACCCGAACAATCAAC-GACACAAAGCTTGTTATGCACAT
1 AGCCCGAATAATCACCAG-CACAAAGCCTGCTAGGCACTT
*
27757902 GGCCCGAATAAT
1 AGCCCGAATAAT
27757914 TACCGTATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 74 0.99
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.17
Consensus pattern (39 bp):
AGCCCGAATAATCACCAGCACAAAGCCTGCTAGGCACTT
Found at i:27770671 original size:13 final size:13
Alignment explanation
Indices: 27770653--27770679 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27770643 AGTACTAGTA
27770653 CAAAATTGATTGC
1 CAAAATTGATTGC
27770666 CAAAATTGATTGC
1 CAAAATTGATTGC
27770679 C
1 C
27770680 TTACTAATTT
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:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAAAATTGATTGC
Found at i:27771251 original size:16 final size:16
Alignment explanation
Indices: 27771230--27771279 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
27771220 ATATCTAATC
27771230 ATATAATAAATTATTA
1 ATATAATAAATTATTA
27771246 ATATAAT--A-TATTA
1 ATATAATAAATTATTA
*
27771259 ATTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
27771276 ATAT
1 ATAT
27771280 TTCAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 1 0.04
16 9 0.32
17 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:27771351 original size:31 final size:34
Alignment explanation
Indices: 27771292--27771355 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
27771282 CAATTTTATT
*
27771292 TTAATAATAAATATTTATGATAATTATAAATATA
1 TTAATAATAAATATTTATGATAAGTATAAATATA
*
27771326 TTAATAATAAATGTTT-T-AT-AGTATAAATAT
1 TTAATAATAAATATTTATGATAAGTATAAATAT
27771356 TAAAATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.36
32 2 0.07
33 1 0.04
34 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (34 bp):
TTAATAATAAATATTTATGATAAGTATAAATATA
Found at i:27773166 original size:26 final size:26
Alignment explanation
Indices: 27773132--27773183 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
27773122 CACTAGTTAA
*
27773132 TTTTTTTTATATTG-AGTTTGAATTT
1 TTTTTTTTAAATTGAAGTTTGAATTT
*
27773157 TTTTTATTTAAATTGAATTTTGAATTT
1 TTTTT-TTTAAATTGAAGTTTGAATTT
27773184 GATAGCTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 8 0.35
27 10 0.43
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (26 bp):
TTTTTTTTAAATTGAAGTTTGAATTT
Found at i:27773172 original size:20 final size:22
Alignment explanation
Indices: 27773130--27773177 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
27773120 AACACTAGTT
**
27773130 AATTTTTTTTATATTGAGTTTG
1 AATTTTTTTTATATTGAAATTG
27773152 AATTTTTTTTAT-TT-AAATTG
1 AATTTTTTTTATATTGAAATTG
27773172 AATTTT
1 AATTTT
27773178 GAATTTGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 2 0.08
22 12 0.50
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
AATTTTTTTTATATTGAAATTG
Found at i:27784401 original size:15 final size:16
Alignment explanation
Indices: 27784381--27784410 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27784371 GAGTATAATA
27784381 AAATAT-TAAAAAAAT
1 AAATATATAAAAAAAT
27784396 AAATATATAAAAAAA
1 AAATATATAAAAAAA
27784411 GAGATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATATATAAAAAAAT
Found at i:27784696 original size:16 final size:17
Alignment explanation
Indices: 27784666--27784698 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27784656 CCTTTTGTAT
*
27784666 ATGCTAACAATTTTAAA
1 ATGCTAACAAGTTTAAA
27784683 ATGC-AACAAGTTTAAA
1 ATGCTAACAAGTTTAAA
27784699 GGATCTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (17 bp):
ATGCTAACAAGTTTAAA
Found at i:27789072 original size:16 final size:15
Alignment explanation
Indices: 27789055--27789109 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
27789045 TATAAAATAT
27789055 ATTATATTAATTAT-
1 ATTATATTAATTATA
* *
27789069 A-TATGTTAAATAATA
1 ATTATATT-AATTATA
*
27789084 ATTATATATATTTATA
1 ATTATAT-TAATTATA
27789100 ATTATATTAA
1 ATTATATTAA
27789110 ATCACTAGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 3 0.10
16 16 0.52
17 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTATATTAATTATA
Found at i:27789075 original size:30 final size:31
Alignment explanation
Indices: 27789035--27789111 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
27789025 CCGGCCCAAA
27789035 TATATTATGTTATAA-AATATATTATAT-TAAT
1 TATATTATGTTA-AATAATA-ATTATATATAAT
*
27789066 TATA-TATGTTAAATAATAATTATATATATT
1 TATATTATGTTAAATAATAATTATATATAAT
*
27789096 TATAATTATATTAAAT
1 TAT-ATTATGTTAAAT
27789112 CACTAGCCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 9 0.22
30 17 0.43
31 5 0.12
32 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
TATATTATGTTAAATAATAATTATATATAAT
Found at i:27789294 original size:15 final size:16
Alignment explanation
Indices: 27789274--27789313 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
27789264 TTAGTGTATT
27789274 ATATTTTGTAAA-AAA
1 ATATTTTGTAAATAAA
27789289 ATATTTT-TAAATAAA
1 ATATTTTGTAAATAAA
*
27789304 A-ATTATGTAA
1 ATATTTTGTAA
27789314 CACTCCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATATTTTGTAAATAAA
Found at i:27792964 original size:6 final size:6
Alignment explanation
Indices: 27792943--27792975 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
27792933 GAGTATTTTG
27792943 TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
27792976 ATTAACTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:27792970 original size:12 final size:11
Alignment explanation
Indices: 27792938--27792975 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
27792928 AAGATGAGTA
*
27792938 TTTTGTTTTA-
1 TTTTATTTTAT
27792948 TTTTATTTTAT
1 TTTTATTTTAT
27792959 TTTTATTTTTAT
1 TTTTA-TTTTAT
27792971 TTTTA
1 TTTTA
27792976 ATTAACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:27800649 original size:14 final size:13
Alignment explanation
Indices: 27800622--27800662 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
27800612 ACTAATAGAG
*
27800622 ATAAAAAGAGAAAA
1 ATAAAAATA-AAAA
27800636 ATAAATAATAAAAA
1 ATAAA-AATAAAAA
27800650 ATAAAAATAAAAA
1 ATAAAAATAAAAA
27800663 TAATATCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 14 0.56
15 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:27800649 original size:22 final size:22
Alignment explanation
Indices: 27800622--27800667 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
27800612 ACTAATAGAG
27800622 ATAAAAAGAGAAAAAT--AAATA
1 ATAAAAA-AGAAAAATAAAAATA
*
27800643 ATAAAAAATAAAAATAAAAATA
1 ATAAAAAAGAAAAATAAAAATA
27800665 ATA
1 ATA
27800668 TCAACAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (22 bp):
ATAAAAAAGAAAAATAAAAATA
Found at i:27800657 original size:6 final size:6
Alignment explanation
Indices: 27800632--27800665 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
27800622 ATAAAAAGAG
27800632 AAAAAT AAATAAT AAAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAA-AAT -AAAAAT AAAAAT AAAAAT AA
27800666 TATCAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:27801409 original size:12 final size:12
Alignment explanation
Indices: 27801392--27801420 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27801382 ACACGGGGTA
27801392 GGACATGGGCTG
1 GGACATGGGCTG
27801404 GGACATGGGCTG
1 GGACATGGGCTG
27801416 GGACA
1 GGACA
27801421 CGACTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.48, T:0.14
Consensus pattern (12 bp):
GGACATGGGCTG
Found at i:27801986 original size:17 final size:16
Alignment explanation
Indices: 27801964--27801997 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
27801954 CGGTTAAACC
*
27801964 ATTTTTTTAATATTTTT
1 ATTTTTATAAT-TTTTT
27801981 ATTTTTATAATTTTTT
1 ATTTTTATAATTTTTT
27801997 A
1 A
27801998 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTATAATTTTTT
Found at i:27808946 original size:2 final size:2
Alignment explanation
Indices: 27808939--27808970 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
