Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 141 of 425
Found at i:42628396 original size:50 final size:48
Alignment explanation
Indices: 42628268--42628455 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 48
42628258 AGCCGAAGCT
* * * *
42628268 ATCTAGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAC
1 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* * *
42628316 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAC
* * *
42628367 ATCTAATACACATAGTAGCCTGCCCTTAGTACTACACACGTGATC-AC
1 ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
** *
42628414 AGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 A----TCTAGTACACATAGTAGCCTGCACTTAGTACTACACA
42628456 TGCGACCTCA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 36 0.31
50 39 0.34
51 36 0.31
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (48 bp):
ATCTAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
Found at i:42628452 original size:101 final size:99
Alignment explanation
Indices: 42628268--42628466 Score: 256
Period size: 101 Copynumber: 2.0 Consensus size: 99
42628258 AGCCGAAGCT
* * * * * *
42628268 ATCTAGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACGTAGT
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGT
*
42628333 AGCCTGCACTTAGTACTACACACGTGACCTCACC
66 AGCCTGCACTTAGTACTACACACGCGACCTCACC
* * * *
42628367 ATCTAATACACATAGTAGCCTGCCCTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCAT
1 ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACAT
*
42628431 AGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
63 AGTAGCCTGCACTTAGTACTACACACGCGACCTCAC
42628467 AATAGATCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
98 4 0.05
99 38 0.45
101 43 0.51
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
ATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTCACC
Found at i:42635953 original size:19 final size:21
Alignment explanation
Indices: 42635915--42635953 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42635905 AAATTTATTT
*
42635915 TTGAATTATTTTAGATTGTTA
1 TTGAATTATTTTAGACTGTTA
42635936 TTGAATT-TTTTA-ACTGTT
1 TTGAATTATTTTAGACTGTT
42635954 GTAAGACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (21 bp):
TTGAATTATTTTAGACTGTTA
Found at i:42639262 original size:16 final size:16
Alignment explanation
Indices: 42639241--42639283 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
42639231 GTAGATCGGC
*
42639241 AAAAGCTGAAATGCCA
1 AAAAGCTGAAATACCA
42639257 AAAAGCTGAAATACCA
1 AAAAGCTGAAATACCA
*
42639273 AAAAGCCGAAA
1 AAAAGCTGAAA
42639284 GTTTAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAAGCTGAAATACCA
Found at i:42639549 original size:28 final size:29
Alignment explanation
Indices: 42639496--42639556 Score: 99
Period size: 28 Copynumber: 2.1 Consensus size: 29
42639486 TGAGCATGAC
42639496 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGAATTGGGCCTGATGGGCCA
42639525 TATAAATGTG-ATTGGGCCT-AGTGGGCCA
1 TATAAATGTGAATTGGGCCTGA-TGGGCCA
42639553 TATA
1 TATA
42639557 CAGGTATGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 1 0.03
28 20 0.65
29 10 0.32
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTGATGGGCCA
Found at i:42643469 original size:40 final size:40
Alignment explanation
Indices: 42643399--42643576 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
42643389 AAACCAAGTA
* * * *
42643399 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42643438 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42643478 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42643518 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42643558 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42643577 TTATCATCCG
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.10
40 118 0.90
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42651395 original size:40 final size:40
Alignment explanation
Indices: 42651325--42651541 Score: 368
Period size: 40 Copynumber: 5.5 Consensus size: 40
42651315 AAACCAAGTA
* * *
42651325 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42651364 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42651404 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42651444 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42651484 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42651523 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42651542 TTATCATCCA
Statistics
Matches: 170, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 52 0.31
40 118 0.69
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42654557 original size:28 final size:28
Alignment explanation
Indices: 42654475--42654564 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
42654465 TGAGCATGAC
*
42654475 TATAAATGTGAATTGAGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
42654504 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
42654533 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
42654561 TATA
1 TATA
42654565 TAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:42656863 original size:12 final size:12
Alignment explanation
Indices: 42656846--42656870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42656836 CTATTCTTAT
42656846 TTAATTTTATGA
1 TTAATTTTATGA
42656858 TTAATTTTATGA
1 TTAATTTTATGA
42656870 T
1 T
42656871 CGAGCAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTAATTTTATGA
Found at i:42657670 original size:48 final size:48
Alignment explanation
