Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
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: 2457414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1816234 original size:44 final size:43
Alignment explanation
Indices: 1816186--1816295 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
1816176 GTAAATGAAC
* *
1816186 TTAATAA-AATAATATTTTATAATCGAATGATTATTTTATAACTT
1 TTAATAATAA-AATATTTAAT-ATCAAATGATTATTTTATAACTT
* * *
1816230 TTAATAATTAAAATATTTAATGTTAAATGATTATTTTATAATTT
1 TTAATAA-TAAAATATTTAATATCAAATGATTATTTTATAACTT
* *
1816274 TTAATAATTAATATACTTAATA
1 TTAATAA-TAAAATATTTAATA
1816296 AAATAACATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 45 0.80
45 9 0.16
46 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (43 bp):
TTAATAATAAAATATTTAATATCAAATGATTATTTTATAACTT
Found at i:1816283 original size:21 final size:21
Alignment explanation
Indices: 1816215--1816283 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1816205 TAATCGAATG
*
1816215 ATTATTTTATAACTTTTAATA
1 ATTATTTTATAATTTTTAATA
* * * *
1816236 ATTAAAATATT-TAATGTTAAATG
1 ATT---ATTTTATAATTTTTAATA
1816259 ATTATTTTATAATTTTTAATA
1 ATTATTTTATAATTTTTAATA
1816280 ATTA
1 ATTA
1816284 ATATACTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
23 11 0.31
24 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTATTTTATAATTTTTAATA
Found at i:1819938 original size:42 final size:43
Alignment explanation
Indices: 1819809--1820053 Score: 245
Period size: 42 Copynumber: 5.8 Consensus size: 43
1819799 AAGTCTTTAA
* * *
1819809 TTTTTCTAATCTCGC-TTTTATCTTTATAATTGAGTCCATAATT
1 TTTTTC-AATCTCACTTTTTACCTTTATAATTGAGTCCCTAATT
* *
1819852 TTTTT--TTCTCAC-TTTTACATTTATAATTGAGGTCCCTAATTT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGA-GTCCCTAA-TT
* *
1819894 TTTTTCATTCTCACTTTTTACCTTTATAATTGAGCCCCT-ATT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAGTCCCTAATT
* * * * *
1819936 TTTTTCAATCTTACTTTCTACC-TTATAACTAAGGCCTCTAA-T
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAGTCC-CTAATT
*
1819978 TTTTT-AATCTCACTTTTTACATTTATAATTGAGATCCCTAATT
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGAG-TCCCTAATT
* * *
1820021 CTTTTCAAGCTCACTTTTTACTTTTATAATTGA
1 TTTTTCAATCTCACTTTTTACCTTTATAATTGA
1820054 AGTCTTTAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
40 21 0.12
41 31 0.18
42 49 0.29
43 14 0.08
44 37 0.22
45 17 0.10
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.51
Consensus pattern (43 bp):
TTTTTCAATCTCACTTTTTACCTTTATAATTGAGTCCCTAATT
Found at i:1820064 original size:44 final size:43
Alignment explanation
Indices: 1819745--1820057 Score: 229
Period size: 42 Copynumber: 7.4 Consensus size: 43
1819735 TTTGTTTTGT
* * * * *
1819745 TTTTATAATTAAAATCCTTAATTTTTTAAAT-TCTA-TTATCTAC
1 TTTTATAATTGAAGTCCCTAATTTTTTCAATCTC-ACTT-TTTAC
* ** *
1819788 TTTTATTATTGAAGTCTTTAA-TTTTTCTAATCTCGC-TTTTA-
1 TTTTATAATTGAAGTCCCTAATTTTTTC-AATCTCACTTTTTAC
* **
1819829 TCTTTATAATTG-AGTCCATAATTTTTT-TTTCTCAC-TTTTAC
1 T-TTTATAATTGAAGTCCCTAATTTTTTCAATCTCACTTTTTAC
* * *
1819870 ATTTATAATTGAGGTCCCTAATTTTTTTTCATTCTCACTTTTTAC
1 TTTTATAATTGAAGTCCCTAA--TTTTTTCAATCTCACTTTTTAC
* * * * *
1819915 CTTTATAATTG-AGCCCCTATTTTTTTCAATCTTACTTTCTAC
1 TTTTATAATTGAAGTCCCTAATTTTTTCAATCTCACTTTTTAC
* * *
1819957 -CTTATAACT-AAGGCCTCTAATTTTTT-AATCTCACTTTTTAC
1 TTTTATAATTGAAGTCC-CTAATTTTTTCAATCTCACTTTTTAC
* *
1819998 ATTTATAATTG-AGATCCCTAATTCTTTTCAAGCTCACTTTTTAC
1 TTTTATAATTGAAG-TCCCTAATT-TTTTCAATCTCACTTTTTAC
1820042 TTTTATAATTGAAGTC
1 TTTTATAATTGAAGTC
1820058 TTTAATTTAA
Statistics
Matches: 216, Mismatches: 35, Indels: 37
0.75 0.12 0.13
Matches are distributed among these distances:
40 20 0.09
41 39 0.18
42 65 0.30
43 33 0.15
44 41 0.19
45 18 0.08
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (43 bp):
TTTTATAATTGAAGTCCCTAATTTTTTCAATCTCACTTTTTAC
Found at i:1829582 original size:34 final size:35
Alignment explanation
Indices: 1829539--1829610 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 35
1829529 CCACCGTTTT
1829539 ATTTTAAGGGCAAAAATGCTCTTTTATGGATAG-A
1 ATTTTAAGGGCAAAAATGCTCTTTTATGGATAGTA
1829573 ATTTTAAGGGCAAAAATGCTCTTTTATGGATAGTA
1 ATTTTAAGGGCAAAAATGCTCTTTTATGGATAGTA
1829608 ATT
1 ATT
1829611 GTTAGTTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 33 0.89
35 4 0.11
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (35 bp):
ATTTTAAGGGCAAAAATGCTCTTTTATGGATAGTA
Found at i:1835327 original size:77 final size:79
Alignment explanation
Indices: 1835238--1835392 Score: 226
Period size: 77 Copynumber: 2.0 Consensus size: 79
1835228 TTAATATTTT
* * * *
1835238 TTTAATATTTTCGGTAAAACGTTACTTAAAATATTA-T-TTTTTACCGGAAATGTTAATATTATG
1 TTTAACATTTTCGGTAAAACGCTACTTAAAACATTATTATTTTTACCGAAAATGTTAATATT-TG
1835301 -CGCTACCTAAAATA
65 ACGCTACCTAAAATA
*
1835315 TTTAACATTTTCGGTAAAACGCTACTTAAAACATTATTATTTTTATCGAAAATGTTAATATTTGA
1 TTTAACATTTTCGGTAAAACGCTACTTAAAACATTATTATTTTTACCGAAAATGTTAATATTTGA
*
1835380 TGCTACCTAAAAT
66 CGCTACCTAAAAT
1835393 GATATTTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 33 0.48
78 3 0.04
79 33 0.48
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (79 bp):
TTTAACATTTTCGGTAAAACGCTACTTAAAACATTATTATTTTTACCGAAAATGTTAATATTTGA
CGCTACCTAAAATA
Found at i:1835493 original size:20 final size:19
Alignment explanation
Indices: 1835439--1835500 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 19
1835429 ACATTTCCGA
* *
1835439 TAAAAAAATAATAATATTT
1 TAAAAAAATATTAAAATTT
1835458 TAAATAAAAATTTATTAAAATTAT
1 T-AA-AAAAA--TATTAAAATT-T
*
1835482 TAAAAAAATATTAACATTT
1 TAAAAAAATATTAAAATTT
1835501 CCGTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
21 5 0.14
22 5 0.14
23 10 0.29
24 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAAAATATTAAAATTT
Found at i:1836022 original size:21 final size:22
Alignment explanation
Indices: 1835979--1836027 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1835969 ATTTTTTTGG
1835979 GTCTTGTTTGGGATCTCTCGAC
1 GTCTTGTTTGGGATCTCTCGAC
*
1836001 GTCTTGTTTGGGAT-TTTCGAC
1 GTCTTGTTTGGGATCTCTCGAC
1836022 GTCTTG
1 GTCTTG
1836028 AGGGTGATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.45
Consensus pattern (22 bp):
GTCTTGTTTGGGATCTCTCGAC
Found at i:1842749 original size:21 final size:20
Alignment explanation
Indices: 1842663--1842820 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1842653 AAATGACCAA
**
1842663 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1842682 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1842702 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1842722 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1842743 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1842764 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1842784 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1842805 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1842821 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1842811 original size:20 final size:20
Alignment explanation
Indices: 1842786--1842941 Score: 136
Period size: 20 Copynumber: 7.8 Consensus size: 20
1842776 GCGATTTTCC
**
1842786 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATCCG
1842806 AAAATCGCAACGCGAA-CAC-
1 AAAATCGCAACGCGAATC-CG
*
1842825 ATAAATCGCAACGCGTATCCG
1 A-AAATCGCAACGCGAATCCG
* * *
1842846 TAAATCGCAACGTGTATCCG
1 AAAATCGCAACGCGAATCCG
* *
1842866 TAAATCGCAACGCGTATCCG
1 AAAATCGCAACGCGAATCCG
* ** **
1842886 TAAATCGCAACGATAATACAT
1 AAAATCGCAACGCGAAT-CCG
*
1842907 AAAATCGCAACGCGTATCCG
1 AAAATCGCAACGCGAATCCG
*
1842927 TAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1842942 TATTTAAAGC
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
19 1 0.01
20 96 0.86
21 15 0.13
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGAATCCG
Found at i:1842836 original size:40 final size:40
Alignment explanation
Indices: 1842787--1842941 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
1842777 CGATTTTCCA
* ** *
1842787 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
1842827 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
** *
1842867 AAATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
1842907 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1842942 TATTTAAAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 63 0.64
41 34 0.35
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:1843362 original size:33 final size:33
Alignment explanation
Indices: 1843323--1843393 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1843313 TTCACTTAGA
*
1843323 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1843356 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1843389 TTTCA
1 TTTCA
1843394 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1843499 original size:21 final size:20
Alignment explanation
Indices: 1843473--1843576 Score: 96
Period size: 21 Copynumber: 5.5 Consensus size: 20
1843463 TGCAGAAGAG
1843473 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
1843494 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
1843514 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
1843535 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
1843549 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
1843568 TCGCAACGA
1 TCGCAACGA
1843577 AAGAATCGCA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 10 0.15
20 16 0.24
21 26 0.39
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:1843517 original size:20 final size:20
Alignment explanation
Indices: 1843473--1843549 Score: 100
Period size: 21 Copynumber: 3.8 Consensus size: 20
1843463 TGCAGAAGAG
*
1843473 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1843494 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1843514 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1843535 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1843550 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 20 0.42
21 28 0.58
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1843530 original size:41 final size:41
Alignment explanation