27808929 AAGTTAAAAG
27808939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27808971 AAATAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27811470 original size:15 final size:14
Alignment explanation
Indices: 27811444--27811529 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
27811434 TATTCTAATA
*
27811444 CTATTATTATTTAT
1 CTATTTTTATTTAT
27811458 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
27811473 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
27811487 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
27811502 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
27811517 -TATTTCTATTTAT
1 CTATTTTTATTTAT
27811530 ATACTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.03
13 4 0.07
14 22 0.37
15 30 0.50
16 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:27811483 original size:14 final size:15
Alignment explanation
Indices: 27811451--27811484 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27811441 ATACTATTAT
*
27811451 TATTTATCTAATTTT
1 TATTTATCTAATTTA
27811466 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
27811480 TATTT
1 TATTT
27811485 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:27811483 original size:29 final size:29
Alignment explanation
Indices: 27811451--27811509 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
27811441 ATACTATTAT
*
27811451 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
27811480 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
27811509 T
1 T
27811510 TATATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:27811520 original size:20 final size:20
Alignment explanation
Indices: 27811461--27811529 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
27811451 TATTTATCTA
*
27811461 ATTTTTATTTATCTAT-TTAT
1 ATTTCTATTTAT-TATATTAT
*
27811481 ATTTCTA-CTA-T-TATTAT
1 ATTTCTATTTATTATATTAT
*
27811498 ATTTCTATTTATTATATTTT
1 ATTTCTATTTATTATATTAT
27811518 ATTTCTATTTAT
1 ATTTCTATTTAT
27811530 ATACTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.02
17 12 0.29
18 2 0.05
19 3 0.07
20 23 0.56
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTCTATTTATTATATTAT
Found at i:27811521 original size:14 final size:15
Alignment explanation
Indices: 27811477--27811521 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
27811467 ATTTATCTAT
27811477 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
27811494 TTATATTTCTATTTA
1 TTATATTTCTATTTA
27811509 TTATATTT-TATTT
1 TTATATTTCTATTT
27811522 CTATTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 1 0.04
17 11 0.39
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:27811531 original size:17 final size:16
Alignment explanation
Indices: 27811477--27811531 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
27811467 ATTTATCTAT
*
27811477 TTATATTTCTACTATTA
1 TTATATTTCTA-TTTTA
27811494 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
27811509 TTATATTT-TATTTCTA
1 TTATATTTCTATTT-TA
27811525 TTTATAT
1 -TTATAT
27811532 ACTAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 2 0.06
17 17 0.50
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:27811540 original size:20 final size:20
Alignment explanation
Indices: 27811461--27811540 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
27811451 TATTTATCTA
* *
27811461 ATTTTTATTTATCTAT-TTAT
1 ATTTCTATTTAT-TATATAAT
*
27811481 ATTTCTA-CTATTAT-T-AT
1 ATTTCTATTTATTATATAAT
**
27811498 ATTTCTATTTATTATATTTT
1 ATTTCTATTTATTATATAAT
27811518 ATTTCTATTTA-TATACTAAT
1 ATTTCTATTTATTATA-TAAT
27811538 ATT
1 ATT
27811541 ATTTTCATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
17 9 0.18
18 10 0.20
19 8 0.16
20 23 0.46
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTCTATTTATTATATAAT
Found at i:27811712 original size:25 final size:24
Alignment explanation
Indices: 27811651--27811712 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
27811641 TATAATGCTC
* * *
27811651 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATAAATTATGT
27811675 ACTTT-AATATTTTCATAAATTATGT
1 A-TTTCAA-ATTTTCATAAATTATGT
27811700 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
27811713 TTTTCACACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTCAAATTTTCATAAATTATGT
Found at i:27814355 original size:18 final size:18
Alignment explanation
Indices: 27814332--27814367 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27814322 TAAGAATGTT
27814332 TACATTGCGAGAAAGACA
1 TACATTGCGAGAAAGACA
*
27814350 TACATTGTGAGAAAGACA
1 TACATTGCGAGAAAGACA
27814368 ACTTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (18 bp):
TACATTGCGAGAAAGACA
Found at i:27814594 original size:23 final size:22
Alignment explanation
Indices: 27814564--27814607 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
27814554 TACATTAGAC
27814564 TGGACCCA-AGATGAATTAATTT
1 TGGACCCATAG-TGAATTAATTT
*
27814586 TGGATCCCATTGTGAATTAATT
1 TGGA-CCCATAGTGAATTAATT
27814608 CACTGCTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
TGGACCCATAGTGAATTAATTT
Found at i:27815001 original size:19 final size:19
Alignment explanation
Indices: 27814954--27815011 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
27814944 AAAATGATAA
27814954 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAAT-GTTTC
**
27814974 AATTGAGTTAAACAT-TTTC
1 AATCAAGTTAAA-ATGTTTC
27814993 AATCAAGTTAAAATTGTTT
1 AATCAAGTTAAAA-TGTTT
27815012 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCAAGTTAAAATGTTTC
Found at i:27817835 original size:25 final size:25
Alignment explanation
Indices: 27817807--27817873 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
27817797 GACTCACTGT
* *
27817807 AGCTTGTATGAGCTTATTGAT-TCTC
1 AGCTCGTATGAGCTTATTAATAT-TC
* *
27817832 AGCTCGTAAGAGCTTACTAATATTC
1 AGCTCGTATGAGCTTATTAATATTC
*
27817857 AGCTCGAATGAGCTTAT
1 AGCTCGTATGAGCTTAT
27817874 CATTTATCGC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (25 bp):
AGCTCGTATGAGCTTATTAATATTC
Found at i:27820771 original size:12 final size:12
Alignment explanation
Indices: 27820751--27820783 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27820741 AGTGTTATCG
27820751 CACATGGCCTAC
1 CACATGGCCTAC
*
27820763 CACACGGCCTAC
1 CACATGGCCTAC
27820775 CACATGGCC
1 CACATGGCC
27820784 GTGTGGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.12
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:27826377 original size:23 final size:21
Alignment explanation
Indices: 27826351--27826397 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
27826341 TAATGTTTTT
27826351 ATAA-CTATATACAGTATTTCAGA
1 ATAATCTATATA-AGT-TTT-AGA
*
27826374 ATAATCTATTTAAGTTTTAGA
1 ATAATCTATATAAGTTTTAGA
27826395 ATA
1 ATA
27826398 CTTATAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
22 3 0.14
23 7 0.32
24 6 0.27
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
ATAATCTATATAAGTTTTAGA
Found at i:27834238 original size:34 final size:35
Alignment explanation
Indices: 27834173--27834339 Score: 176
Period size: 34 Copynumber: 4.6 Consensus size: 35
27834163 CATGGCAAAG
*
27834173 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
27834208 TGTGAAATGTAGGTAT-GTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
27834242 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
27834282 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
***
27834317 TAAAAAAATGTAGGTATGGTATT
1 T-GTGAAATGTAGGTATGGTATT
27834340 TCATGAGGAA
Statistics
Matches: 115, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
34 33 0.29
35 30 0.26
36 20 0.17
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:27834333 original size:36 final size:35
Alignment explanation
Indices: 27834271--27834341 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
27834261 ATTATCAAAT
* *
27834271 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