Indices: 42657599--42657695 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
42657589 TGGCTTGTTG
42657599 TGTAACTGTGAGATCTAAGGTTCAAGTCTTGGGATGCATAATAGAGTA
1 TGTAACTGTGAGATCTAAGGTTCAAGTCTTGGGATGCATAATAGAGTA
42657647 TGTAACTGTGAGATCTAAGGTTCAAGTCTTGGGATGCATAATAGAGTA
1 TGTAACTGTGAGATCTAAGGTTCAAGTCTTGGGATGCATAATAGAGTA
42657695 T
1 T
42657696 TCATTTTGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTAACTGTGAGATCTAAGGTTCAAGTCTTGGGATGCATAATAGAGTA
Found at i:42658487 original size:27 final size:27
Alignment explanation
Indices: 42658457--42658658 Score: 168
Period size: 27 Copynumber: 7.5 Consensus size: 27
42658447 TAATGAAGAG
*
42658457 AAATTACAAAAATACCCCCAG-TTTGTA
1 AAATTAC-GAAATACCCCCAGATTTGTA
*
42658484 AAATTACCGAAATACTCCC-GATTTGTA
1 AAATTA-CGAAATACCCCCAGATTTGTA
* *
42658511 AAATTATCGAAATACCCTCA-A-TTGTG
1 AAATTA-CGAAATACCCCCAGATTTGTA
*
42658537 AAATTACTGAAATA-CCCTAGATTTGTA
1 AAATTAC-GAAATACCCCCAGATTTGTA
* * *
42658564 AAATTATCGAAATACTCCC-TATTTGTG
1 AAATTA-CGAAATACCCCCAGATTTGTA
* *
42658591 AAATTATCGAAACACCCTC-GATTTGTA
1 AAATTA-CGAAATACCCCCAGATTTGTA
* *
42658618 AAATTACCGAAACACCCTC-GATTTGTA
1 AAATTA-CGAAATACCCCCAGATTTGTA
42658645 AAATTACCGAAATA
1 AAATTA-CGAAATA
42658659 TCCTTGTAGT
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.03
26 18 0.12
27 121 0.82
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACGAAATACCCCCAGATTTGTA
Found at i:42658589 original size:80 final size:81
Alignment explanation
Indices: 42658456--42658658 Score: 275
Period size: 80 Copynumber: 2.5 Consensus size: 81
42658446 ATAATGAAGA
* *
42658456 GAAATTACAAAAATACCCCCAG-TTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCG
1 GAAATTACAGAAATA-CCCTAGATTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCG
*
42658520 AAATACCCTC-AATTGT
65 AAACACCCTCGAATTGT
* * * *
42658536 GAAATTACTGAAATACCCTAGATTTGTAAAATTATCGAAATACTCCCTATTTGTGAAATTATCGA
1 GAAATTACAGAAATACCCTAGATTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGA
*
42658601 AACACCCTCGATTTGT
66 AACACCCTCGAATTGT
* * * *
42658617 AAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATA
1 GAAATTACAGAAATACCCTAGATTTGTAAAATTACCGAAATA
42658659 TCCTTGTAGT
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
79 5 0.05
80 61 0.56
81 42 0.39
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (81 bp):
GAAATTACAGAAATACCCTAGATTTGTAAAATTACCGAAATACTCCCGATTTGTAAAATTATCGA
AACACCCTCGAATTGT
Found at i:42658614 original size:54 final size:53
Alignment explanation
Indices: 42658466--42658658 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 53
42658456 GAAATTACAA
*
42658466 AAATACCCCCAGTTTGTAAAATTACCGAAATACTCC-CGATTTGTAAAATTATCG
1 AAATACCCCTA-TTTGTAAAATTACCGAAATAC-CCTCGATTTGTAAAATTATCG
* * * *
42658520 AAATA-CCCTCAATTGTGAAATTACTGAAATACCCTAGATTTGTAAAATTATCG
1 AAATACCCCT-ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCG
* * * *
42658573 AAATACTCCCTATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACCG
1 AAATAC-CCCTATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCG
* *
42658627 AAACACCCTCGATTTGTAAAATTACCGAAATA
1 AAATACCC-CTATTTGTAAAATTACCGAAATA
42658659 TCCTTGTAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.38
54 67 0.57
55 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (53 bp):
AAATACCCCTATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCG
Found at i:42658671 original size:27 final size:27
Alignment explanation
Indices: 42658480--42658702 Score: 100
Period size: 27 Copynumber: 8.3 Consensus size: 27
42658470 ACCCCCAGTT
* *
42658480 TGTAAAATTACCGAAATACTCC-CG-ATT
1 TGTAAAATTACCGAAATAC-CCTTGTA-G
* ** *
42658507 TGTAAAATTATCGAAATACCC-TCAAT
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
42658533 TGTGAAATTACTGAAATACCCTAG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
42658560 TGTAAAATTATCGAAATACTCCCTAT-T
1 TGTAAAATTACCGAAATAC-CCTTGTAG
* * * * *
42658587 TGTGAAATTATCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
42658614 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
42658641 TGTAAAATTACCGAAATATCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
42658668 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
42658695 GGTAAAAT
1 TGTAAAAT
42658703 GACTGTTTTG
Statistics
Matches: 158, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.15
27 131 0.83
28 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:42661754 original size:45 final size:47
Alignment explanation
Indices: 42661700--42661805 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 47
42661690 CTAAGCTGAT
* * *
42661700 AAACAGTAAGCTCTAT-TAAGCTGAAACGATAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTATACAAGCTGAAACGATAAGCTCCAATGAGCTG
* *
42661746 -ATCAGTAAGCTC-ATACAAGCTGAAACGGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTCTATACAAGCTGAAACGATAAGCTCCAATGAGCTG
42661791 AAAACAGTAAGCTCT
1 -AAACAGTAAGCTCT
42661806 TTCGAGCTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
44 2 0.04
45 37 0.74
47 11 0.22
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (47 bp):
AAACAGTAAGCTCTATACAAGCTGAAACGATAAGCTCCAATGAGCTG
Found at i:42661789 original size:23 final size:23
Alignment explanation
Indices: 42661691--42661804 Score: 81
Period size: 23 Copynumber: 4.9 Consensus size: 23
42661681 AAGCTCCTCC
* *
42661691 TAAGCTGATAAACAGTAAGCTCTAT
1 TAAGCTG--AAACAGTAAGCTCCAA
* *
42661716 TAAGCTGAAAC-GATAAGCTCTAT
1 TAAGCTGAAACAG-TAAGCTCCAA
* *
42661739 TGAGCTG-ATCAGTAAGCT-CATA
1 TAAGCTGAAACAGTAAGCTCCA-A
* *
42661761 CAAGCTGAAACGGTAAGCTCCAA
1 TAAGCTGAAACAGTAAGCTCCAA
*