Indices: 1843472--1843549 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1843462 TTGCAGAAGA
*
1843472 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
1843513 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1843550 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:1843552 original size:14 final size:14
Alignment explanation
Indices: 1843533--1843589 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1843523 GAGAAATGAA
1843533 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1843547 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1843566 AATCGCAACGAAAG
1 AATCGCAACGAGAG
1843580 AATCGCAACG
1 AATCGCAACG
1843590 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1843565 original size:33 final size:33
Alignment explanation
Indices: 1843525--1843605 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
1843515 CGCAACGAGA
*
1843525 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1843558 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
**
1843591 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1843606 TTGTGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAAAGAATCGCAACGC
Found at i:1843623 original size:19 final size:19
Alignment explanation
Indices: 1843601--1843684 Score: 88
Period size: 19 Copynumber: 4.7 Consensus size: 19
1843591 GAAACCAAAA
*
1843601 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1843620 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1843639 TCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1843655 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1843672 TCGCGTTGCGATT
1 TCGCATTGCGATT
1843685 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 36 0.64
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1843661 original size:14 final size:14
Alignment explanation
Indices: 1843642--1843698 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1843632 TTTCATTTCG
1843642 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1843656 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1843675 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1843689 CGTTGCGATT
1 CGTTGCGATT
1843699 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1843665 original size:33 final size:33
Alignment explanation
Indices: 1843623--1843706 Score: 168
Period size: 33 Copynumber: 2.5 Consensus size: 33
1843613 TTTCATTTCG
1843623 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1843656 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1843689 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1843707 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:1845632 original size:185 final size:185
Alignment explanation
Indices: 1845402--1845776 Score: 725
Period size: 185 Copynumber: 2.0 Consensus size: 185
1845392 TAGATTGCTT
1845402 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845467 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1845531 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
1845587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845652 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1845717 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
1845772 AGTAA
1 AGTAA
1845777 TGCAATCCAT
Statistics
Matches: 188, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 104 0.55
186 84 0.45
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:1845660 original size:93 final size:93
Alignment explanation
Indices: 1845402--1845776 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
1845392 TAGATTGCTT
*
1845402 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845467 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1845495 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845559 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1845587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845652 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1845680 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1845745 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1845772 AGTAA
1 AGTAA
1845777 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 97 0.35
93 183 0.65
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1845863 original size:19 final size:19
Alignment explanation
Indices: 1845839--1845951 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
1845829 CACGAAACTT
1845839 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
**
1845858 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
1845877 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1845891 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1845910 AAAATCGCAA--CG--A-C
1 AAAATCGCAACGCGAAACC
*
1845924 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
1845943 AAAATCGCA
1 AAAATCGCA
1845952 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 46 0.60
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:1845902 original size:33 final size:32
Alignment explanation
Indices: 1845859--1845951 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1845849 CGCGAAACCA
**
1845859 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1845891 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1845924 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1845952 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1845949 original size:52 final size:51
Alignment explanation
Indices: 1845839--1845951 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 51
1845829 CACGAAACTT
* *
1845839 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAAC-AC
* * *
1845891 AGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGATCGCAACGCGAAAC-C
1 AAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-AT-GAAAAGCGAAACAC
1845943 AAAATCGCA
1 AAAATCGCA
1845952 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
52 41 0.79
53 3 0.06
54 8 0.15
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (51 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAAGCGAAACAC
Found at i:1845969 original size:19 final size:18
Alignment explanation
Indices: 1845947--1846046 Score: 99
Period size: 19 Copynumber: 5.8 Consensus size: 18
1845937 GAAACCAAAA
1845947 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
1845966 TCGCGTTGCGA--TTC-TT
1 TCGC-TTGCGATTTTCATT
1845982 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
1845999 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
1846015 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
1846032 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
1846047 AAGTTTCGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 20
0.75 0.03 0.22
Matches are distributed among these distances:
14 12 0.18
16 15 0.22
17 15 0.22
19 26 0.38
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:1845988 original size:14 final size:14
Alignment explanation
Indices: 1845969--1846025 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1845959 TTTCATTTCG
1845969 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1845983 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1846000 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1846016 CGTTGCGATT
1 CGTTGCGATT
1846026 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1845994 original size:33 final size:33
Alignment explanation
Indices: 1845952--1846044 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1845942 CAAAATCGCA
*
1845952 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1845985 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1846018 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1846045 TTAAGTTTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1846059 original size:20 final size:19
Alignment explanation
Indices: 1845947--1846062 Score: 72
Period size: 19 Copynumber: 6.6 Consensus size: 19
1845937 GAAACCAAAA
* *
1845947 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
*
1845966 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAATT
*
1845982 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
* * *
1845999 TCGCATTGCGA--TT-CTG
1 TCGCGTTGCGATTTTAATT
*
1846015 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
1846032 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTAA-TT
*
1846052 TCGTGTTGCGA
1 TCGCGTTGCGA
1846063 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 15 0.20
16 9 0.12
17 9 0.12
19 30 0.40
20 12 0.16
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:1846506 original size:45 final size:45
Alignment explanation
Indices: 1846454--1846540 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
1846444 GCCCGACTCG
* * *
1846454 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCC
* * *
1846499 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
1846541 ACTGTCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.22
Consensus pattern (45 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCC
Found at i:1848011 original size:14 final size:14
Alignment explanation
Indices: 1847976--1848011 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1847966 GATTGTTTAA
1847976 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
1847990 ATGA-TTGTAAAAG
1 TTGATTTGTAAAAG
1848003 TTGATTTGT
1 TTGATTTGT
1848012 GTAATTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:1848158 original size:19 final size:19
Alignment explanation
Indices: 1848118--1848214 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
1848108 AAAATTGACT
1848118 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
1848136 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1848155 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1848169 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1848188 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1848208 ATCGCAA
1 ATCGCAA
1848215 CGGGAGAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 17 0.24
19 22 0.31
20 16 0.23
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1848246 original size:53 final size:53
Alignment explanation
Indices: 1848118--1848233 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
1848108 AAAATTGACT