27834306 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
27834342 ATGAGGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:27835686 original size:26 final size:26
Alignment explanation
Indices: 27835649--27835784 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
27835639 TGATACAAAT
* *
27835649 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27835675 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
27835701 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27835727 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27835753 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27835779 TGATAA
1 TGATAA
27835785 GAATTTCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:27837288 original size:26 final size:26
Alignment explanation
Indices: 27837259--27837311 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27837249 TTTACAGTTT
27837259 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
27837285 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
27837311 T
1 T
27837312 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:27837805 original size:137 final size:137
Alignment explanation
Indices: 27837559--27837845 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
27837549 GAGTAGTCTC
27837559 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
27837624 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27837689 ACTGTTA
131 ACTGTTA
27837696 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
27837761 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27837826 ACTGTTA
131 ACTGTTA
**
27837833 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27837846 AGGCCCAATA
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:27838736 original size:11 final size:10
Alignment explanation
Indices: 27838714--27838743 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
27838704 TCTGTAAGTA
27838714 TTCTGAATTT
1 TTCTGAATTT
27838724 TTCTGAATATT
1 TTCTGAAT-TT
27838735 TTCTGAATT
1 TTCTGAATT
27838744 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:27841568 original size:26 final size:26
Alignment explanation
Indices: 27841531--27841666 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
27841521 TGATACAAAT
* *
27841531 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27841557 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
27841583 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27841609 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27841635 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
27841661 TGATAA
1 TGATAA
27841667 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:27843695 original size:137 final size:136
Alignment explanation
Indices: 27843450--27843735 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
27843440 GAGTAGTCTC
*
27843450 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATACT
*
27843515 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTACTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
27843580 CTGTTA
131 CTGTTA
* *
27843586 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCCTAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATAC
*
27843651 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTACTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTACTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
27843716 ACTGTTA
130 ACTGTTA
**
27843723 CCTGAATGGGCTT
1 CCCAAATGGGCTT
27843736 AGGCCCAATG
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 122 0.86
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGAGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTACTGTAATCTGAAAAGGGCTCTAGCCCAGTACCA
CTGTTA
Found at i:27846359 original size:33 final size:33
Alignment explanation
Indices: 27846322--27846395 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
27846312 CCTGCCATGA
* *
27846322 TCTTACACTCATAATGCCATAACCCAGTTATGG
1 TCTTACACTCAGAATGCCATAACCCAGGTATGG
* * **
27846355 TCTTATCA-TCAGGATGCCATAGCTTAGGTATGG
1 TCTTA-CACTCAGAATGCCATAACCCAGGTATGG
27846388 TCTTACAC
1 TCTTACAC
27846396 ATATACATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 2 0.06
33 29 0.88
34 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (33 bp):
TCTTACACTCAGAATGCCATAACCCAGGTATGG
Found at i:27849660 original size:85 final size:85
Alignment explanation
Indices: 27849526--27849683 Score: 199
Period size: 85 Copynumber: 1.9 Consensus size: 85
27849516 TTCAATTGGG
* * * *
27849526 TACTTAAACTTTCAAAATGCATCAAAAAGGCCCTCATACTTTAAGAAAAAAAACAATAAAGCCCC
1 TACTTAAACTTTCAAAATGCATAAAAAAAGCCCTCAAACTTTAACAAAAAAAACAATAAAGCCCC
27849591 TATTTTTTCACTTAATTTGT
66 TATTTTTTCACTTAATTTGT
* * * ** * * *
27849611 TACTTGAACTTTCAAAGTGCATAAAAAAAGTCCTCAAACTTTTTCAAAAAAATCAATTAAGCCCT
1 TACTTAAACTTTCAAAATGCATAAAAAAAGCCCTCAAACTTTAACAAAAAAAACAATAAAGCCCC
*
27849676 TTTTTTTT
66 TATTTTTT
27849684 TGCATTGTCA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 60 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (85 bp):
TACTTAAACTTTCAAAATGCATAAAAAAAGCCCTCAAACTTTAACAAAAAAAACAATAAAGCCCC
TATTTTTTCACTTAATTTGT
Found at i:27852260 original size:21 final size:21
Alignment explanation
Indices: 27852234--27852278 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
27852224 ACAGTCTATT
*
27852234 ACACGG-TCGTGTAATCCTTCC
1 ACACGGCT-GTGTAACCCTTCC
27852255 ACACGGCTGTGTAACCCTTCC
1 ACACGGCTGTGTAACCCTTCC
27852276 ACA
1 ACA
27852279 TGATTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
ACACGGCTGTGTAACCCTTCC
Found at i:27857637 original size:24 final size:24
Alignment explanation
Indices: 27857610--27857657 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27857600 CTATGCTATC
27857610 TAAGATTCAACTCCTTCTAAGTCA
1 TAAGATTCAACTCCTTCTAAGTCA
27857634 TAAGATTCAACTCCTTCTAAGTCA
1 TAAGATTCAACTCCTTCTAAGTCA
27857658 GGAGGTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
TAAGATTCAACTCCTTCTAAGTCA
Found at i:27862715 original size:26 final size:26
Alignment explanation
Indices: 27862686--27862738 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
27862676 TCAAACATGC
27862686 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
27862712 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
27862738 A
1 A
27862739 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:27864242 original size:25 final size:26
Alignment explanation
Indices: 27864208--27864262 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
27864198 TGAAATTTCA
27864208 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
27864233 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27864259 ATCA
1 ATCA
27864263 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27869464 original size:40 final size:40
Alignment explanation
Indices: 27869398--27869564 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
27869388 AAATTGAATG
* * *
27869398 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27869437 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
27869477 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
27869517 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
27869557 ATATCCGG
1 ATATCCGG
27869565 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27874413 original size:26 final size:26
Alignment explanation
Indices: 27874377--27874432 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
27874367 TGAAATTCCA
27874377 ATCATGGAACATTTAACTAACCCATT
1 ATCATGGAACATTTAACTAACCCATT
*
27874403 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTAACTAACCCATT
27874429 ATCA
1 ATCA
27874433 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTAACTAACCCATT
Found at i:27879445 original size:38 final size:38
Alignment explanation
Indices: 27879394--27879595 Score: 278
Period size: 38 Copynumber: 5.3 Consensus size: 38
27879384 ATATTCGATG
* *
27879394 TATATCTGGGTTAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