42661784 TGAGCTGAAAACAGTAAGCTC
1 TAAGCTG-AAACAGTAAGCTC
42661805 TTTCGAGCTG
Statistics
Matches: 72, Mismatches: 11, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 14 0.19
23 36 0.50
24 14 0.19
25 7 0.10
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
TAAGCTGAAACAGTAAGCTCCAA
Found at i:42661790 original size:68 final size:71
Alignment explanation
Indices: 42661659--42661816 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 71
42661649 CATCATATAT
* * * * *
42661659 GCTCTTTCGAGCCATGATCGGTAAGCTCCTCCTAAGCTGATAAACAGTAAGCTCTATTAAGCTG-
1 GCTCTTTCGAG-C-TGATCAGTAAGCTCATACTAAGCTGA-AAACAGTAAGCTCCAATAAGCTGA
42661723 AAAC-GATAA
63 AAACAG-TAA
* *
42661732 GCTCTATT-GAGCTGATCAGTAAGCTCATAC-AAGCTG-AAACGGTAAGCTCCAATGAGCTGAAA
1 GCTCT-TTCGAGCTGATCAGTAAGCTCATACTAAGCTGAAAACAGTAAGCTCCAATAAGCTGAAA
42661794 ACAGTAA
65 ACAGTAA
42661801 GCTCTTTCGAGCTGAT
1 GCTCTTTCGAGCTGAT
42661817 ATATCGGTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
68 21 0.28
69 20 0.27
70 7 0.09
71 15 0.20
72 1 0.01
73 8 0.11
74 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (71 bp):
GCTCTTTCGAGCTGATCAGTAAGCTCATACTAAGCTGAAAACAGTAAGCTCCAATAAGCTGAAAA
CAGTAA
Found at i:42665467 original size:50 final size:48
Alignment explanation
Indices: 42665401--42665587 Score: 205
Period size: 50 Copynumber: 3.8 Consensus size: 48
42665391 AACAATCCAG
* * *
42665401 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATTATCTGA
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGA-CTAATAAT-TGA
* * *
42665451 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTCATTGA
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGACT-AA-TAATTGA
* * * *
42665501 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACTTAA-AAGTATGA
1 -TACACGTAGTAGCCTACACTTAGTACTACACACGTGAC-TAATAA-T-TGA
42665552 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
42665588 TATTCACAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 2 0.02
50 74 0.63
51 40 0.34
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
TACACGTAGTAGCCTACACTTAGTACTACACACGTGACTAATAATTGA
Found at i:42669107 original size:40 final size:40
Alignment explanation
Indices: 42668980--42669109 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
42668970 ATGCTGGAAA
* * *
42668980 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
42669020 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42669060 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42669100 TTATATCCGG
1 TTATATCCGG
42669110 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42676989 original size:40 final size:40
Alignment explanation
Indices: 42676923--42677073 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
42676913 AAATTGAATG
* * *
42676923 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
42676962 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
42677002 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
42677042 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
42677074 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:42677087 original size:40 final size:40
Alignment explanation
Indices: 42676960--42677089 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
42676950 ATGCTGGAAA
* * *
42676960 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
42677000 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42677040 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42677080 TTATATCCGG
1 TTATATCCGG
42677090 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42682078 original size:29 final size:29
Alignment explanation
Indices: 42681995--42682119 Score: 199
Period size: 29 Copynumber: 4.5 Consensus size: 29
42681985 ATAGTGAATC
42681995 CGCACACTTAGTGCTATAT-TTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
42682023 CGCACACTTAGTGC----TA-TTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
42682047 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
42682076 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
42682105 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42682120 GTACAATTTT
Statistics
Matches: 90, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
24 23 0.26
28 16 0.18
29 51 0.57
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:42682085 original size:53 final size:54
Alignment explanation
Indices: 42681995--42682119 Score: 191
Period size: 53 Copynumber: 2.3 Consensus size: 54
42681985 ATAGTGAATC
42681995 CGCACACTTAGTGCTATATTTTTCAGCTCGCACACTTAGTGC-TA-TTTCAGCT
1 CGCACACTTAGTGCTATATTTTTCAGCTCGCACACTTAGTGCATATTTTCAGCT
*
42682047 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATAT-TTTTCAGCTCGCACACTTAGTGC---ATATTTTCAGCT
42682105 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42682120 GTACAATTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
52 19 0.29
53 23 0.35
57 2 0.03
58 22 0.33
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (54 bp):
CGCACACTTAGTGCTATATTTTTCAGCTCGCACACTTAGTGCATATTTTCAGCT
Found at i:42691563 original size:40 final size:40
Alignment explanation
Indices: 42691411--42691556 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
42691401 TCGAATGATG
* * *
42691411 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
42691451 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42691491 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
42691532 -CCGGGCTATGTCCCGAACGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42691557 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42691563 original size:80 final size:80