1848118 ATCGCAATGCGAAATG-AAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
1848169 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1848222 ATCGCAATGCGA
1 ATCGCAATGCGA
1848234 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 16 0.26
52 12 0.19
53 34 0.55
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1848251 original size:19 final size:19
Alignment explanation
Indices: 1848223--1848476 Score: 245
Period size: 19 Copynumber: 14.7 Consensus size: 19
1848213 AACGGGAGAA
* *
1848223 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1848242 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1848258 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1848275 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1848294 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1848310 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1848327 TCGCATTGCGATTTTCA-T
1 TCGCATTGCGATTTTCATT
*
1848345 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1848361 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1848378 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1848397 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1848413 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1848430 TCCGCATTGTGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1848448 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1848464 TCGCATTGCGATT
1 TCGCATTGCGATT
1848477 CTCTCGTTGC
Statistics
Matches: 195, Mismatches: 13, Indels: 54
0.74 0.05 0.21
Matches are distributed among these distances:
14 35 0.18
16 32 0.16
17 23 0.12
18 15 0.08
19 79 0.41
20 11 0.06
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1848266 original size:33 final size:33
Alignment explanation
Indices: 1848229--1848390 Score: 161
Period size: 33 Copynumber: 4.8 Consensus size: 33
1848219 AGAATCGCAA
*
1848229 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
1848262 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
1848300 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
1848333 TGCGATTTTCA-TTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1848365 TGCGATTTTCATTTCGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATT
1848391 TTCATTTCGC
Statistics
Matches: 104, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
30 6 0.06
31 6 0.06
32 16 0.15
33 45 0.43
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:1848286 original size:52 final size:52
Alignment explanation
Indices: 1848223--1848448 Score: 409
Period size: 52 Copynumber: 4.3 Consensus size: 52
1848213 AACGGGAGAA
* *
1848223 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1848275 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1848327 TCGCATTGCGATTTTCA-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1848378 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1848430 TCCGCATTGTGATTTTCAT
1 T-CGCATTGCGATTTTCAT
1848449 GTTGGGATTT
Statistics
Matches: 169, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
51 51 0.30
52 102 0.60
53 16 0.09
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1848358 original size:103 final size:103
Alignment explanation
Indices: 1848223--1848448 Score: 407
Period size: 103 Copynumber: 2.2 Consensus size: 103
1848213 AACGGGAGAA
* *
1848223 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCA-TTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1848288 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
65 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1848327 TCGCATTGCGATTTTCATTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTT
1 TCGCATTGCGATTTTCATTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTT
1848392 TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
66 TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
1848430 TCCGCATTGTGATTTTCAT
1 T-CGCATTGCGATTTTCAT
1848449 GTTGGGATTT
Statistics
Matches: 118, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
103 87 0.74
104 31 0.26
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (103 bp):
TCGCATTGCGATTTTCATTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTT
TCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1848498 original size:33 final size:33
Alignment explanation
Indices: 1848280--1848490 Score: 232
Period size: 33 Copynumber: 6.2 Consensus size: 33
1848270 TCATTTCGCA
1848280 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1848313 TTGCGATTTTCATTTCGCATTGCGATTTTCATTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTC--TCG
* * * * *
1848348 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
1848383 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
1848416 TTGCGATTTTCATTTCCGCATTGTGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
1848450 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1848483 TTGCGATT
1 TTGCGATT
1848491 GTAATTTCCG
Statistics
Matches: 148, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 76 0.51
34 28 0.19
35 5 0.03
37 10 0.07
38 5 0.03
39 9 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1851710 original size:20 final size:20
Alignment explanation
Indices: 1851682--1851891 Score: 258
Period size: 20 Copynumber: 10.4 Consensus size: 20
1851672 AAATTTCAGT
* *
1851682 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1851702 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1851722 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1851742 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
1851762 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
1851782 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
1851802 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
1851822 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
1851842 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
*
1851862 GTTGCGATTTTTACGGATACTC
1 GTTGCGA--TTTACGGATTCTC
1851884 GTTGCGAT
1 GTTGCGAT
1851892 AGTAAGAATC
Statistics
Matches: 169, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 150 0.89
22 19 0.11
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:1851742 original size:40 final size:40
Alignment explanation
Indices: 1851682--1851952 Score: 291
Period size: 40 Copynumber: 6.7 Consensus size: 40
1851672 AAATTTCAGT
* *
1851682 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
1851722 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
*
1851762 GTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* * *
1851802 GTTGCGATTTACGGATACGCGTTGCGATATACGGA-TA-C
1 GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
* *
1851840 GCATTGCGATTTACGGATACGCGTTGCGATTTTTACGGA-TACTC
1 G--TTGCGATTTACAGATTCGCGTTGCGA--TTTACGGATTA-TC
* * * **
1851884 GTTGCGATAGTA-AGAATCGCGTTGCGATTTATGTG-TTCGC
1 GTTGCGAT-TTACAGATTCGCGTTGCGATTTACG-GATTATC
* * *
1851924 ATTGCGATTTTCATATTCGCGTTGCGATT
1 GTTGCGATTTACAGATTCGCGTTGCGATT
1851953 CTAGAAAATC
Statistics
Matches: 203, Mismatches: 18, Indels: 20
0.84 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 3 0.01
40 164 0.81
41 2 0.01
42 28 0.14
43 2 0.01
44 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACAGATTCGCGTTGCGATTTACGGATTATC
Found at i:1851923 original size:20 final size:20
Alignment explanation
Indices: 1851900--1852038 Score: 68
Period size: 21 Copynumber: 6.8 Consensus size: 20
1851890 ATAGTAAGAA
* *
1851900 TCGCGTTGCGATTTAT-GTGT
1 TCGCGTTGCGATTT-TCATAT
*
1851920 TCGCATTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
** * *
1851940 TCGCGTTGCGATTCTAGAAAA
1 TCGCGTTGCGATT-TTCATAT
**
1851961 TCGCAATGCGAATTTGT-ACTA-
1 TCGCGTTGCG-ATTT-TCA-TAT
* * *
1851982 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTC-ATAT
* *
1852003 TCGCGTTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTC-ATAT
1852024 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
1852039 GGAAACTGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.02
20 32 0.33
21 58 0.60
22 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1851929 original size:62 final size:62
Alignment explanation
Indices: 1851783--1851934 Score: 163
Period size: 62 Copynumber: 2.5 Consensus size: 62
1851773 CAGATTCTCG
* *
1851783 TTGCGATTTACGGATTATCG--TTGCGA--TTTACGGATACGCGTTGCGATATACGGATACGCA
1 TTGCGATTTACGGA-TA-CGCATTGCGATTTTTACGGATACGCGTTGCGATATAAGAATACGCA
* * *
1851843 TTGCGATTTACGGATACGCGTTGCGATTTTTACGGATACTCGTTGCGATAGTAAGAAT-CGCG
1 TTGCGATTTACGGATACGCATTGCGATTTTTACGGATACGCGTTGCGATA-TAAGAATACGCA
* *
1851905 TTGCGATTTATGTG-TTCGCATTGCGATTTT
1 TTGCGATTTACG-GATACGCATTGCGATTTT
1851935 CATATTCGCG
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
58 2 0.03
59 2 0.03
60 20 0.25
62 49 0.62
63 6 0.08
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (62 bp):
TTGCGATTTACGGATACGCATTGCGATTTTTACGGATACGCGTTGCGATATAAGAATACGCA
Found at i:1852005 original size:21 final size:21
Alignment explanation
Indices: 1851920--1852038 Score: 98
Period size: 21 Copynumber: 5.7 Consensus size: 21
1851910 ATTTATGTGT
* *
1851920 TCGCATTGCGATTTTC-ATAT
1 TCGCATTGCGATTTTCAAGAA
* * *
1851940 TCGCGTTGCGATTCT-AGAAAA
1 TCGCATTGCGATTTTCA-AGAA
* * ** **
1851961 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTCAAGAA
1851982 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTCAAGAA
*
1852003 TCGCGTTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTCAAGAA
*
1852024 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
1852039 GGAAACTGAT
Statistics
Matches: 78, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
20 13 0.17
21 65 0.83
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCAAGAA
Found at i:1852034 original size:63 final size:59
Alignment explanation
Indices: 1851883--1852039 Score: 170
Period size: 63 Copynumber: 2.6 Consensus size: 59
1851873 TACGGATACT
** * * *
1851883 CGTTGCGATAGTAAGAATCGCGTTGCGATTTATGTGTTCGCATTGCGATTTTCATATTCG
1 CGTTGCGATTCTAAGAATCGCGTTGCGATTT-TGTCTTCGCATTGCGATTTTCAGAATCG
* ** *
1851943 CGTTGCGATTCTAGAAAATCGCAATGCGAATTTGTACTATCGCATTGCGATTTTCAAGAATCG
1 CGTTGCGATTCTA-AGAATCGCGTTGCGATTTTGT-CT-TCGCATTGCGATTTTC-AGAATCG
*
1852006 CGTTGCGATTTTCAAGAATCGCGTTGCGATTTTG