27879432 TATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
27879470 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
27879510 AATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
27879548 TATATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
27879586 TATATTCGGG
1 TATATCCGGG
27879596 CCTTCGTGCC
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
38 106 0.73
39 10 0.07
40 29 0.20
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:27879500 original size:78 final size:76
Alignment explanation
Indices: 27879412--27879595 Score: 260
Period size: 78 Copynumber: 2.4 Consensus size: 76
27879402 GGTTAAATCT
*
27879412 CGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATATCC
1 CGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
* *
27879477 GGGCTTAAAGACC
66 AGG-ATAAA-ACC
** *
27879490 CGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTATATCC
1 CGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
*
27879555 AGGATAAATCC
66 AGGATAAAACC
* * *
27879566 CGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CGCAGGCTTCGTGCTGGTATTATATCCGGG
27879596 CCTTCGTGCC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
76 27 0.29
77 4 0.04
78 63 0.67
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (76 bp):
CGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCC
AGGATAAAACC
Found at i:27879712 original size:43 final size:43
Alignment explanation
Indices: 27879588--27879699 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
27879578 GCTGGTATTA
* *
27879588 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
27879631 TATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
27879674 TATTCGGGCCTTCGTGCCTAACAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
27879700 GTAATGCCGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:27884501 original size:37 final size:37
Alignment explanation
Indices: 27884459--27884539 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
27884449 CGGGGTTTTA
* *
27884459 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
27884496 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
27884533 ACCCGGA
1 ACCCGGA
27884540 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:27890703 original size:43 final size:43
Alignment explanation
Indices: 27890629--27890799 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
27890619 TCTGAACTCA
* *** *
27890629 TTCACCGGCATT-TCGCCTGCTAGGATTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATCAT
* *
27890671 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATCAT
* *
27890714 CTCACCGACATTATAGCCTGCTAGGCCCGAAGCCCAATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAAT-ATCA-T
* * * *
27890758 ATTCACCAGC-TTAAAGCTTGCTAGG-CCGAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCC-AATATCA
27890800 CATTTCGATA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 11 0.10
43 70 0.65
44 20 0.19
45 6 0.06
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATCAT
Found at i:27892708 original size:14 final size:15
Alignment explanation
Indices: 27892679--27892708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27892669 CAAAATTTAG
27892679 ACATGATACTTTCAC
1 ACATGATACTTTCAC
27892694 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
27892708 A
1 A
27892709 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:27894384 original size:29 final size:29
Alignment explanation
Indices: 27894352--27894428 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
27894342 TAAATTTTAT
27894352 TAAAAATTAGAAAAAAATTATAAAA-ACCA
1 TAAAAATTAGAAAAAAATTATAAAATA-CA
*
27894381 TAAAAATT-GTAAAAAAATTATAAAATATA
1 TAAAAATTAG-AAAAAAATTATAAAATACA
*
27894410 TAGAAAAATAGAAAAAAAT
1 TA-AAAATTAGAAAAAAAT
27894429 GAAATTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 1 0.02
29 26 0.62
30 14 0.33
31 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (29 bp):
TAAAAATTAGAAAAAAATTATAAAATACA
Found at i:27895006 original size:88 final size:89
Alignment explanation
Indices: 27894847--27895112 Score: 401
Period size: 89 Copynumber: 3.0 Consensus size: 89
27894837 GGTCAAAGGA
* * *
27894847 TCTTTTTGATGCATTTTGATAGTTCAAGTACCCAATTGAGTG-AAAAAAAAGTAGGGGCTTAATA
1 TCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGCTTAATT
27894911 GCTTTTTTTGAAAAAGTTTGAGGG
66 GCTTTTTTTGAAAAAGTTTGAGGG
*
27894935 TCTTTTTGATACATTTTGAAAGTTCAAGTACCCAAATTGAGTGCAAAAAAAAG-GGGGGCTTAAT
1 TCTTTTTGATACATTTTGAAAGTTCAAGTACCC-AATTGAGTGCAAAAAAAAGTAGGGGCTTAAT
* *
27894999 TGCTTTTTTTAAAAAAGTTTGAGAG
65 TGCTTTTTTTGAAAAAGTTTGAGGG
* * * *
27895024 CCTTTTTGATACATTTTGAAAGTTCAAGTATCCAATTGAGTGCATAAAAAGAGTAGGGACTTAAT
1 TCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCA-AAAAAAAGTAGGGGCTTAAT
*
27895089 TGCTTGTTTTGAAAAAGTTTGAGG
65 TGCTTTTTTTGAAAAAGTTTGAGG
27895113 CCTATTTTAC
Statistics
Matches: 160, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
88 42 0.26
89 79 0.49
90 39 0.24
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (89 bp):
TCTTTTTGATACATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGTAGGGGCTTAATT
GCTTTTTTTGAAAAAGTTTGAGGG
Found at i:27909284 original size:18 final size:18
Alignment explanation
Indices: 27909263--27909327 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
27909253 AATACCGAGG
27909263 AAGAAAAATAAAGAAAAA
1 AAGAAAAATAAAGAAAAA
* ***
27909281 AAGAAGAATCGGGAAAAAA
1 AAGAAAAATAAAG-AAAAA
27909300 AAGAAAAAAAGTAAAGAAAAA
1 AAG--AAAAA-TAAAGAAAAA
27909321 AAGAAAA
1 AAGAAAA
27909328 TACAATAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
18 9 0.26
19 12 0.34
21 12 0.34
22 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.05
Consensus pattern (18 bp):
AAGAAAAATAAAGAAAAA
Found at i:27909287 original size:21 final size:21
Alignment explanation
Indices: 27909262--27909325 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
27909252 GAATACCGAG
27909262 GAAGAAAAATAAAGAAAAAAA
1 GAAGAAAAATAAAGAAAAAAA
***
27909283 GAAG---AATCGGGAAAAAAAA
1 GAAGAAAAATAAAG-AAAAAAA
27909302 GAA-AAAAAGTAAAGAAAAAAA
1 GAAGAAAAA-TAAAGAAAAAAA
27909323 GAA
1 GAA
27909326 AATACAATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 4 0.12
19 10 0.31
21 16 0.50
22 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (21 bp):
GAAGAAAAATAAAGAAAAAAA
Found at i:27909317 original size:13 final size:13
Alignment explanation
Indices: 27909299--27909323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27909289 TCGGGAAAAA
27909299 AAAGAAAAAAAGT
1 AAAGAAAAAAAGT
27909312 AAAGAAAAAAAG
1 AAAGAAAAAAAG
27909324 AAAATACAAT
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAGAAAAAAAGT
Found at i:27910392 original size:19 final size:19
Alignment explanation
Indices: 27910370--27910412 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
27910360 TTCTCAAGCT
*
27910370 CAATTTTCAATCTTAGGTC
1 CAATTTTCAATCTCAGGTC
*
27910389 CAATTTTCAATCTCGGGTC
1 CAATTTTCAATCTCAGGTC
27910408 CAATT
1 CAATT
27910413 ACTGTAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (19 bp):
CAATTTTCAATCTCAGGTC
Found at i:27912291 original size:19 final size:20
Alignment explanation
Indices: 27912249--27912292 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
27912239 ACATATTAAC
** *
27912249 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
27912269 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
27912288 ACAGT
1 ACAGT
27912293 CTTATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:27913794 original size:26 final size:26
Alignment explanation
Indices: 27913763--27913870 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
27913753 TGAAATGCCC
*
27913763 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27913789 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27913815 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27913841 ATCATGGAATATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