Alignment explanation
Indices: 42691411--42691579 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
42691401 TCGAATGATG
* * * *
42691411 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCTGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAACGCATTT
**
42691476 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
42691491 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAACGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAACGCAT
*
42691554 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
42691571 TCC-GGTTAA
1 TCCGGGTTAA
42691580 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 59 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAACGCATTT
GAACGAGTAGCTAAA
Found at i:42693208 original size:14 final size:13
Alignment explanation
Indices: 42693173--42693237 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 13
42693163 TATAAAAGGA
42693173 TATATG-AATGAGT
1 TATATGAAATGA-T
42693186 TATATGAAATGAT
1 TATATGAAATGAT
42693199 TATATGGAAATAGAT
1 TATAT-GAAAT-GAT
42693214 T-TATGAAATGAAT
1 TATATGAAATG-AT
*
42693227 TCT-TGAAATGA
1 TATATGAAATGA
42693238 AAATGTGAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.04
13 27 0.57
14 14 0.30
15 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:42704116 original size:39 final size:39
Alignment explanation
Indices: 42704073--42704260 Score: 315
Period size: 39 Copynumber: 4.8 Consensus size: 39
42704063 TATGGTAGCC
*
42704073 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
42704112 CGCACAATTGCCTTTGGGCTTAGCTCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
**
42704151 CGCACAATTGCCTTCGGGCTTAGTTCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42704190 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42704229 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
42704261 TACCCGAACA
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 132 0.94
40 9 0.06
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42712126 original size:39 final size:39
Alignment explanation
Indices: 42712083--42712192 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
42712073 TATGGTAGCC
*
42712083 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
42712122 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
42712161 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
42712193 TACCCGAACA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
39 59 0.86
40 10 0.14
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:42714654 original size:28 final size:28
Alignment explanation
Indices: 42714585--42714685 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42714575 GACAAGATTG
* * * *
42714585 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
42714615 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42714643 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
42714672 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42714686 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42714679 original size:29 final size:28
Alignment explanation
Indices: 42714614--42714685 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
42714604 AAAATTGTAC
*
42714614 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
42714642 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
42714671 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42714686 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:42721783 original size:28 final size:28
Alignment explanation
Indices: 42721714--42721814 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
42721704 GACAAGATTG
* * * *
42721714 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
42721744 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
42721772 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
42721801 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
42721815 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:42721808 original size:29 final size:28
Alignment explanation
Indices: 42721743--42721814 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
42721733 AAAATTGTAC
*
42721743 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
42721771 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
42721800 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42721815 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:42738897 original size:13 final size:13
Alignment explanation
Indices: 42738879--42738905 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42738869 CACCAGAGTT
42738879 AGAAAAGATTCAC
1 AGAAAAGATTCAC
42738892 AGAAAAGATTCAC
1 AGAAAAGATTCAC
42738905 A
1 A
42738906 ATGTGTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
AGAAAAGATTCAC
Found at i:42740528 original size:47 final size:45
Alignment explanation
Indices: 42740459--42740815 Score: 208
Period size: 47 Copynumber: 7.6 Consensus size: 45
42740449 TTGTGCGTCG
* *
42740459 GTGTAAGACATGTCTGGAACATGCTTCGGCCACATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGAGAGCCA
* * * * * *
42740505 GTGTAAGACCATGTTTGGGACATGGCATCGACATCCA-GACGTGAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGCCA--CATTATGAGAGCCA
*
42740553 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCA
1 GTGTAAGACATGTCT-GGGACATGCATC-GCCACATTATGAGAGCCA
* ** * ** *
42740599 ATGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGCCACA-TTATGAGAGCCA
* * *
42740647 GAGTAAGACATGTCTGGGACATGCATCAGCCTCGACA-GA-GACAGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-G-C-C-ACATTATGAGAGCCA