1 CGTTGCGATTCT-AAGAATCGCGTTGCGATTTTG
1852040 GAAACTGATT
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
60 14 0.18
61 15 0.19
62 16 0.21
63 32 0.41
64 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.36
Consensus pattern (59 bp):
CGTTGCGATTCTAAGAATCGCGTTGCGATTTTGTCTTCGCATTGCGATTTTCAGAATCG
Found at i:1852940 original size:2 final size:2
Alignment explanation
Indices: 1852933--1852959 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1852923 TATGTTACCA
1852933 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1852960 AAAAGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1853481 original size:9 final size:10
Alignment explanation
Indices: 1853456--1853480 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1853446 TACAATATAT
1853456 ATTTTTAATG
1 ATTTTTAATG
1853466 ATTTTTAATG
1 ATTTTTAATG
1853476 ATTTT
1 ATTTT
1853481 AGTAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
ATTTTTAATG
Found at i:1860636 original size:31 final size:30
Alignment explanation
Indices: 1860596--1860655 Score: 111
Period size: 31 Copynumber: 2.0 Consensus size: 30
1860586 TTATAAATGT
1860596 TGAAAAAGTCTAAATCTTGCCATAGAATTG
1 TGAAAAAGTCTAAATCTTGCCATAGAATTG
1860626 TGAAACAAGTCTAAATCTTGCCATAGAATT
1 TGAAA-AAGTCTAAATCTTGCCATAGAATT
1860656 AGACGTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (30 bp):
TGAAAAAGTCTAAATCTTGCCATAGAATTG
Found at i:1866076 original size:23 final size:23
Alignment explanation
Indices: 1866046--1866090 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
1866036 AATTCCGTAG
1866046 GCTTTGACGGCTTCATCGTTGTT
1 GCTTTGACGGCTTCATCGTTGTT
1866069 GCTTTGACGGCTTCATCGTTGT
1 GCTTTGACGGCTTCATCGTTGT
1866091 CCTTGATAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.22, G:0.27, T:0.42
Consensus pattern (23 bp):
GCTTTGACGGCTTCATCGTTGTT
Found at i:1873957 original size:15 final size:15
Alignment explanation
Indices: 1873937--1873965 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1873927 TCGAATTCCC
1873937 TTTTGATTTTTGGGA
1 TTTTGATTTTTGGGA
1873952 TTTTGATTTTTGGG
1 TTTTGATTTTTGGG
1873966 TCAGGGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
TTTTGATTTTTGGGA
Found at i:1875149 original size:24 final size:24
Alignment explanation
Indices: 1875122--1875168 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1875112 TAGATACTAC
*
1875122 TTTTAAATCTA-CTAAGATGCAATA
1 TTTTAAA-CTAGCTAAGATACAATA
*
1875146 TTTTAGACTAGCTAAGATACAAT
1 TTTTAAACTAGCTAAGATACAAT
1875169 GGTTATGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (24 bp):
TTTTAAACTAGCTAAGATACAATA
Found at i:1878696 original size:37 final size:38
Alignment explanation
Indices: 1878655--1878741 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 38
1878645 CGGATAGAAT
1878655 ATATATATTTTTCAGGTCAAGTCGGG-TCGGGTGGAGG
1 ATATATATTTTTCAGGTCAAGTCGGGTTCGGGTGGAGG
* * ***
1878692 ATATA-AGATTTTCGGGTTTGGTCGGGTTCGGGTGGAGG
1 ATATATA-TTTTTCAGGTCAAGTCGGGTTCGGGTGGAGG
**
1878730 ATACCTATTTTT
1 ATATATATTTTT
1878742 GGGTTGGGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
36 1 0.03
37 19 0.49
38 18 0.46
39 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (38 bp):
ATATATATTTTTCAGGTCAAGTCGGGTTCGGGTGGAGG
Found at i:1878746 original size:37 final size:38
Alignment explanation
Indices: 1878675--1878756 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
1878665 TTCAGGTCAA
*
1878675 GTCGGG-TCGGGTGGAGGATATAAGATTTTCGGGTTTG
1 GTCGGGTTCGGGTGGAGGATATAAGATTTTCGGGTTGG
*** *
1878712 GTCGGGTTCGGGTGGAGGATA-CCTATTTTTGGGTTGG
1 GTCGGGTTCGGGTGGAGGATATAAGATTTTCGGGTTGG
1878749 GTCGGGTT
1 GTCGGGTT
1878757 TACAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 25 0.64
38 14 0.36
ACGTcount: A:0.12, C:0.10, G:0.44, T:0.34
Consensus pattern (38 bp):
GTCGGGTTCGGGTGGAGGATATAAGATTTTCGGGTTGG
Found at i:1879026 original size:42 final size:41
Alignment explanation
Indices: 1878979--1879107 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
1878969 ATAATAAAAT
*
1878979 AAATTAGTGTGTATTTCTTTAAAAAATTATAATTAAAATTAG
1 AAATTAGTATGTATTT-TTTAAAAAATTATAATTAAAATTAG
*
1879021 AAATTAGATTATGTA-TATTT-AAAAATTA-AATTAAAATTAG
1 AAATTAG--TATGTATTTTTTAAAAAATTATAATTAAAATTAG
* * * *
1879061 AAATTCGATTATGCATATTTAAAAAAATTATAATT-AAATTAG
1 AAATT--AGTATGTATTTTTTAAAAAATTATAATTAAAATTAG
1879103 AAATT
1 AAATT
1879108 CAATTATGTA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
40 22 0.30
41 10 0.14
42 31 0.42
43 5 0.07
44 5 0.07
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (41 bp):
AAATTAGTATGTATTTTTTAAAAAATTATAATTAAAATTAG
Found at i:1879047 original size:22 final size:22
Alignment explanation
Indices: 1879021--1879085 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
1879011 TTAAAATTAG
1879021 AAATTAGATTATGTATATTTAA
1 AAATTAGATTATGTATATTTAA
* * *
1879043 AAATTA-A--AT-TAAAATTAG
1 AAATTAGATTATGTATATTTAA
* *
1879061 AAATTCGATTATGCATATTTAA
1 AAATTAGATTATGTATATTTAA
1879083 AAA
1 AAA
1879086 AATTATAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
18 11 0.35
19 3 0.10
21 3 0.10
22 14 0.45
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATTAGATTATGTATATTTAA
Found at i:1879108 original size:42 final size:43
Alignment explanation
Indices: 1878999--1879123 Score: 195
Period size: 42 Copynumber: 3.0 Consensus size: 43
1878989 GTATTTCTTT
*
1878999 AAAAAATTATAATTAAAATTAGAAATTAGATTATGTATATTT-
1 AAAAAATTATAATTAAAATTAGAAATTCGATTATGTATATTTA
*
1879041 -AAAAATTA-AATTAAAATTAGAAATTCGATTATGCATATTTA
1 AAAAAATTATAATTAAAATTAGAAATTCGATTATGTATATTTA
*
1879082 AAAAAATTATAATT-AAATTAGAAATTCAATTATGTATATTTA
1 AAAAAATTATAATTAAAATTAGAAATTCGATTATGTATATTTA
1879124 GTTAATTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 30 0.39
41 8 0.11
42 34 0.45
43 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.39
Consensus pattern (43 bp):
AAAAAATTATAATTAAAATTAGAAATTCGATTATGTATATTTA
Found at i:1880492 original size:283 final size:292
Alignment explanation
Indices: 1879921--1880493 Score: 1024
Period size: 283 Copynumber: 2.0 Consensus size: 292
1879911 ACTAATAACA
*
1879921 ATAATAGCAATACCAGTAGTGATATGATGGTGGCGGTTGCGAATGAGGAAAGGGAAAACGGAGGG
1 ATAATAGCAATACCAGTAGTGATATGAAGGTGGCGGTTGCGAATGAGGAAAGGGAAAACGGAGGG
1879986 GGATTCGTTGGAGGTAATGGGATGGAGATTGGGGAGTTTGGCAAAATGGGTCCATCTGGGGATGG
66 GGATTCGTTGGAGGTAATGGGATGGAGATTGGGGAGTTTGGCAAAATGGGTCCATCTGGGGATGG
1880051 GGATTTCACAGGAATTGATGGGGGAGAGAACAAGGTGTTAGGTTTGGGTTTCGAGTATGACGTTG
131 GGATTTCACAGGAATTGAT-GGGGAGAGAACAAGGTGTTAGGTTTGGGTTTCGAGTATGACGTTG
1880116 AAGAAGGAGAGGGCAATTATAATGGTAATGATCAAGTGAGGGAAGAGGGAGATGATGGTTTGCTG
195 AAGAAGGAGAGGGCAATTATAATGGTAATGATCAAGTGAGGGAAGAGGGAGATGATGGTTTGCTG
1880181 TATGAGGAAGTGGAATTGAACGAGTCGAATCTG
260 TATGAGGAAGTGGAATTGAACGAGTCGAATCTG
*
1880214 ATAATAGCAAATA-CAGTAGTGATATGAAGGTGGTGGTTGCGAATGAGGAAA-GGAAAACGGAGG
1 ATAATAGC-AATACCAGTAGTGATATGAAGGTGGCGGTTGCGAATGAGGAAAGGGAAAACGGAGG
1880277 GGGATT-GTTGGAGGTAATGGGATGGGAGATTGGGGAG-TTGGC-AAATGGGTCCATCTGGGGAT
65 GGGATTCGTTGGAGGTAATGGGAT-GGAGATTGGGGAGTTTGGCAAAATGGGTCCATCTGGGGAT
1880339 GGGGATTTCACAGGAATTGAT-GGGAGAGAACAAGGTGTTAGGTTTGGGTTTCGAGTAT-ACGTT
129 GGGGATTTCACAGGAATTGATGGGGAGAGAACAAGGTGTTAGGTTTGGGTTTCGAGTATGACGTT
1880402 GAAGAAGGA-AGGGCAATTATAATGGTAATGATCAA-TGAGGGAAGA-GG-GATGATGGTTTGCT
194 GAAGAAGGAGAGGGCAATTATAATGGTAATGATCAAGTGAGGGAAGAGGGAGATGATGGTTTGCT
1880463 GTATGAGGAAGTGGAATTGAACGAGTCGAAT
259 GTATGAGGAAGTGGAATTGAACGAGTCGAAT
1880494 TTGAAAAGAA
Statistics
Matches: 276, Mismatches: 2, Indels: 14
0.95 0.01 0.05
Matches are distributed among these distances:
283 45 0.16
284 2 0.01
285 10 0.04
286 26 0.09
287 14 0.05
288 37 0.13
290 41 0.15
291 22 0.08
292 31 0.11
293 44 0.16
294 4 0.01
ACGTcount: A:0.30, C:0.07, G:0.39, T:0.24
Consensus pattern (292 bp):
ATAATAGCAATACCAGTAGTGATATGAAGGTGGCGGTTGCGAATGAGGAAAGGGAAAACGGAGGG
GGATTCGTTGGAGGTAATGGGATGGAGATTGGGGAGTTTGGCAAAATGGGTCCATCTGGGGATGG
GGATTTCACAGGAATTGATGGGGAGAGAACAAGGTGTTAGGTTTGGGTTTCGAGTATGACGTTGA
AGAAGGAGAGGGCAATTATAATGGTAATGATCAAGTGAGGGAAGAGGGAGATGATGGTTTGCTGT
ATGAGGAAGTGGAATTGAACGAGTCGAATCTG
Found at i:1880800 original size:61 final size:59
Alignment explanation
Indices: 1880730--1880850 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 59
1880720 AGAAGCTGAG
1880730 AAGGCAGAGAATCAATGAGTGGGAAGCTATGGAGAGGGAAAGTGAAGAGAAAGAAAGAAGA
1 AAGGCAGAGAATCAATGAGTGGGAAGCTATGGAGAGGGAAAGTG-A-AGAAAGAAAGAAGA
1880791 AAGGCAGAGAATCAATGAGTGGGAAGCTATGGAGAGGGAAAGTGAAGAAAGAAAGAAGA
1 AAGGCAGAGAATCAATGAGTGGGAAGCTATGGAGAGGGAAAGTGAAGAAAGAAAGAAGA
1880850 A
1 A
1880851 GAAAAGAAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 15 0.25
60 1 0.02
61 44 0.73
ACGTcount: A:0.48, C:0.05, G:0.37, T:0.10
Consensus pattern (59 bp):
AAGGCAGAGAATCAATGAGTGGGAAGCTATGGAGAGGGAAAGTGAAGAAAGAAAGAAGA
Found at i:1886088 original size:30 final size:31
Alignment explanation
Indices: 1886034--1886111 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 31
1886024 AAACAGCAAG
1886034 AAACATTAATAAACATATCGAAAAATTAATTGAAT
1 AAACATTAAT-AA-ATAT--AAAAATTAATTGAAT
*
1886069 AAACA-TAATAAATATAAAAATTAATTTAAT
1 AAACATTAATAAATATAAAAATTAATTGAAT
1886099 AAACATTAATAAA
1 AAACATTAATAAA
1886112 CAGAAGTTAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
30 19 0.46
31 7 0.17
32 4 0.10
33 2 0.05
34 4 0.10
35 5 0.12
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (31 bp):
AAACATTAATAAATATAAAAATTAATTGAAT
Found at i:1889470 original size:22 final size:21
Alignment explanation
Indices: 1889437--1889518 Score: 78
Period size: 22 Copynumber: 3.9 Consensus size: 21
1889427 CCAATTAATA
*
1889437 TTATATGT-ATAAACTATATTCT
1 TTATAT-TAATAAACTATA-TAT
*
1889459 TTATATTAATAAACTATA-GT
1 TTATATTAATAAACTATATAT
*
1889479 TTATATCAATAAACTATATAAT
1 TTATATTAATAAACTATAT-AT
* *
1889501 TAATATTAATGAACTATA
1 TTATATTAATAAACTATA
1889519 GTTCATATAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 18 0.35
21 1 0.02
22 32 0.63
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (21 bp):
TTATATTAATAAACTATATAT
Found at i:1889483 original size:20 final size:20
Alignment explanation
Indices: 1889458--1889526 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