27913867 ATCA
1 ATCA
27913871 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 3 0.04
26 74 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27917869 original size:27 final size:27
Alignment explanation
Indices: 27917821--27917873 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27917811 TCGAGGCTGC
*
27917821 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
*
27917848 CAGATATTGTGGC-AGAGCCACCAGAT
1 CAGATATTGTGACGA-AGCCACCAGAT
27917874 GTGGCAGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:27917929 original size:27 final size:27
Alignment explanation
Indices: 27917873--27917969 Score: 137
Period size: 27 Copynumber: 3.6 Consensus size: 27
27917863 AGCCACCAGA
27917873 TGTGGCAGAGCCACCA-ATCAGATAAT
1 TGTGGCAGAGCCACCAGATCAGATAAT
*
27917899 TGTGGCATAGCCACCAGGA-CAGAT-AT
1 TGTGGCAGAGCCACCA-GATCAGATAAT
27917925 ATGTGGCAGAGCCACCAGATCAGATAAT
1 -TGTGGCAGAGCCACCAGATCAGATAAT
*
27917953 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
27917970 GACGCTTCCT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
26 19 0.30
27 41 0.65
28 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGATCAGATAAT
Found at i:27919589 original size:25 final size:26
Alignment explanation
Indices: 27919560--27919665 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 26
27919550 ATGAAATGCC
27919560 ATCATGGAACATTTA-CTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27919585 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
27919610 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27919636 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27919662 ATCA
1 ATCA
27919666 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 39 0.52
26 36 0.48
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27919645 original size:51 final size:51
Alignment explanation
Indices: 27919560--27919665 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
27919550 ATGAAATGCC
27919560 ATCATGGAACATTTACTAAACCATTATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
27919610 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTA-CTAAACCATTATCATGGAACATTTACCTAACCCATT
27919662 ATCA
1 ATCA
27919666 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 14 0.27
51 29 0.56
52 9 0.17
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:27923678 original size:21 final size:20
Alignment explanation
Indices: 27923654--27923697 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
27923644 TCATCAGATA
27923654 CAGATATTATGGCAGAGCCAC
1 CAGATA-TATGGCAGAGCCAC
*
27923675 CAG--ATGTGGCAGAGCCAC
1 CAGATATATGGCAGAGCCAC
27923693 CAGAT
1 CAGAT
27923698 CAGATAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
18 16 0.80
19 1 0.05
21 3 0.15
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (20 bp):
CAGATATATGGCAGAGCCAC
Found at i:27923684 original size:18 final size:18
Alignment explanation
Indices: 27923663--27923697 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27923653 ACAGATATTA
27923663 TGGCAGAGCCACCAGATG
1 TGGCAGAGCCACCAGATG
27923681 TGGCAGAGCCACCAGAT
1 TGGCAGAGCCACCAGAT
27923698 CAGATAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.31, T:0.11
Consensus pattern (18 bp):
TGGCAGAGCCACCAGATG
Found at i:27923709 original size:27 final size:27
Alignment explanation
Indices: 27923679--27923773 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 27
27923669 AGCCACCAGA
27923679 TGTGGCAGAGCCACCAGATCAGATAAT
1 TGTGGCAGAGCCACCAGATCAGATAAT
*
27923706 TGTGGCATAGCCACCACGA-CAGAT-AT
1 TGTGGCAGAGCCACCA-GATCAGATAAT
*
27923732 ATGTGGCAGAGCCACCTGATCAGATAAT
1 -TGTGGCAGAGCCACCAGATCAGATAAT
*
27923760 TGTGGCATAGCCAC
1 TGTGGCAGAGCCAC
27923774 AACAGATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.07
27 52 0.87
28 4 0.07
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGATCAGATAAT
Found at i:27923744 original size:54 final size:51
Alignment explanation
Indices: 27923678--27923784 Score: 178
Period size: 54 Copynumber: 2.0 Consensus size: 51
27923668 GAGCCACCAG
27923678 ATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCACGACAGATAT
1 ATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA-CA--ACAGATAT
*
27923732 ATGTGGCAGAGCCACCTGATCAGATAATTGTGGCATAGCCACAACAGATAT
1 ATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACAACAGATAT
27923783 AT
1 AT
27923785 AATCATGGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
51 10 0.19
53 2 0.04
54 40 0.77
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (51 bp):
ATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACAACAGATAT
Found at i:27925371 original size:26 final size:26
Alignment explanation
Indices: 27925335--27925442 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
27925325 TGAAATGCTC
*
27925335 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
27925361 ATCATGGAACATTTACCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
* * *
27925387 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAAACCATT
*
27925413 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
27925439 ATCA
1 ATCA
27925443 ATTTGTATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 4 0.05
26 67 0.92
27 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27925414 original size:52 final size:52
Alignment explanation
Indices: 27925335--27925442 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
27925325 TGAAATGCTC
*
27925335 ATCATGGAACATTTACTTAAACCATTATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
* * * *
27925387 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
27925439 ATCA
1 ATCA
27925443 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
Found at i:27934584 original size:47 final size:47
Alignment explanation
Indices: 27934520--27934630 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
27934510 GACATTGAGT
*
27934520 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
27934567 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
27934614 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
27934631 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:27941838 original size:47 final size:47
Alignment explanation
Indices: 27941774--27941884 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
27941764 GACATTGAGT
*
27941774 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
27941821 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
27941868 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
27941885 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:27943123 original size:42 final size:42
Alignment explanation
Indices: 27943022--27943323 Score: 218
Period size: 42 Copynumber: 7.0 Consensus size: 42
27943012 GGGGACGTTA
* * * * *
27943022 CAGATATGGTCTTACATGTAATCTTATATCGAAGCCAATAG-CC
1 CAGACATGGTCTTACACGAAATCTCATATCGATGCC-AT-GTCC
27943065 CAG-CTATGGTCTTACACGAAATCTCATAAT-GATGCCATGTCC
1 CAGAC-ATGGTCTTACACGAAATCTCAT-ATCGATGCCATGTCC
* * * * *
27943107 TAGACATGGTCTTACACGTAATATCATACCGATGCTAATAG-CC
1 CAGACATGGTCTTACACGAAATCTCATATCGATGC-CAT-GTCC
* *
27943150 CAG-CTATGGTCTTACACGAAATCTCGTATCAATGCCATGTCC
1 CAGAC-ATGGTCTTACACGAAATCTCATATCGATGCCATGTCC
* * * * *
27943192 CAGACACGGTCTTACACGAAATATCATATCAAAGACATGTCC
1 CAGACATGGTCTTACACGAAATCTCATATCGATGCCATGTCC
* * * *
27943234 CAGACATGGTCGTACATGAAGTCTTATAACAGTGCCGATGCCATGTCC
1 CAGACATGGTCTTACACGAAATCTCAT---A-T--CGATGCCATGTCC
* * * *
27943282 GAGACATGGTCTTATACGAGACCTCATATCGATGCCAATGTC
1 CAGACATGGTCTTACACGAAATCTCATATCGATGCC-ATGTC
27943324 ATATCCCAAA
Statistics
Matches: 203, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
41 3 0.01
42 99 0.49
43 65 0.32
44 4 0.02
45 2 0.01
46 1 0.00
48 29 0.14
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
CAGACATGGTCTTACACGAAATCTCATATCGATGCCATGTCC
Found at i:27943170 original size:85 final size:85
Alignment explanation