* * * * * * *
42740694 GTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGT-TG-TA-CTA
1 GTGTAAGACATGTCTGGGACATGCATC-GC-CACATTATGAGAGCCA
* *
42740738 GTGTAAGACATGTTTGGGATATGCATCAGCACGCACA-TATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATC-G--C-CACATTATGAGAGCCA
42740786 GTGTAAGACCATGTCTGGGACATGTCATCG
1 GTGTAAGA-CATGTCTGGGACATG-CATCG
42740816 GCAATATATC
Statistics
Matches: 238, Mismatches: 49, Indels: 45
0.72 0.15 0.14
Matches are distributed among these distances:
44 26 0.11
45 5 0.02
46 43 0.18
47 88 0.37
48 54 0.23
49 16 0.07
50 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGCCACATTATGAGAGCCA
Found at i:42740620 original size:94 final size:91
Alignment explanation
Indices: 42740459--42740818 Score: 365
Period size: 94 Copynumber: 3.9 Consensus size: 91
42740449 TTGTGCGTCG
* * * *
42740459 GTGTAAGACATGTCTGGAACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGGG
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACA-TATGAGAGCCAGTGTAAGACCATGTCTGGG
* *
42740524 ACATGGCATCGACATCCAGACGTGAGCTA
65 ACATGGCATCGGCAT-AAGA-GTGAGCTA
* *
42740553 GTGTAAGACATGTCTAGGG-CATGCATCAGCCATATTATGAGAGCCAATGTAAGACCATGTCTGG
1 GTGTAAGACATGTCT-GGGACATGCATCAGCCACA-TATGAGAGCCAGTGTAAGACCATGTCTGG
* *
42740617 GACATGGCATCGGTAT-AGAGATGAGTGCCA
64 GACATGGCATCGGCATAAGAG-TGA--GCTA
* * * *
42740647 GAGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGA-GACAGCCAGTGTAAGA-CGTGTCTG
1 GTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATATGAGAGCCAGTGTAAGACCATGTCTG
*
42740710 GGACA-CGCATCGGC-TAAGAGTTGTA-CTA
63 GGACATGGCATCGGCATAAGAG-TG-AGCTA
* *
42740738 GTGTAAGACATGTTTGGGATATGCATCAGCACGCACATATGAGAGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACATGTCTGGGACATGCATCAG--C-CACATATGAGAGCCAGTGTAAGACCATGTCTG
*
42740803 GGACATGTCATCGGCA
63 GGACATGGCATCGGCA
42740819 ATATATCCCA
Statistics
Matches: 222, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
91 33 0.15
92 24 0.11
93 28 0.13
94 116 0.52
95 17 0.08
96 2 0.01
97 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCACATATGAGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCATAAGAGTGAGCTA
Found at i:42741778 original size:42 final size:41
Alignment explanation
Indices: 42741725--42741844 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 41
42741715 TCCAATATGA
* *
42741725 GATTTCGTGTAAGACCACATTTAGGACATCGGCATCG-TATAT
1 GATTTCATGTAAGACCAC-TTTGGGACAT-GGCATCGATATAT
*
42741767 GATTTCATGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTT
1 GATTTCATGTAAGACCACT-T-TGGGACA-TGGCATCGATATAT
* *
42741810 GATTACATGTAAGACCATGTTTGGGACATTGGCAT
1 GATTTCATGTAAGACCA-CTTTGGGACA-TGGCAT
42741845 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
40 1 0.02
41 2 0.03
42 28 0.42
43 33 0.50
44 1 0.02
45 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
GATTTCATGTAAGACCACTTTGGGACATGGCATCGATATAT
Found at i:42741824 original size:43 final size:42
Alignment explanation
Indices: 42741755--42741844 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 42
42741745 TTAGGACATC
* *
42741755 GGCATCGTATATGATTTCATGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATATGATTACATGTAAGACCATGTCTGGGACAGT
* * *
42741797 GGCATCGATATTTGATTACATGTAAGACCATGTTTGGGACATT
1 GGCATCG-TATATGATTACATGTAAGACCATGTCTGGGACAGT
42741840 GGCAT
1 GGCAT
42741845 TGTACGAGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GGCATCGTATATGATTACATGTAAGACCATGTCTGGGACAGT
Found at i:42743038 original size:30 final size:30
Alignment explanation
Indices: 42743002--42743067 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
42742992 ATGGCCAAAG
42743002 CACACGGGCATGGTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
*
42743032 CACACGGGCATGTTTGATAACCGTGTGAGT
1 CACACGGGCATGGTTGATAACCGTGTGAGT
42743062 CACACG
1 CACACG
42743068 AGCTGTTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
CACACGGGCATGGTTGATAACCGTGTGAGT
Found at i:42751941 original size:47 final size:46
Alignment explanation
Indices: 42751868--42752144 Score: 128
Period size: 47 Copynumber: 5.9 Consensus size: 46
42751858 ATTTGTGTGT
* **
42751868 GAGCTAGTGTAA-GACATGTCCAGGACATGCATCGGCCACCTTATAA
1 GAGCCAGTGTAAGGACATGTCTGGGACATGCATC-GCCACCTTATAA
* * *
42751914 GAGCCAGTGTAAGGCCATGTCTGGGACATGACATCG--ACATTAAGACGA
1 GAGCCAGTGTAAGGACATGTCTGGGACATG-CATCGCCACCTT-ATA--A
* * *** *
42751962 GAGCTAGTGTAA-GACATGTCTGGGACATGCATCAGCCTCGAGACATA
1 GAGCCAGTGTAAGGACATGTCTGGGACATGCATC-GCCACCTTATA-A
* * * * *
42752009 -AGCCAATGT-ATGACATGTCTGGGACATGCATCGGCTA-CTAGATGA
1 GAGCCAGTGTAAGGACATGTCTGGGACATGCATC-GCCACCT-TATAA
* * *
42752054 TAGTCAGTGTAA-GACCATGTCTGGGACATGGCATCG--A-CTTGAGATAT
1 GAGCCAGTGTAAGGA-CATGTCTGGGACAT-GCATCGCCACCTT---ATAA
* *
42752101 GAGCCAGTGTAA-GACCATGTCTGGGATATGGCATCGACACCTTA
1 GAGCCAGTGTAAGGA-CATGTCTGGGACAT-GCATCGCCACCTTA
42752145 CCCACGTCTG
Statistics
Matches: 180, Mismatches: 31, Indels: 39
0.72 0.12 0.16
Matches are distributed among these distances:
45 9 0.05
46 58 0.32
47 85 0.47
48 23 0.13
49 2 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGGACATGTCTGGGACATGCATCGCCACCTTATAA
Found at i:42752075 original size:93 final size:94
Alignment explanation
Indices: 42751915--42752136 Score: 247
Period size: 93 Copynumber: 2.4 Consensus size: 94
42751905 ACCTTATAAG
* * * * * * *
42751915 AGCCAGTGTAAGGCCATGTCTGGGACATGACATCGAC-ATTAAGACGAGAG-CTAGTGTAAGACA
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTACT-AGATGATAGTC-AGTGTAAGACA
*
42751978 TGTCTGGGACAT-GCATCAGCCTCGAGACATA