1889448 AACTATATTC
1889458 TTTATATTAATAAACTATAG
1 TTTATATTAATAAACTATAG
*
1889478 TTTATATCAATAAACTATA-
1 TTTATATTAATAAACTATAG
*
1889497 TAATTAATATTAATGAACTATAG
1 T--TT-ATATTAATAAACTATAG
*
1889520 TTCATAT
1 TTTATAT
1889527 AGTTTATACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.02
20 22 0.54
21 3 0.07
22 14 0.34
23 1 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (20 bp):
TTTATATTAATAAACTATAG
Found at i:1889484 original size:42 final size:42
Alignment explanation
Indices: 1889445--1889526 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
1889435 TATTATATGT
** *
1889445 ATAAACTATATTCTTTATATTAATAAACTATAGTTTATATCA
1 ATAAACTATATAATTAATATTAATAAACTATAGTTTATATCA
* *
1889487 ATAAACTATATAATTAATATTAATGAACTATAGTTCATAT
1 ATAAACTATATAATTAATATTAATAAACTATAGTTTATAT
1889527 AGTTTATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (42 bp):
ATAAACTATATAATTAATATTAATAAACTATAGTTTATATCA
Found at i:1889568 original size:17 final size:18
Alignment explanation
Indices: 1889540--1889578 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
1889530 TTATACAAAG
1889540 TATATATAATATAGTTCA
1 TATATATAATATAGTTCA
*
1889558 TATAT-TAATATAGTTTA
1 TATATATAATATAGTTCA
1889575 TATA
1 TATA
1889579 GTTTATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
TATATATAATATAGTTCA
Found at i:1889577 original size:9 final size:9
Alignment explanation
Indices: 1889548--1889585 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1889538 AGTATATATA
*
1889548 ATATAGTTC
1 ATATAGTTT
*
1889557 ATATA-TTA
1 ATATAGTTT
1889565 ATATAGTTT
1 ATATAGTTT
1889574 ATATAGTTT
1 ATATAGTTT
1889583 ATA
1 ATA
1889586 CTAATGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (9 bp):
ATATAGTTT
Found at i:1889600 original size:31 final size:31
Alignment explanation
Indices: 1889573--1889697 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 31
1889563 TAATATAGTT
*
1889573 TATATAGTTTATACTAATGAACTATATAATA
1 TATATAGTTTATACTAATAAACTATATAATA
*
1889604 TATATAGTTTATATTAATAAAC----TAATA
1 TATATAGTTTATACTAATAAACTATATAATA
* *
1889631 CATA-A-TTTATATTAATAAACTATATAATA
1 TATATAGTTTATACTAATAAACTATATAATA
*
1889660 TATATA-TATATA-T-AT-AA-TATAT-ATA
1 TATATAGTTTATACTAATAAACTATATAATA
*
1889685 TATATGGTTTATA
1 TATATAGTTTATA
1889698 TATATAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
25 23 0.28
26 11 0.14
27 10 0.12
28 2 0.02
29 9 0.11
30 6 0.07
31 20 0.25
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (31 bp):
TATATAGTTTATACTAATAAACTATATAATA
Found at i:1889662 original size:2 final size:2
Alignment explanation
Indices: 1889651--1889910 Score: 151
Period size: 2 Copynumber: 128.0 Consensus size: 2
1889641 ATTAATAAAC
*
1889651 TA TA TA -A TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TGG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * * *
1889692 TT TA TA TA TA TA -A TA TA TA TA TA GTT TA CA CA TA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * * * * * *
1889735 TA CA TA TA GTG TA TA TA GTT TA TA TA AA TA GTT TG CA TA GTT TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA
* *
1889779 TA GTA -A TA AA T- TA TA T- TA TT TA TA TA TA TA TA TA TA TA T-
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1889818 TA -A TA AA CTA TA TA GTT TA TA TA TA GTA TA TA AA TA TA AA CTA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA -TA
*
1889861 TA TA GTT TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1889903 TA TA TA TA
1 TA TA TA TA
1889911 ATTGTTTTTA
Statistics
Matches: 198, Mismatches: 38, Indels: 44
0.71 0.14 0.16
Matches are distributed among these distances:
1 9 0.05
2 174 0.88
3 15 0.08
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1902772 original size:21 final size:21
Alignment explanation
Indices: 1902746--1902787 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1902736 ATAAATTATT
*
1902746 TGAAAACTGTTTTACGTAAAA
1 TGAAAACTATTTTACGTAAAA
* *
1902767 TGAAAATTATTTTATGTAAAA
1 TGAAAACTATTTTACGTAAAA
1902788 CGAATTACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
TGAAAACTATTTTACGTAAAA
Found at i:1903086 original size:24 final size:24
Alignment explanation
Indices: 1903059--1903108 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1903049 TAATTATTAG
*
1903059 TATTTTATTAACAT-AATACTAAAT
1 TATTATATTAACATAAATA-TAAAT
*
1903083 TATTATATTAATATAAATATAAAT
1 TATTATATTAACATAAATATAAAT
1903107 TA
1 TA
1903109 ATATCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TATTATATTAACATAAATATAAAT
Found at i:1903574 original size:23 final size:24
Alignment explanation
Indices: 1903529--1903584 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
1903519 AATAATATTA
*
1903529 TTCATTAATAAATATATAAAAAAAT
1 TTCATTATTAAATATAT-AAAAAAT
1903554 TTCATTATTAAATATATAAAAAAT
1 TTCATTATTAAATATATAAAAAAT
1903578 TT-ATTAT
1 TTCATTAT
1903585 ATATTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 5 0.17
24 9 0.30
25 16 0.53
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TTCATTATTAAATATATAAAAAAT
Found at i:1903654 original size:22 final size:22
Alignment explanation
Indices: 1903612--1903657 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1903602 TAAAATATCT
1903612 TATATTATTATAATATAAATAA
1 TATATTATTATAATATAAATAA
1903634 TATATTCATTATTAA-AT-AATAA
1 TATATT-ATTA-TAATATAAATAA
1903656 TA
1 TA
1903658 ATGAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 13 0.59
23 6 0.27
24 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATTATTATAATATAAATAA
Found at i:1903702 original size:10 final size:10
Alignment explanation
Indices: 1903689--1903726 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
1903679 TATAAATAAA
1903689 ATAATATTAT
1 ATAATATTAT
1903699 ATAATATTA-
1 ATAATATTAT
*
1903708 A-AATATAAT
1 ATAATATTAT
1903717 ATAATATTAT
1 ATAATATTAT
1903727 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATAATATTAT
Found at i:1903711 original size:21 final size:21
Alignment explanation
Indices: 1903678--1903788 Score: 68
Period size: 21 Copynumber: 5.1 Consensus size: 21
1903668 AATATTTTAA
1903678 ATATAA-A-TAAAATAATATT
1 ATATAATATTAAAATAATATT
*
1903697 ATATAATATTAAAAT-ATAAT
1 ATATAATATTAAAATAATATT
* **
1903717 ATAATATTATTAAAATAAAATAAA
1 AT-ATAATATTAAAAT--AATATT
*
1903741 ATAAAATATATAAAAAATAATATT
1 ATATAATAT-T--AAAATAATATT
*
1903765 ATATTAT-TATATAAATAATATT
1 ATATAATAT-TA-AAATAATATT
1903787 AT
1 AT
1903789 TCATTATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.08
20 7 0.10
21 19 0.26
22 12 0.16
23 8 0.11
24 16 0.22
26 5 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATAATATTAAAATAATATT
Found at i:1903712 original size:18 final size:18
Alignment explanation
Indices: 1903691--1903725 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1903681 TAAATAAAAT
*
1903691 AATATTATATAATATTAA
1 AATATAATATAATATTAA
1903709 AATATAATATAATATTA
1 AATATAATATAATATTA
1903726 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATAATATAATATTAA
Found at i:1903796 original size:27 final size:26
Alignment explanation
Indices: 1903747--1903909 Score: 95
Period size: 27 Copynumber: 6.2 Consensus size: 26
1903737 TAAAATAAAA
*
1903747 TATATAAAAAATAATATTA-TATTAT
1 TATATAAAAAATATTATTATTATTAT
* *
1903772 TATATAAATAATATTATTCATTATTAAA
1 TATATAAAAAATATTATT-ATTATT-AT
1903800 TATATAAAAAAT-TTATTATATATTAT
1 TATATAAAAAATATTATTAT-TATTAT
* * *
1903826 TAAAATAAAATAAAATATCTTA-TATTAT
1 T-ATATAAAA-AATAT-TATTATTATTAT
* *
1903854 TATA-ATATAATTGATTATT-TTA-TAT
1 TATATA-AAAAAT-ATTATTATTATTAT
* * * *
1903879 AATATTAAAAATATAATATAATATTAT
1 TATATAAAAAATATTAT-TATTATTAT
1903906 TATA
1 TATA
1903910 AATATTAATA
Statistics
Matches: 103, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
24 4 0.04
25 27 0.26
26 14 0.14
27 32 0.31
28 21 0.20
29 1 0.01
30 4 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
TATATAAAAAATATTATTATTATTAT
Found at i:1903806 original size:24 final size:22
Alignment explanation
Indices: 1903681--1903806 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 22
1903671 ATTTTAAATA
1903681 TAAATAAAATAATATTATATAATAT
1 TAAAT-AAATAATATTATAT--TAT
* *
1903706 TAAA-ATATAATATAATATTAT
1 TAAATAAATAATATTATATTAT
* * *
1903727 TAAAATAAAATAA-AATAAAATAT
1 T-AAAT-AAATAATATTATATTAT
1903750 ATAAA-AAATAATATTATATTAT
1 -TAAATAAATAATATTATATTAT
*
1903772 TATATAAATAATATTATTCATTAT
1 TAAATAAATAATATTA-T-ATTAT
*
1903796 TAAATATATAA
1 TAAATAAATAA
1903807 AAAATTTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
21 13 0.16
22 21 0.26
23 22 0.28
24 20 0.25
25 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATAAATAATATTATATTAT
Found at i:1903876 original size:28 final size:28
Alignment explanation
Indices: 1903791--1903906 Score: 81
Period size: 28 Copynumber: 3.9 Consensus size: 28
1903781 AATATTATTC
*
1903791 ATTATTAAATATATAAA-AAATTTATTATAT
1 ATTATTAAA-ATA-AAATAAA-TTATTTTAT
* *
1903821 ATTATTAAAATAAAATAAAATATCTTAT
1 ATTATTAAAATAAAATAAATTATTTTAT
* * **
1903849 ATTATTATAATATAATTGATTATTTTAT
1 ATTATTAAAATAAAATAAATTATTTTAT
1903877 ATAATATTAAAAATATAATATAATATTATT
1 AT--TATT-AAAATA-AA-ATAA-ATTATT
1903907 ATAAATATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
28 33 0.50
29 6 0.09
30 13 0.20
31 5 0.08
32 1 0.02
33 2 0.03
34 6 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTATTAAAATAAAATAAATTATTTTAT
Found at i:1903885 original size:15 final size:16
Alignment explanation
Indices: 1903847--1903910 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 16
1903837 AAAATATCTT
1903847 ATATTATTATAATATA
1 ATATTATTATAATATA
*
1903863 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
1903880 ATATTAAAAATATAATATA
1 ATATT---ATTATAATATA
1903899 ATATTATTATAA
1 ATATTATTATAA
1903911 ATATTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 3 0.08
16 8 0.21
17 8 0.21
18 8 0.21
19 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:1903920 original size:10 final size:10
Alignment explanation
Indices: 1903879--1903924 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
1903869 TATTTTATAT
1903879 AATATTAA-A
1 AATATTAATA
1903888 AATA-TAATA
1 AATATTAATA
1903897 TAATATTATTATA
1 -AATATTA--ATA
1903910 AATATTAATA