Indices: 27943022--27943219 Score: 272
Period size: 85 Copynumber: 2.3 Consensus size: 85
27943012 GGGGACGTTA
* * * * *
27943022 CAGATATGGTCTTACATGTAATCTTATATCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAAT
1 CAGACATGGTCTTACACGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAAT
*
27943087 CTCATAAT-GATGCCATGTCC
66 CTCAT-ATCAATGCCATGTCC
* * *
27943107 TAGACATGGTCTTACACGTAATATCATACCGATGCTAATAGCCCAGCTATGGTCTTACACGAAAT
1 CAGACATGGTCTTACACGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAAT
*
27943172 CTCGTATCAATGCCATGTCC
66 CTCATATCAATGCCATGTCC
* *
27943192 CAGACACGGTCTTACACGAAATATCATA
1 CAGACATGGTCTTACACGTAATATCATA
27943220 TCAAAGACAT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 2 0.02
85 97 0.98
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (85 bp):
CAGACATGGTCTTACACGTAATATCATACCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAAT
CTCATATCAATGCCATGTCC
Found at i:27943356 original size:48 final size:48
Alignment explanation
Indices: 27943304--27943408 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
27943294 TATACGAGAC
*
27943304 CTCATA-TCGATGCCAATGTCATATCCCAAATATGGTCTTACATGGGAT
1 CTCATACT-GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGAT
** * * * *
27943352 CTCATACTGATGCTGATGCCATATCCCAGATCTGTTCTTATATGGGAT
1 CTCATACTGATGCCAATGCCATATCCCAAATATGGTCTTACATGGGAT
27943400 CTCAATACT
1 CTC-ATACT
27943409 CACATGTCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 42 0.88
49 6 0.12
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (48 bp):
CTCATACTGATGCCAATGCCATATCCCAAATATGGTCTTACATGGGAT
Found at i:27945565 original size:24 final size:24
Alignment explanation
Indices: 27945535--27945585 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
27945525 TTGTTAAACG
27945535 TTTGGTTCTTTTCAAAACTCAAGT
1 TTTGGTTCTTTTCAAAACTCAAGT
*
27945559 TTTGGTTCTTTTGAAAACTCAAGT
1 TTTGGTTCTTTTCAAAACTCAAGT
27945583 TTT
1 TTT
27945586 CCTAAAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (24 bp):
TTTGGTTCTTTTCAAAACTCAAGT
Found at i:27946766 original size:28 final size:29
Alignment explanation
Indices: 27946734--27946806 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
27946724 ATGTCCAACC
* * *
27946734 AAAACACACCAGTATTATATAATCC-TCT
1 AAAACACACCAGAATAATATAATCCATCG
* *
27946762 CAAACACACTAGAATAATATAATCCATCG
1 AAAACACACCAGAATAATATAATCCATCG
27946791 AAAACACACCAGAATA
1 AAAACACACCAGAATA
27946807 GCACAGAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.49, C:0.25, G:0.05, T:0.21
Consensus pattern (29 bp):
AAAACACACCAGAATAATATAATCCATCG
Found at i:27946969 original size:17 final size:17
Alignment explanation
Indices: 27946947--27946985 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27946937 TTTTTTTATT
27946947 TCAATTT-AATTTCCATA
1 TCAATTTCAA-TTCCATA
*
27946964 TCAATTTCAATTCCATT
1 TCAATTTCAATTCCATA
27946981 TCAAT
1 TCAAT
27946986 ATACAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (17 bp):
TCAATTTCAATTCCATA
Found at i:27946981 original size:23 final size:24
Alignment explanation
Indices: 27946944--27947000 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
27946934 CTTTTTTTTT
* *
27946944 ATTTCAATTTAATTTCCATAT-CA
1 ATTTCAATTCAATTTCAATATACA
*
27946967 ATTTCAATTCCATTTCAATATACA
1 ATTTCAATTCAATTTCAATATACA
27946991 A--TCAATTCAA
1 ATTTCAATTCAA
27947001 AATACTTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 18 0.62
24 3 0.10
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTCAATTCAATTTCAATATACA
Found at i:27948277 original size:17 final size:17
Alignment explanation
Indices: 27948257--27948290 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27948247 ATACACTAAT
27948257 ATAAT-ATCAATTAAATA
1 ATAATAATCAA-TAAATA
27948274 ATAATAATCAATAAATA
1 ATAATAATCAATAAATA
27948291 TCTTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATCAATAAATA
Found at i:27954535 original size:28 final size:28
Alignment explanation
Indices: 27954503--27954586 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
27954493 AACAAACCAG
* *
27954503 TATAATCCTCCAAAACACACCAGTATTA
1 TATAATCCTCCAAAACACACCAGAATAA
*
27954531 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
27954559 TATAATCCATCCAAAGCACACCATAATA
1 TATAATCC-TCCAAAACACACCAGAATA
27954587 GCACAGAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 33 0.67
29 16 0.33
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:27954558 original size:23 final size:23
Alignment explanation
Indices: 27954489--27954559 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 23
27954479 AAATGTCCAA
* *
27954489 CCAAAACAAACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
27954512 CCAAAACACACCAGTATTATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
27954540 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
27954560 ATAATCCATC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 18 0.45
24 1 0.03
28 21 0.52
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.18
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:27954753 original size:23 final size:23
Alignment explanation
Indices: 27954726--27954769 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
27954716 TTTTTTTTTT
* *
27954726 ATTTCAATTTCATTTCCATATGA
1 ATTTCAATTCCATTTCAATATGA
27954749 ATTTCAATTCCATTTCAATAT
1 ATTTCAATTCCATTTCAATAT
27954770 ACAATCAATT
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:0.18, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTCAATTCCATTTCAATATGA
Found at i:27955732 original size:8 final size:8
Alignment explanation
Indices: 27955698--27955749 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
27955688 TAGTGATGTG
*
27955698 AATAATAA
1 AATATTAA
*
27955706 AGTATATAA
1 AATAT-TAA
27955715 AATA-TAA
1 AATATTAA
27955722 AATATTAA
1 AATATTAA
*
27955730 AATATCAA
1 AATATTAA
*
27955738 AATATTAG
1 AATATTAA
27955746 AATA
1 AATA
27955750 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:27955739 original size:16 final size:15
Alignment explanation
Indices: 27955702--27955749 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
27955692 GATGTGAATA
*
27955702 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
27955718 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
27955733 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
27955749 A
1 A
27955750 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:27955920 original size:20 final size:20
Alignment explanation
Indices: 27955863--27955922 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
27955853 AAGACTACAT
27955863 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
27955882 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
27955905 AAATATGTACATAATATA
1 AAATATGTACATAATATA
27955923 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:27955962 original size:22 final size:23
Alignment explanation
Indices: 27955904--27955970 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
27955894 GATAATATTA
* *
27955904 AAAATATGTACATAATATAGTGT
1 AAAATATCTACATAATATAATGT
*
27955927 AAAAAATACATACATAATATAAT-T
1 AAAATAT-C-TACATAATATAATGT
*
27955951 AAAATATCTACATAAGATAA
1 AAAATATCTACATAATATAA
27955971 CATGTAGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 7 0.19
24 7 0.19
25 12 0.32
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAATATCTACATAATATAATGT
Found at i:27956015 original size:25 final size:25
Alignment explanation
Indices: 27955987--27956075 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
27955977 GAGAAAAAAT
*
27955987 ATATATAAATAATATAGTATTAA-AG
1 ATATATACATAATATAGTA-TAATAG
* *
27956012 ATATATACATAAAATAGTATAATAT
1 ATATATACATAATATAGTATAATAG
* * *
27956037 ATATATACGTAATATAGAAT-TTAG
1 ATATATACATAATATAGTATAATAG
*
27956061 A-ATATACCTAATATA
1 ATATATACATAATATA
27956076 TTAAAAGAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.24