64 TGTCTGGGACATGGCATC-GACTCGAGACATA
*
42752009 AGCCAATGTATGA-CATGTCTGGGACAT-GCATCGGCTACTAGATGATAGTCAGTGTAAGACCAT
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTACTAGATGATAGTCAGTGTAAGA-CAT
* * *
42752072 GTCTGGGACATGGCATCGACTTGAGATATG
65 GTCTGGGACATGGCATCGACTCGAGACATA
* *
42752102 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCG
1 AGCCAATGTAAGACCATGTCTGGGACATGGCATCG
42752137 ACACCTTACC
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
92 22 0.21
93 51 0.48
94 28 0.26
95 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (94 bp):
AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCTACTAGATGATAGTCAGTGTAAGACATG
TCTGGGACATGGCATCGACTCGAGACATA
Found at i:42756564 original size:35 final size:35
Alignment explanation
Indices: 42756518--42756590 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
42756508 ATTAAGTGCT
* *
42756518 CTAATGGGTACCCTTGATTATGAGTTGACGGCTTA
1 CTAATGGGTACCCCTGATTATGAGTTGACAGCTTA
42756553 CTAATGGGTACCCCTGATTATGAGTTGACAGCTTA
1 CTAATGGGTACCCCTGATTATGAGTTGACAGCTTA
42756588 CTA
1 CTA
42756591 TTTTGTAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (35 bp):
CTAATGGGTACCCCTGATTATGAGTTGACAGCTTA
Found at i:42763903 original size:139 final size:140
Alignment explanation
Indices: 42763651--42763903 Score: 298
Period size: 139 Copynumber: 1.8 Consensus size: 140
42763641 ATTGTGAGCT
* ** * *
42763651 AGTGTAAGACATTTCTGGGACATGCATCAGCCACATTATGAGAGATAGTGTAAGACCATGTCTGG
1 AGTGTAAAACATGCCTGGGACATGCATCAGCCACATGATGAGAGATAGTGTAAGACCATGTATGG
* * * * * *
42763716 GACATGGCATAGGCATTGAGACGAGTGCTAGTGTAAGACCTGTCTGGGATATGCAGCGGCCTCGA
66 GACATGACATAGACATTGAGACGAGAGCCAGCGTAAGACATGTCTGGGATATGCAGCGGCCTCGA
42763781 GACGTAAGCC
131 GACGTAAGCC
* * *
42763791 AGTGTAAAACATGCCTGGGACATGCATC-GCTACGA-GATGATAGTTAGTGTAAGACCATGTATG
1 AGTGTAAAACATGCCTGGGACATGCATCAGCCAC-ATGATGAGAGATAGTGTAAGACCATGTATG
* * *
42763854 GGACATGACATCGAC-TTGAGA-TATGAGCCAGCGTAAGAACATGTTTGGGA
65 GGACATGACATAGACATTGAGACGA-GAGCCAGCGTAAG-ACATGTCTGGGA
42763904 CAAGGCATTG
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
137 1 0.01
138 16 0.17
139 50 0.54
140 26 0.28
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAAACATGCCTGGGACATGCATCAGCCACATGATGAGAGATAGTGTAAGACCATGTATGG
GACATGACATAGACATTGAGACGAGAGCCAGCGTAAGACATGTCTGGGATATGCAGCGGCCTCGA
GACGTAAGCC
Found at i:42764837 original size:41 final size:41
Alignment explanation
Indices: 42764781--42764858 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
42764771 GTTTTTACAC
* *
42764781 ATGGGCTAGGACACGGGCATGT-CAAGGCCGTGTGAAGCAT
1 ATGGGCCAGGACACGGGCATGTGCAAGGCCATGTGAAGCAT
* *
42764821 ATGGGCCAGGGACACGGGCGTGTGCCAGGCCATGTGAA
1 ATGGGCCA-GGACACGGGCATGTGCAAGGCCATGTGAA
42764859 AATCCCTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 7 0.22
41 13 0.41
42 12 0.38
ACGTcount: A:0.23, C:0.22, G:0.40, T:0.15
Consensus pattern (41 bp):
ATGGGCCAGGACACGGGCATGTGCAAGGCCATGTGAAGCAT
Found at i:42770373 original size:46 final size:46
Alignment explanation
Indices: 42770188--42770441 Score: 137
Period size: 47 Copynumber: 5.5 Consensus size: 46
42770178 GTGAGCTAGA
* * ** *
42770188 GTAAGACATTTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAT-A-AACCAGT
* * * * * *
42770234 GTAAGACCATGTCTTGGACATGGCATAGGCATTGAGACGAGT--GCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAC-A-TAAACCAGT
*
42770282 GTAAGACATGTC-GGGATATGCATCGGCCTCGAGACATAAACCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAACCAGT
* * **
42770327 GTATGACATGTCTGGGACATGCATCGG-CTACGAGATGAT-ATTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-CATAAACCAGT
* * * * * * *
42770373 GTAAGACCATGTATGGGACATGGCATC-GACTTGAGATATGAGCCAGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACATAAACCAGT
*
42770420 GTAAGAACATGTTTGGGACATG
1 GTAAG-ACATGTCTGGGACATG
42770442 GCATTGGCAG
Statistics
Matches: 163, Mismatches: 29, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 30 0.18
46 42 0.26
47 60 0.37
48 26 0.16
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAACCAGT
Found at i:42778206 original size:95 final size:95
Alignment explanation
Indices: 42777984--42778253 Score: 285
Period size: 95 Copynumber: 2.8 Consensus size: 95
42777974 AGATGCTGAC
* * * * * * *
42777984 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACA--TCAAAGTCGATGCCATGTCCCAAACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
* * * * ***
42778047 TGGTGTTACACTGACTCTTATATACTGAAACCGAT
66 TGGTCTTACACTAACAC--A-A-A-TCAAGTTGAT
* * *
42778082 GCCATGTCCCTGACATGGTCTTACACTAGCTCTCATCTGTCG-GTGCCGATGCCATGTCCCAAAC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCGATGCCATGTCCCAAAC
42778146 ATGGTCTTACACTAACACAAATCAAGTTGAT
65 ATGGTCTTACACTAACACAAATCAAGTTGAT
* * *
42778177 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
42778242 TGGTCTTACACT
66 TGGTCTTACACT
42778254 TGCTCTCATA
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
95 75 0.51
96 2 0.01
97 1 0.01
98 33 0.22
100 36 0.24
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (95 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAACACAAATCAAGTTGAT
Found at i:42778250 original size:145 final size:147
Alignment explanation
Indices: 42777984--42778262 Score: 370
Period size: 145 Copynumber: 1.9 Consensus size: 147
42777974 AGATGCTGAC
** ** *
42777984 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGTCGATGCCATGTCCCAAACATG
1 GCCATGTCCCAAACATGGTCTTACACT-GAACACAAATCAAAGTCGATGCCATGTCCCAAACATG
* *
42778049 GTGTTACACTGACTCTTATATACTGAAACCGATGCCATGTCCCTGACATGGTCTTACACTAGCTC