1 AATATTAATA
1903920 AATAT
1 AATAT
1903925 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATATTAATA
Found at i:1903927 original size:21 final size:22
Alignment explanation
Indices: 1903880--1903936 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1903870 ATTTTATATA
*
1903880 ATATTAAAAATA-TAATATAAT
1 ATATTATAAATATTAATATAAT
1903901 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
1903923 ATATTTTAAATATT
1 ATATTATAAATATT
1903937 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:1903941 original size:23 final size:21
Alignment explanation
Indices: 1903887--1903936 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
1903877 ATAATATTAA
*
1903887 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
1903909 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
1903930 AAATATT
1 AAATATT
1903937 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:1904184 original size:42 final size:42
Alignment explanation
Indices: 1904125--1904239 Score: 194
Period size: 42 Copynumber: 2.7 Consensus size: 42
1904115 ATGAATTACA
*
1904125 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
* *
1904167 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
*
1904209 TTCCGAAAAACGAATTACGTGAAACAAACAC
1 TTCCGGAAAACGAATTACGTGAAACAAACAC
1904240 TGAAATTCGG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAACATT
Found at i:1908313 original size:31 final size:31
Alignment explanation
Indices: 1908278--1908530 Score: 461
Period size: 31 Copynumber: 8.2 Consensus size: 31
1908268 GGTCACAATA
*
1908278 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1908309 TAAACTGTTTATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1908340 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1908371 TAAACTGTTTATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1908402 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1908433 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1908464 TAAACTGTTCATATGTTCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1908495 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1908526 TAAAC
1 TAAAC
1908531 CCTCGACTCT
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 213 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:1909149 original size:64 final size:64
Alignment explanation
Indices: 1909040--1909264 Score: 210
Period size: 64 Copynumber: 3.5 Consensus size: 64
1909030 TAATGAAGGT
* * ** ** * **
1909040 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGAT-TTAGT-ATTATTGCTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTT--TCATTATTAATGG
1909103 G
64 G
* *
1909104 ATGCATCGATGCACTCCTTATGTATCGATGCACCG-ATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTTTCATTATTAATGGG
* **
1909168 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAATGGG
* *
1909231 AGTGCATCGATGCACTA-TCAATGCATCGGTGCAC
1 A-TGCATCGATGCACTACT-TATGCATCGATGCAC
1909265 ATTCAAATAA
Statistics
Matches: 136, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
63 6 0.04
64 123 0.90
65 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:1912357 original size:31 final size:31
Alignment explanation
Indices: 1912317--1912569 Score: 434
Period size: 31 Copynumber: 8.2 Consensus size: 31
1912307 GGTCACAATA
1912317 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1912348 TAAATTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1912379 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1912410 TAAACTGTTTATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1912441 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1912472 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1912503 TAAATTGTTCATATGTGCCTTTAAATATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1912534 TAAACTATTCATATGTTCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1912565 TAAAC
1 TAAAC
1912570 CCTCGACTCT
Statistics
Matches: 208, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 208 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:1912441 original size:16 final size:16
Alignment explanation
Indices: 1912420--1912503 Score: 52
Period size: 16 Copynumber: 5.4 Consensus size: 16
1912410 TAAACTGTTT
1912420 ATATGTGCCTTTAAAC
1 ATATGTGCCTTTAAAC
*** *
1912436 ATATGTAAATTGT--TC
1 ATATGTGCCTT-TAAAC
1912451 ATATGTGCCTTTAAAC
1 ATATGTGCCTTTAAAC
**
1912467 ATATGTAAACTGTT---C
1 ATATGT-GCCT-TTAAAC
1912482 ATATGTGCCTTTAAAC
1 ATATGTGCCTTTAAAC
1912498 ATATGT
1 ATATGT
1912504 AAATTGTTCA
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 16 0.33
16 22 0.46
17 3 0.06
18 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (16 bp):
ATATGTGCCTTTAAAC
Found at i:1913192 original size:64 final size:64
Alignment explanation
Indices: 1913132--1913296 Score: 210
Period size: 64 Copynumber: 2.6 Consensus size: 64
1913122 GTATTATTGC
*
1913132 TGGGATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCATTATTAA
1 TGGGATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTTTCATTATTAA
* *
1913196 TGGGATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTCTTTATT-TTAA
1 TGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAA
** ** *
1913260 -AAGAGTGCATCGATGCACTACCAATGCATCGGTGCAC
1 TGGGA-TGCATCGATGCACTACTTATGCATCGATGCAC
1913297 ATTCAAACAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
63 3 0.03
64 81 0.91
65 5 0.06
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (64 bp):
TGGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAA
Found at i:1930656 original size:105 final size:104
Alignment explanation
Indices: 1930428--1930780 Score: 496
Period size: 105 Copynumber: 3.4 Consensus size: 104
1930418 TGTCTGTGAA
* * * *
1930428 GTCTGAAGT-CAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTATTGTTG
1 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTG
1930492 AAAGCA-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 AAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
1930530 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTG
1 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTG
* *
1930595 ACAGGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTT
66 A-AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
*
1930635 GTCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTT
1 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTT
* * *
1930700 GAAAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTT
65 G-AAAGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
* * * *
1930741 GTCTCGAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GTCTGGAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1930781 CGCAGATGGC
Statistics
Matches: 225, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
102 8 0.04
103 53 0.24
104 4 0.02
105 89 0.40
106 45 0.20
107 5 0.02
109 21 0.09
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (104 bp):
GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTG
AAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
Found at i:1931675 original size:67 final size:66
Alignment explanation
Indices: 1931602--1931749 Score: 201
Period size: 67 Copynumber: 2.2 Consensus size: 66
1931592 AGAAACGAAT
* **
1931602 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCGTGGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1931665 AAAA
64 -AAA
* * *
1931669 TTTGTTTCGAGGGAAACAATCTCAAAGGTTTTGTGTTTTAAGAGAAACTGTCTCAAGGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
1931734 A
66 A
1931735 TTTGTTTCAAGGGAA
1 TTTGTTTCAAGGGAA
1931750 TTATCTCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 1 0.01
66 21 0.29
67 50 0.69
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.32
Consensus pattern (66 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
A
Found at i:1931757 original size:34 final size:35
Alignment explanation
Indices: 1931719--1931784 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
1931709 AGAGAAACTG
* **
1931719 TCTCAAGGGAGAC-AAATTTGTTTCAAGGGAATTA
1 TCTCAAGAGAGACGAAATTCATTTCAAGGGAATTA
1931753 TCTCAAGAGAGACGAAATTCATTTCAAGGGAA
1 TCTCAAGAGAGACGAAATTCATTTCAAGGGAA
1931785 ATGTTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (35 bp):
TCTCAAGAGAGACGAAATTCATTTCAAGGGAATTA
Found at i:1931886 original size:36 final size:36
Alignment explanation
Indices: 1931801--1932105 Score: 189
Period size: 37 Copynumber: 8.9 Consensus size: 36
1931791 CAATGTTTAT
* *
1931801 GTTTC-AGGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 GTTTCAAGG-GAAACTGTCTCAAGAGAGACAAAA-TTC
*
1931838 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * * * ***
1931874 ATTTCAAGGGAAA-TGTTTCCA-A-TG--TTTA-T-
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * *
1931903 GTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTC
* *
1931939 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTC
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
* * * ***
1931975 ATTTCAA-GGAAA-TGTTTTC-A-A-TG--TTTA-T-
1 GTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTC
* * * *
1932003 GTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTC
* *
1932040 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAGTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
1932075 GTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1932106 TGGTGAGCAC
Statistics
Matches: 203, Mismatches: 44, Indels: 43
0.70 0.15 0.15
Matches are distributed among these distances:
28 6 0.03
29 19 0.09
30 11 0.05
31 1 0.00
32 3 0.01
33 3 0.01
34 4 0.02
35 46 0.23
36 50 0.25
37 57 0.28
38 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (36 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTC
Found at i:1932034 original size:100 final size:101
Alignment explanation
Indices: 1931702--1932087 Score: 620
Period size: 101 Copynumber: 3.9 Consensus size: 101
1931692 AAAGGTTTTG
* * *
1931702 TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAA-TTTGTTTCAAGGG-AATTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
1931765 CGAAATTCATTTCAAGGGAAATG-TTTCAATGTTTA
66 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
1931800 TGTTTCAGGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