24 6 0.11
25 35 0.65
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATAATAG
Found at i:27956091 original size:15 final size:14
Alignment explanation
Indices: 27956071--27956118 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
27956061 AATATACCTA
27956071 ATATATTAAAAGAAT
1 ATATATTAAAA-AAT
*
27956086 ATATATATATAAAAT
1 ATATAT-TAAAAAAT
*
27956101 ATAATATTAAGAAAT
1 AT-ATATTAAAAAAT
27956116 ATA
1 ATA
27956119 ATAATAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.04
15 19 0.68
16 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATATTAAAAAAT
Found at i:27956445 original size:16 final size:16
Alignment explanation
Indices: 27956407--27956445 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27956397 CTCCAAAAAA
*
27956407 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
27956423 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
27956439 AATAACT
1 AAAAACT
27956446 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:27956655 original size:30 final size:30
Alignment explanation
Indices: 27956621--27956681 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
27956611 AGTGGTGGTA
27956621 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTG
1 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTG
* *
27956651 GAGCAAGTGTGGCTAGTGGAGTTGGTGGTG
1 GAGCAAGTGTGGCTAGTGGAGTAGGTAGTG
27956681 G
1 G
27956682 CAAAGGCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.07, G:0.49, T:0.25
Consensus pattern (30 bp):
GAGCAAGTGTGGCTAGTGGAGTAGGTAGTG
Found at i:27957620 original size:88 final size:88
Alignment explanation
Indices: 27957335--27957653 Score: 303
Period size: 88 Copynumber: 3.6 Consensus size: 88
27957325 GTGATCCTGA
* * * * **
27957335 GCTCAACTCATCTCTCGCAATATGAATTGACTCTTTAAAAC-TAGACATT--AAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAACATA-A-ATTGAAAAAACATTAATT
* * *
27957397 GAAAATAGCTCAGCACGTGAGCCAAG
64 GAAAATACCTCAG-ACGTGACCCGAG
* * * * *
27957423 GCTAAACTCACTTCTCGCAATATGAGTTGATT-TTTAAAACA-AAATTTGTAAAACAGATT--TT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAACATAAA-TTG-AAAAAACATTAATT
* *
27957484 GAAAATACCTCGGTATGTGACCCGAG
64 GAAAATACCTCAG-ACGTGACCCGAG
** *
27957510 GCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAA-CATAAATTGAAAAAACATTAATTG
*
27957575 AAAATACCTCAG-CGTGCCCCGAG
65 AAAATACCTCAGACGTGACCCGAG
*
27957598 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAACATAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTCTT-GAAAACATAAATTGAAAA
27957654 CACCTCAGCG
Statistics
Matches: 190, Mismatches: 28, Indels: 24
0.79 0.12 0.10
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 60 0.32
88 77 0.41
89 10 0.05
90 34 0.18
91 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTCTTGAAAACATAAATTGAAAAAACATTAATTGA
AAATACCTCAGACGTGACCCGAG
Found at i:27957626 original size:175 final size:174
Alignment explanation
Indices: 27957317--27957632 Score: 415
Period size: 175 Copynumber: 1.8 Consensus size: 174
27957307 TGATTCTTTA
* *
27957317 CTCGGCATGTGATCCTGAGCTCAACTCATCTCTCGCAATATGAATTGACTCTTTAAAACTAGACA
1 CTCGGCATGTGATCCCGAGCTCAACTCATCTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
* * *
27957382 TTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTAAACTCACTTCTCGCAATATG
66 TTAAAAACAGAAATTGAAAATACCTCAG-ACGTGACCCAAGGCTAAACTCACCTCTCGCAATATG
27957447 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
130 AGTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
* * * * *
27957492 CTCGGTATGTGA-CCCGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTCTTGAAAAGCATA-
1 CTCGGCATGTGATCCCGA-GCTCAACTCATCTCTCGCAATATGAATTGACTCTTGAAAA-C-TAG
** * * *
27957555 A-ATTGAAAAAACATTAATTGAAAATACCTCAG-CGTGCCCCGAGGCTCAACTCACCTCTCGCAA
63 ACATT--AAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGGCTAAACTCACCTCTCGCAA
27957618 TATGAGTTGATTTTT
126 TATGAGTTGATTTTT
27957633 TTGGAAAACA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
174 4 0.03
175 90 0.74
176 2 0.02
177 25 0.21
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (174 bp):
CTCGGCATGTGATCCCGAGCTCAACTCATCTCTCGCAATATGAATTGACTCTTGAAAACTAGACA
TTAAAAACAGAAATTGAAAATACCTCAGACGTGACCCAAGGCTAAACTCACCTCTCGCAATATGA
GTTGATTTTTAAAACAAAATTTGTAAAACAGATTTTGAAAATAC
Found at i:27957692 original size:77 final size:76
Alignment explanation
Indices: 27957562--27958166 Score: 595
Period size: 77 Copynumber: 8.0 Consensus size: 76
27957552 ATAAATTGAA
* * * *
27957562 AAAACATTAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
27957625 TGATTTTTTTGG
66 TGA-TTTTTTGG
27957637 AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
27957702 TGATTTTTT-G
66 TGATTTTTTGG
* * * * *
27957712 ATGAACAGAAATT-AAAACTACCTCAACGTGT-CCT-GAGGCTCAACTCACCTCTCGCAACATGA
1 A-AAACATAAATTGAAAAC-ACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
*
27957774 GTTGATTTTTTTGA
64 GTTGA-TTTTTTGG
*
27957788 AAAACA-AAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACATAAA-TTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
*
27957852 TTGATTTTTTTG
65 TTGATTTTTTGG
* * * * *
27957864 ACAAATAGAAATTGAAAAATACCTCAGCGTGTAAGC-CAAGGCTCAACTCACCTCTCGCAATATG
1 A-AAACATAAATTG-AAAACACCTCAGCGTGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATG
*
27957928 AGTTGATTTTTTGA
63 AGTTGATTTTTTGG
* * *
27957942 AAAATAGAAATTGAAAACACCTCAGC--ATG--T-GAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
27958002 TGA-TTTTTGA
66 TGATTTTTTGG
* * * *
27958012 AAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCA-T-GAGGCTCAACTCACCTCTC
1 AAAAC----A-T------AAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTC
27958075 GCAATATGAGTTGATTTTTT-G
55 GCAATATGAGTTGATTTTTTGG
** * * * * *
27958096 --ATGATAAATTGAAAATACCTCA--ATGTCACTTGAGGTTCAACTCACCTCTCGCAATATGAGT
1 AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
27958157 TGATTTTTTG
66 TGATTTTTTG
27958167 AATTAAAACA
Statistics
Matches: 458, Mismatches: 39, Indels: 69
0.81 0.07 0.12
Matches are distributed among these distances:
69 4 0.01
70 12 0.03
71 87 0.19
74 37 0.08
75 56 0.12
76 52 0.11
77 90 0.20
78 61 0.13
79 1 0.00
81 17 0.04
82 1 0.00
83 1 0.00
84 34 0.07
85 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (76 bp):
AAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGG
Found at i:27957783 original size:151 final size:150
Alignment explanation
Indices: 27957570--27958189 Score: 717
Period size: 151 Copynumber: 4.1 Consensus size: 150
27957560 AAAAAACATT
* * *
27957570 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
27957635 GGAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
65 GAAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGA
27957700 GTTGATTTTTTGATGAACAGA
130 GTTGATTTTTTGATGAACAGA
*
27957721 AATT-AAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTT
1 AATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
27957785 TGAAAAACA-AAAGTTGAAAACACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
64 TGAAAAACATAAA-TTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATAT
** *
27957849 GAGTTGATTTTTTTGACAAATAGA
128 GAGTTGA-TTTTTTGATGAACAGA
* *
27957873 AATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AATTG-AAAATACCTCAACGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
27957937 TTTGAAAAATAGAAATTGAAAACACCTCAGC--ATG--T-GAGGCTCAACTCACCTCTCGCAATA
62 TTTGAAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATA
* *
27957997 TGAGTTGATTTTTGAAAAACATAAATTGAGCAGA
127 TGAGTTGATTTTT--------T-GA-TGAACAGA
* *
27958031 AATTGAAAATACCTCAACGGGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
** * * * * *
27958096 ---ATGATAAATTGAAAATACCTCA--ATGTCACTTGAGGTTCAACTCACCTCTCGCAATATGAG
66 AAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
*
27958156 TTGATTTTTTGAATTAAAACAGA
131 TTGATTTTTTG-A-T-GAACAGA
27958179 AATTGAAAATA
1 AATTGAAAATA
27958190 GAAATGGAAA
Statistics