65 GTCTTACACTGACTCTTATATACTGAAACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
42778114 TCATCTGTCGGTGCCGAT
130 TCATCTGTCGGTGCCGAT
* * *
42778132 GCCATGTCCCAAACATGGTCTTACACT-AACACAAATC-AAGTTGATGCCATGTCTCAGACATGG
1 GCCATGTCCCAAACATGGTCTTACACTGAACACAAATCAAAGTCGATGCCATGTCCCAAACATGG
** *
42778195 TCTTACACT-AGCT-TTCATAT-CTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTTGC
66 TCTTACACTGA-CTCTT-ATATACT-GAAACCGATGCCATGTCCCAGACATGGTCTTACACTAGC
42778257 TCTCAT
128 TCTCAT
42778263 AATGCAGACT
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
144 5 0.04
145 78 0.68
146 7 0.06
148 25 0.22
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (147 bp):
GCCATGTCCCAAACATGGTCTTACACTGAACACAAATCAAAGTCGATGCCATGTCCCAAACATGG
TCTTACACTGACTCTTATATACTGAAACCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
CATCTGTCGGTGCCGAT
Found at i:42778263 original size:50 final size:50
Alignment explanation
Indices: 42777984--42778263 Score: 236
Period size: 50 Copynumber: 5.7 Consensus size: 50
42777974 AGATGCTGAC
* * * * * *
42777984 GCCATGTCCCGGACATGGTCTTACACTGGCTCACACA--TCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATCTCGAAGCCGAT
* * * *
42778032 GCCATGTCCCAAACATGGTGTTACAC-TGACTCTTATATACT-GAAACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTTG-CTCTCATAT-CTCGAAGCCGAT
* * * * **
42778082 GCCATGTCCCTGACATGGTCTTACACTAGCTCTCATCTGTCGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATCTCGAAGCCGAT
* ** * * **
42778132 GCCATGTCCCAAACATGGTCTTACAC-T-AACACA-A-ATC-AAGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATCTCGAAGCCGAT
* * * *
42778177 GCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATCTCGAAGCCGAT
42778227 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATA
1 GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATA
42778264 ATGCAGACTA
Statistics
Matches: 175, Mismatches: 46, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
45 28 0.16
46 2 0.01
47 3 0.02
48 32 0.18
49 3 0.02
50 105 0.60
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATCTCGAAGCCGAT
Found at i:42792087 original size:24 final size:24
Alignment explanation
Indices: 42792060--42792122 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
42792050 CTTATTATGT
*
42792060 TCGCACACATAGTTCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
42792084 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
42792108 TCGCACACATAGTGC
1 TCGCACACATAGTGC
42792123 AATTGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:42800136 original size:24 final size:24
Alignment explanation
Indices: 42800109--42800171 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
42800099 CTTATTATGT
*
42800109 TCGCACACATAGTTCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
42800133 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
42800157 TCGCACACATAGTGC
1 TCGCACACATAGTGC
42800172 AATTGAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:42809604 original size:40 final size:40
Alignment explanation
Indices: 42809549--42809758 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42809539 GAACATTGAA
42809549 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42809589 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42809629 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42809669 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42809708 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42809749 CTATATCCGG
1 ATATATCCGG
42809759 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42817740 original size:40 final size:40
Alignment explanation
Indices: 42817685--42817894 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
42817675 AACATTGGAA
42817685 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42817725 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
42817765 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
42817805 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
42817844 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
42817885 CTATATCCGG
1 ATATATCCGG
42817895 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:42827472 original size:26 final size:26
Alignment explanation
Indices: 42827443--42827513 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
42827433 TAACTGTAAT
* *
42827443 TGCTCACATGAGCTATGGAATGGGCC
1 TGCTCACACGAGCTGTGGAATGGGCC
* *
42827469 TGCTCACACAAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGGAATGGGCC
*
42827495 TACTCACACGAGCTGTGGA
1 TGCTCACACGAGCTGTGGA
42827514 GAATCCGCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.21
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGGAATGGGCC
Found at i:42836248 original size:23 final size:23
Alignment explanation
Indices: 42836222--42836291 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
42836212 TTCGTTTAAC
*
42836222 TTAATCGAACATGTTCATGAACA
1 TTAATCGAACATGTTTATGAACA
* * *
42836245 TTAAACGAACATCTTTATAAACA
1 TTAATCGAACATGTTTATGAACA
*
42836268 TATAATTGAACATGTTTATGAACA
1 T-TAATCGAACATGTTTATGAACA
42836292 ATGTTAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (23 bp):
TTAATCGAACATGTTTATGAACA
Found at i:42839118 original size:40 final size:40
Alignment explanation
Indices: 42839073--42839239 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
42839063 CGGAATACAA
42839073 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
42839113 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
42839153 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