1931865 ACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
65 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1931902 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
1931967 CAAAACTCATTTCAA-GGAAATGTTTTCAATGTTTA
66 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
1932002 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAG-AAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
* **
1932067 AC-AAGTTTGTTTCAAGGGAAA
65 ACAAAATTCATTTCAAGGGAAA
1932088 CTGTCTCAAG
Statistics
Matches: 268, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
98 27 0.10
99 3 0.01
100 69 0.26
101 130 0.49
102 39 0.15
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (101 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:1932083 original size:35 final size:35
Alignment explanation
Indices: 1932002--1932105 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 35
1931992 TCAATGTTTA
* * * *
1932002 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAA--GAGAGACAAGTT
1932039 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGTT
1932074 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1932106 TGGTGAGCAC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 41 0.65
37 22 0.35
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAGTT
Found at i:1932984 original size:22 final size:22
Alignment explanation
Indices: 1932958--1933006 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1932948 TTGTGTTTGG
* *
1932958 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
1932980 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
1933002 TCAAA
1 TCAAA
1933007 AGATTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:1933013 original size:22 final size:22
Alignment explanation
Indices: 1932970--1933013 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1932960 AAAGGTTTGG
* * *
1932970 CATTTGATGCTCAAAGGTTTGA
1 CATTGGATGCTCAAAAGATTGA
1932992 CATTGGATGCTCAAAAGATTGA
1 CATTGGATGCTCAAAAGATTGA
1933014 TGGGGTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTGGATGCTCAAAAGATTGA
Found at i:1936852 original size:16 final size:16
Alignment explanation
Indices: 1936830--1936863 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
1936820 GAATAAAAAC
1936830 ATAAAAATAGGATAAAT
1 ATAAAAATA-GATAAAT
1936847 ATAAAAATAGATAAAT
1 ATAAAAATAGATAAAT
1936863 A
1 A
1936864 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (16 bp):
ATAAAAATAGATAAAT
Found at i:1936899 original size:20 final size:20
Alignment explanation
Indices: 1936873--1936924 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1936863 AAATGAGTAA
1936873 AATATATAAAAAAGTAAAAG
1 AATATATAAAAAAGTAAAAG
* * * *
1936893 CATATATATATAAGTAAAAT
1 AATATATAAAAAAGTAAAAG
1936913 AATA-ATAAAAAA
1 AATATATAAAAAA
1936925 AAGAAAATCA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AATATATAAAAAAGTAAAAG
Found at i:1937488 original size:34 final size:34
Alignment explanation
Indices: 1937445--1937513 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
1937435 GAATCCTAGC
1937445 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
*
1937479 AAAATTCTATCATATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1937513 A
1 A
1937514 GTAGGACGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:1942914 original size:21 final size:21
Alignment explanation
Indices: 1942888--1942929 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1942878 ATAATATTAT
1942888 AATATTGGAATGATTTTTAAG
1 AATATTGGAATGATTTTTAAG
1942909 AATATTGGAATGATTTTTAAG
1 AATATTGGAATGATTTTTAAG
1942930 TAAAAACACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
AATATTGGAATGATTTTTAAG
Found at i:1948764 original size:17 final size:16
Alignment explanation
Indices: 1948744--1948783 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
1948734 ATTTTTTTAA
*
1948744 TATTTTTGATAAAATAT
1 TATTTTT-AAAAAATAT
1948761 TA-TTTTAAAAAATAT
1 TATTTTTAAAAAATAT
1948776 TATTTTTA
1 TATTTTTA
1948784 TCTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 10 0.48
16 9 0.43
17 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATTTTTAAAAAATAT
Found at i:1950853 original size:24 final size:22
Alignment explanation
Indices: 1950823--1950878 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
1950813 CTATTTAGTA
1950823 TTTTATTATATTATACATACATT
1 TTTTATTAT-TTATACATACATT
* *
1950846 TTTATATT-TTTATATATATATT
1 TTT-TATTATTTATACATACATT
1950868 TTTTATTATTT
1 TTTTATTATTT
1950879 TATTTATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 4 0.14
24 4 0.14
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATTATTTATACATACATT
Found at i:1950858 original size:22 final size:21
Alignment explanation
Indices: 1950823--1950901 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 21
1950813 CTATTTAGTA
1950823 TTTTATTATATTATACATACATT
1 TTTTATT-T-TTATACATACATT
* *
1950846 TTTATATTTTTATATATATATT
1 TTT-TATTTTTATACATACATT
**
1950868 TTTTATTATTTTATTTATACTATT
1 TTTTA-T-TTTTATACATAC-ATT
1950892 TATTTATTTT
1 T-TTTATTTT
1950902 CATTATATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 15 0.32
23 17 0.36
24 9 0.19
25 4 0.09
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATTTTTATACATACATT
Found at i:1950874 original size:21 final size:21
Alignment explanation
Indices: 1950844--1950913 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 21
1950834 TATACATACA
1950844 TTTTTATATTTTTATATATATAT
1 TTTTTATA-TTTTAT-TATATAT
1950867 TTTTTATTATTTTATTTATACTAT
1 TTTTTA-TATTTTA-TTATA-TAT
*
1950891 TTATTTAT-TTTCATTATAT-T
1 TT-TTTATATTTTATTATATAT
1950911 TTT
1 TTT
1950914 AGTTTTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 1 0.02
22 5 0.12
23 19 0.45
24 9 0.21
25 4 0.10
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATATTTTATTATATAT
Found at i:1950909 original size:45 final size:44
Alignment explanation
Indices: 1950823--1950913 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
1950813 CTATTTAGTA
*
1950823 TTTTATTATATTATACATACATTTTTATATTTTTATATATATATT
1 TTTTATTATATTATACATACATTTTTATATTTTCATATATAT-TT
* **
1950868 TTTTATTATTTTATTTATACTATTTATT-TATTTTCAT-TATATTT
1 TTTTATTATATTATACATAC-ATTT-TTATATTTTCATATATATTT
1950912 TT
1 TT
1950914 AGTTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
44 4 0.10
45 22 0.55
46 12 0.30
47 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (44 bp):
TTTTATTATATTATACATACATTTTTATATTTTCATATATATTT
Found at i:1950910 original size:28 final size:27
Alignment explanation
Indices: 1950854--1950911 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
1950844 TTTTTATATT
* *
1950854 TTTATATATATATTTTTTATTATTTTA
1 TTTATATATATATTTTTTATCATTATA
*
1950881 TTTATACTATTTATTTATTT-TCATTATA
1 TTTATA-TATATATTT-TTTATCATTATA
1950909 TTT
1 TTT
1950912 TTAGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 17 0.65
29 3 0.12
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTATATATATATTTTTTATCATTATA
Found at i:1951025 original size:20 final size:19
Alignment explanation
Indices: 1950998--1951054 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1950988 TTTTATCTTC
1950998 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
* *
1951017 ATTTCATTTTTTTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
1951038 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
1951055 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 12 0.39
20 14 0.45
21 5 0.16
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:1955580 original size:16 final size:15
Alignment explanation
Indices: 1955557--1955603 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
1955547 AAAAAGGGCA
1955557 AAAACAAAAAAGAA-
1 AAAACAAAAAAGAAG
1955571 AAGAAGCAAAAAAGAAG
1 AA-AA-CAAAAAAGAAG
1955588 AAAACAAAAAA-AAG
1 AAAACAAAAAAGAAG
1955602 AA
1 AA
1955604 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.23
15 9 0.30
16 12 0.40
17 2 0.07
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAACAAAAAAGAAG
Found at i:1955609 original size:18 final size:18
Alignment explanation
Indices: 1955578--1955616 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1955568 GAAAAGAAGC
*
1955578 AAAAAAGAAGAAAA-CAA
1 AAAAAAGAAAAAAATCAA
1955595 AAAAAAGAACAAAAATCAA
1 AAAAAAGAA-AAAAATCAA
1955614 AAA
1 AAA
1955617 GAAAAATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.82, C:0.08, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAATCAA
Found at i:1957348 original size:106 final size:106
Alignment explanation
Indices: 1957220--1958495 Score: 1899
Period size: 106 Copynumber: 12.0 Consensus size: 106
1957210 ATATCGTGCC
* * * ** **
1957220 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1957285 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1957326 ACTCCAGACAACGTAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1957391 AATTTCAGAGCCAATTTCAACTTCA-TGACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
* * *
1957432 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTACC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1957497 AATTTCAGAGCCAATTTCAACTTCACAGAGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1957538 ACTCAAGACAATGCAAGTTCAACTTCATGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1957603 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1957644 ACTCCAAACAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1957709 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
1957750 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * **
1957815 AATTTTAGAGTCAATTTCAACTTCACATTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1957856 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
1957921 AATTTTGGAGCCAATTTCAACTTCACAGCGAAAGATATTGT
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * *
1957962 ACTCCAGACAATACAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1958027 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1958068 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGTGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1958133 AATTTCAGAGCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1958174 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1958239 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1958280 ACTCGAGACAACGCAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* ** * * *