Matches: 408, Mismatches: 34, Indels: 57
0.82 0.07 0.11
Matches are distributed among these distances:
147 4 0.01
148 21 0.05
149 33 0.08
150 7 0.02
151 120 0.29
152 38 0.09
153 12 0.03
154 35 0.09
155 110 0.27
156 3 0.01
157 16 0.04
158 9 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (150 bp):
AATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAAACATAAATTGAAAACACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGATGAACAGA
Found at i:27958061 original size:155 final size:158
Alignment explanation
Indices: 27957902--27958273 Score: 447
Period size: 155 Copynumber: 2.3 Consensus size: 158
27957892 GTGTAAGCCA
27957902 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT--AAATTGAAAACACCTCAA
*
27957966 -G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG
64 TGTCACT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATAAAACAGAAATTG
* * * *
27958025 -AGCAGAAATTGAAAATACCTCAACGGGTCATG
128 AAACAGAAATGGAAAACACCTC-A-GCGTCATG
** *
27958057 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGATAAATTGAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATG
*
27958121 TCACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAA
66 TCACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-A
* *
27958186 AATAGAAATGGAAAACACCTCAGCGTCTTG
129 AACAGAAATGGAAAACACCTCAGCGTCATG
* * * * *
27958216 AGGTTCAATTGACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-ATAAATTGAAAA
27958274 AAAAATTAAA
Statistics
Matches: 185, Mismatches: 18, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
152 15 0.08
153 1 0.01
154 4 0.02
155 74 0.40
156 7 0.04
157 1 0.01
159 46 0.25
160 8 0.04
161 18 0.10
163 11 0.06
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (158 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATG
TCACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAA
CAGAAATGGAAAACACCTCAGCGTCATG
Found at i:27958439 original size:77 final size:75
Alignment explanation
Indices: 27958281--27958584 Score: 366
Period size: 77 Copynumber: 4.0 Consensus size: 75
27958271 AAAAAAAATT
* ** *
27958281 AAAAACAGAATTTGAAAGGACCTC-GACGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAG-CGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGA
*
27958345 GTTGATTCTTTTG
63 GTTGATTTTTTTG
27958358 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
27958423 GATTTTTTTG
66 GATTTTTTTG
* * * * *
27958433 ATAAAAATAGAATTTGAAAATATCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 --AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
27958498 TTGA--TTTTTG
64 TTGATTTTTTTG
* * * * ** *
27958508 ACAAACAAAAATTGAAATTACCTCAAC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
27958571 GATTTTTTTTG
66 GA-TTTTTTTG
27958582 AAA
1 AAA
27958585 CATAAATTAA
Statistics
Matches: 200, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
71 35 0.17
73 20 0.10
74 8 0.04
75 48 0.24
77 88 0.44
78 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:27958803 original size:14 final size:13
Alignment explanation
Indices: 27958776--27958812 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
27958766 TGAAAAATAT
*
27958776 AAATTAAAAGCAG
1 AAATTAAAAACAG
27958789 AAATTGAAAAACAG
1 AAATT-AAAAACAG
27958803 AAATTAAAAA
1 AAATTAAAAA
27958813 TACCTCGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (13 bp):
AAATTAAAAACAG
Found at i:27958824 original size:100 final size:100
Alignment explanation
Indices: 27958596--27958884 Score: 379
Period size: 100 Copynumber: 2.9 Consensus size: 100
27958586 ATAAATTAAA
* *
27958596 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCACAATATGAGT
* * * * *
27958660 TG-ATTTGAAAAGCAGAATTTGTAAGGAAAAAATTG
65 TGTTTTTGAAAAGCATAAATTGAAAAGAAAAAATTG
27958695 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCACAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCACAATATGAGTT
** * *
27958760 GTTTTTTGAAAAATATAAATT-AAAAGCAGAAATTG
66 G-TTTTTGAAAAGCATAAATTGAAAAGAAAAAATTG
* * * *
27958795 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTC-AGCTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAG-TCACCTCTCACAATATGAGT
27958859 TGATTTTTGAAAAGCATAAATTGAAA
65 TG-TTTTTGAAAAGCATAAATTGAAA
27958885 TTACCTCAGA
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
99 64 0.38
100 87 0.52
101 16 0.10
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (100 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAAGTCACCTCTCACAATATGAGTT
GTTTTTGAAAAGCATAAATTGAAAAGAAAAAATTG
Found at i:27958890 original size:73 final size:74
Alignment explanation
Indices: 27958792--27958959 Score: 239
Period size: 73 Copynumber: 2.3 Consensus size: 74
27958782 AAAGCAGAAA
* * * * * *
27958792 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGAGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
27958857 GTTGA-TTT
66 GTTAATTTT
* * *
27958865 TTGAAAAGCATAAATTGAAATTACCTCAGAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGAGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
27958930 GTTAATTTT
66 GTTAATTTT
27958939 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
27958960 AACGGAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 60 0.72
74 23 0.28
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGAGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTT
Found at i:27965155 original size:8 final size:8
Alignment explanation
Indices: 27965121--27965172 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
27965111 TAGTGATGTG
*
27965121 AATAATAA
1 AATATTAA
*
27965129 AGTATATAA
1 AATAT-TAA
27965138 AATA-TAA
1 AATATTAA
27965145 AATATTAA
1 AATATTAA
*
27965153 AATATCAA
1 AATATTAA
*
27965161 AATATTAG
1 AATATTAA
27965169 AATA
1 AATA
27965173 ATAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 6 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:27965162 original size:16 final size:15
Alignment explanation
Indices: 27965125--27965172 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
27965115 GATGTGAATA
*
27965125 ATAAAGTATATAAAAT
1 ATAAAATAT-TAAAAT
27965141 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
27965156 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
27965172 A
1 A
27965173 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:27965384 original size:22 final size:23
Alignment explanation
Indices: 27965326--27965392 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
27965316 GATAATATTA
* *
27965326 AAAATATGTACATAATATAGTGT
1 AAAATATCTACATAATATAATGT
*
27965349 AAAAAATACATACATAATATAAT-T
1 AAAATAT-C-TACATAATATAATGT
*
27965373 AAAATATCTACATAAGATAA
1 AAAATATCTACATAATATAA
27965393 CATGTAGAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 7 0.19
24 7 0.19
25 12 0.32
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (23 bp):
AAAATATCTACATAATATAATGT
Found at i:27965437 original size:25 final size:25
Alignment explanation
Indices: 27965409--27965542 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
27965399 GAGAAAAAAT
*
27965409 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27965434 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
27965459 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
27965483 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
27965505 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
27965530 AAATATA-ATAATA
1 ATATATACATAATA
27965543 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 23 0.27
25 38 0.44
26 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:27965518 original size:24 final size:23
Alignment explanation
Indices: 27965491--27965542 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
27965481 AGAATATACC
*
27965491 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
27965515 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
27965538 TAATA
1 TAATA
27965543 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Done.