1958345 GATTTTGGAGCCAATTTCAACTTCACAACAAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
1958386 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1958451 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
1958492 ACTC
1 ACTC
1958496 GGTACAATGC
Statistics
Matches: 1069, Mismatches: 98, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.00
106 1067 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1959298 original size:37 final size:37
Alignment explanation
Indices: 1959246--1959349 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1959236 CTTTTCGTCC
*
1959246 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
* * *
1959283 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
** * *
1959320 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
1959350 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAAAATTA
Found at i:1959902 original size:102 final size:101
Alignment explanation
Indices: 1959728--1959920 Score: 221
Period size: 102 Copynumber: 1.9 Consensus size: 101
1959718 AATTTAACCC
* * * * **
1959728 TTATTATTTATATGTATATATGTATATATTTAATTATATTTTATTTATTTATTATAATTTTTTTT
1 TTATTATATATATATATATATGTATATATTTAATTATATTTTACTTATTTACTATAATTTTTTAC
* **
1959793 TATTTTTCTTTGCGTTATAT-TATATTATTTTCCTA
66 TATTTTTCCTAACGTTATATATATATTATTTTCCTA
** *
1959828 TTATTATATATATATATATAT-TATATATTTTTTTATCTATGTTTACTTATTTACTAT-GTTTTT
1 TTATTATATATATATATATATGTATATATTTAATTA--TAT-TTTACTTATTTACTATAATTTTT
1959891 TACTATATTTTCCTAACGTTATATATATAT
63 TACTAT-TTTTCCTAACGTTATATATATAT
1959921 ATTCTTACTT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
99 12 0.16
100 19 0.25
101 12 0.16
102 28 0.37
103 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (101 bp):
TTATTATATATATATATATATGTATATATTTAATTATATTTTACTTATTTACTATAATTTTTTAC
TATTTTTCCTAACGTTATATATATATTATTTTCCTA
Found at i:1959991 original size:15 final size:14
Alignment explanation
Indices: 1959973--1960119 Score: 65
Period size: 16 Copynumber: 10.1 Consensus size: 14
1959963 TTTTAGTTAA
1959973 TATTATATGTATATT
1 TATTATAT-TATATT
* *
1959988 TATTTATTTTTTATT
1 TA-TTATATTATATT
1960003 TATT-TATTAT-TAT
1 TATTATATTATAT-T
1960016 TATTACTATTTAGTACTT
1 TATTA-TA-TTA-TA-TT
*
1960034 TATTATATTATACATA
1 TATTATATTAT--ATT
*
1960050 CATT-T-TTATATT
1 TATTATATTATATT
1960062 T-TTATA-TATATT
1 TATTATATTATATT
* *
1960074 TTTTCTATTAT-TT
1 TATTATATTATATT
1960087 TATTTATATTATTTATT
1 TA-TTATATTA--TATT
*
1960104 TATTTTCATTATATT
1 TATTAT-ATTATATT
1960119 T
1 T
1960120 TTAGTTTCTT
Statistics
Matches: 101, Mismatches: 12, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
11 2 0.02
12 11 0.11
13 16 0.16
14 16 0.16
15 18 0.18
16 19 0.19
17 12 0.12
18 6 0.06
19 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (14 bp):
TATTATATTATATT
Found at i:1960115 original size:13 final size:13
Alignment explanation
Indices: 1960062--1960106 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
1960052 TTTTTATATT
1960062 TTTATATATATTT-
1 TTTATAT-TATTTA
*
1960075 TTTCTATTATTTTA
1 TTTATATTA-TTTA
1960089 TTTATATTATTTA
1 TTTATATTATTTA
1960102 TTTAT
1 TTTAT
1960107 TTTCATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATATTATTTA
Found at i:1960122 original size:21 final size:20
Alignment explanation
Indices: 1960051--1960122 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 20
1960041 TTATACATAC
*
1960051 ATTTTTATAT-TTTTATATAT
1 ATTTTTATTTATTTTAT-TAT
*
1960071 ATTTTTTCTATTATTTTATTTAT
1 A-TTTTTAT-TTATTTTA-TTAT
1960094 ATTATTTATTTATTTTCATTAT
1 ATT-TTTATTTATTTT-ATTAT
1960116 ATTTTTA
1 ATTTTTA
1960123 GTTTCTTTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
20 1 0.02
21 10 0.23
22 17 0.40
23 14 0.33
24 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTATTTTATTAT
Found at i:1960347 original size:19 final size:19
Alignment explanation
Indices: 1960307--1960346 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1960297 GTTTTGTTAC
**
1960307 TTTCTTTTATTATTATTAT
1 TTTCTTTTAAAATTATTAT
1960326 TTTCTTTTAAAATT-TTAT
1 TTTCTTTTAAAATTATTAT
1960344 TTT
1 TTT
1960347 TTAAAGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTAAAATTATTAT
Found at i:1961032 original size:25 final size:25
Alignment explanation
Indices: 1961004--1961052 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1960994 TTTAGATAAA
*
1961004 TTTGAATATAT-TATCTAAAATAATG
1 TTTGAATATATAT-TATAAAATAATG
1961029 TTTGAATATATATTATAAAATAAT
1 TTTGAATATATATTATAAAATAAT
1961053 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
TTTGAATATATATTATAAAATAATG
Found at i:1961949 original size:23 final size:23
Alignment explanation
Indices: 1961914--1961961 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1961904 ATCAAGTATA
*
1961914 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
1961937 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
1961960 AT
1 AT
1961962 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1962212 original size:22 final size:20
Alignment explanation
Indices: 1962190--1962228 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1962180 CCAGTATATT
*
1962190 TTTACCGGTTATATTATAAA
1 TTTACCGGTTATATAATAAA
*
1962210 TTTACCTGTTATATAATAA
1 TTTACCGGTTATATAATAA
1962229 TTATCGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (20 bp):
TTTACCGGTTATATAATAAA
Found at i:1962917 original size:180 final size:181
Alignment explanation
Indices: 1962614--1963064 Score: 716
Period size: 180 Copynumber: 2.5 Consensus size: 181
1962604 GTCGATATAA
*
1962614 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGA
1 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATT-CAAAAGTGTCGA
* *
1962679 TACTTATAATAAAGTATCGACACTTTCAACATATTCGGTAGCTCTTTATCCGTTTTGTCATTTCG
65 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTATCCGTTTTGTCATTTCG
1962744 AGACCGGTTTTGTCATATTTTTACCTGCTATATTG-T-TGGATCGATACATT
130 AGACCGGTTTTGTCATATTTTTACCTGCTATATTGTTATGGATCGATACATT
* *
1962794 TTTATAAAGTATCGACACTTTATTGGCGGTATAACTTCTTTTCTTTTAAATTCTAAAAGTATCGA
1 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTC-AAAAGTGTCGA
1962859 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTAT-CGATTTTGTCATTTC
65 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTATCCG-TTTTGTCATTTC
* * * *
1962923 TAGACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGGTTCGATACATT
129 GAGACCGGTTTTGTCATATTTTTACCTGCTATATTGTTATGGATCGATACATT
*
1962976 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTT-TTTTAAATTCCAAAAGTGTCG
1 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTT-TTCTTTTAAATT-CAAAAGTGTCG
*
1963040 ATACTT-T-ATTAAGTATCGACACTTT
64 ATACTTATAATAAAGTATCGACACTTT
1963065 ATTAGCGCTA
Statistics
Matches: 252, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
179 3 0.01
180 169 0.67
181 2 0.01
182 75 0.30
183 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCAAAAGTGTCGAT
ACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTATCCGTTTTGTCATTTCGA
GACCGGTTTTGTCATATTTTTACCTGCTATATTGTTATGGATCGATACATT
Found at i:1963058 original size:18 final size:18
Alignment explanation
Indices: 1963032--1963068 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1963022 TAAATTCCAA
* *
1963032 AAGTGTCGATACTTTATT
1 AAGTATCGACACTTTATT
1963050 AAGTATCGACACTTTATT
1 AAGTATCGACACTTTATT
1963068 A
1 A
1963069 GCGCTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (18 bp):
AAGTATCGACACTTTATT
Found at i:1963085 original size:68 final size:68
Alignment explanation
Indices: 1962976--1963132 Score: 260
Period size: 68 Copynumber: 2.3 Consensus size: 68
1962966 TCGATACATT
*
1962976 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTTTTTTAAATTCCAAAAGTGTCGA
1 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
1963041 TAC
66 TAC
* **
1963044 TTTATTAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTTAAAAGTGTCGA
1 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
1963109 TAC
66 TAC
1963112 TTATAATAAAGTATCGACACT
1 TT-T-ATAAAGTATCGACACT
1963133 ATCAACATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 66 0.80
69 1 0.01
70 15 0.18
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (68 bp):
TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TAC
Found at i:1963103 original size:250 final size:250
Alignment explanation
Indices: 1962794--1963246 Score: 759
Period size: 250 Copynumber: 1.8 Consensus size: 250
1962784 TCGATACATT
* * *
1962794 TTTATAAAGTATCGACACTTTATTGGCGGTATAACTTCTTTTCTTTTAAATTCTAAAAGTATCGA
1 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTATCGA
* * *
1962859 TACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTATC-GATTTTGTCATTTC
66 TACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTG-TTTTGTCATTTA
*
1962923 TAGACCGGTTTTGTCATATT-TTTA-CTTGTTATATTGTTATGGTTCGATACATTTTTATAAAGT
130 TAGACCGGTTTTGTCAT-TTGTTTATC-TGTTATATTGTTATGGATCGATACATTTTTATAAAGT
1962986 ATCGACACTTTATTAGCGCTATAACTTCTTCTTTTTTAAATTCCAAAAGTGTCGATAC
193 ATCGACACTTTATTAGCGCTATAACTTCTTCTTTTTTAAATTCCAAAAGTGTCGATAC
* * *
1963044 TTTATTAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTTAAAAGTGTCGA
1 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTATCGA
*
1963109 TACTTATAATAAAGTATCGACACTATCAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTAT
66 TACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
1963174 AGACCGGTTTTGTCATTTGTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
131 AGACCGGTTTTGTCATTTGTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
1963239 GACACTTT
196 GACACTTT
1963247 CAATATATCC
Statistics
Matches: 189, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
249 2 0.01
250 185 0.98
251 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (250 bp):
TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTATCGA
TACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT
AGACCGGTTTTGTCATTTGTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATTAGCGCTATAACTTCTTCTTTTTTAAATTCCAAAAGTGTCGATAC
Done.