42839193 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
42839232 CCGGATAT
1 CCGGATAT
42839240 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:42847129 original size:40 final size:40
Alignment explanation
Indices: 42847084--42847212 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
42847074 CGGAATACAA
42847084 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
42847124 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
42847164 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
42847203 CCGGATATAA
1 CCGGATATAA
42847213 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 11 0.15
40 64 0.85
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:42850668 original size:40 final size:40
Alignment explanation
Indices: 42850609--42850816 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
42850599 GCAATGAATG
* * *
42850609 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
42850649 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42850689 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42850729 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42850769 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
42850809 ATATCCGG
1 ATATCCGG
42850817 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:42850747 original size:80 final size:80
Alignment explanation
Indices: 42850611--42850816 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
42850601 AATGAATGAT
* * * * * *
42850611 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
42850676 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
42850691 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
42850756 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
42850771 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
42850817 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:42858798 original size:40 final size:40
Alignment explanation
Indices: 42858739--42858945 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
42858729 CAATTGAATG
* * *
42858739 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
42858779 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42858819 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42858859 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
42858899 ATATCCGGGCTAAGACCCGAA-GCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
42858938 ATATCCGG
1 ATATCCGG
42858946 TTGTAATCCG
Statistics
Matches: 144, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 23 0.16
40 121 0.84
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:42858877 original size:80 final size:80
Alignment explanation
Indices: 42858741--42858945 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
42858731 ATTGAATGAT
* * * * * *
42858741 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
42858806 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
42858821 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
42858886 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
42858901 ATCCGGGCTAAGACCCGAA-GCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
42858946 TTGTAATCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 23 0.21
80 84 0.78
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:42861931 original size:42 final size:43
Alignment explanation
Indices: 42861827--42861978 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
42861817 AGTACAATGT
* *
42861827 CGATGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGC
1 CGATGTCCCAGACATGGTCTTACATGTAAATCAATATCGATGC
** * *
42861870 CTCTATCCCAGACAGGGTCTTACATG-AAATCAAATAT-GATGC
1 CGATGTCCCAGACATGGTCTTACATGTAAATC-AATATCGATGC
* * * * *
42861912 CGATGTCCCAGATATGGTCTTATACGTAAATCTCA-ATCGAGGC
1 CGATGTCCCAGACATGGTCTTACATGTAAATC-AATATCGATGC
* *
42861955 CTG-TGTCCTAGACACGGTCTTACA
1 C-GATGTCCCAGACATGGTCTTACA
42861979 CAATGTCACA
Statistics
Matches: 85, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 30 0.35
43 54 0.64
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
CGATGTCCCAGACATGGTCTTACATGTAAATCAATATCGATGC
Found at i:42868840 original size:44 final size:45
Alignment explanation
Indices: 42868634--42868852 Score: 149
Period size: 47 Copynumber: 4.8 Consensus size: 45
42868624 AGATTTCTAG
* * * * **
42868634 TGTGCCAGTGTAAGACATGTCTAGGACATGCATCAGCC-ACATTA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACAA
* ** * * *
42868678 TGAGTGCCAGTAAAAGACAATGTCTGGTACATGGCATCGGCACAGAGACGA
1 T--GTGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-C-TAGACAA
*
42868729 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACAA
* * * * * **
42868773 TGATAGCCAGAGTAAGACGTGTCTGGGACACGCATTGG-CTAAGA-GT
1 TG-T-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-AGACAA
42868819 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
42868853 AGCACGTATA
Statistics
Matches: 136, Mismatches: 28, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
44 31 0.23
45 3 0.02
46 26 0.19
47 53 0.39
48 19 0.14
49 1 0.01
51 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGACAA
Found at i:42870724 original size:86 final size:86
Alignment explanation
Indices: 42870577--42870780 Score: 304
Period size: 86 Copynumber: 2.4 Consensus size: 86
42870567 ACATATCGTA
* * *
42870577 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGG
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATGCCACTGTCCCAGACAGG
42870642 GTCTTACACATAATCACATAT
66 GTCTTACACATAATCACATAT
* * *
42870663 CGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATAACGATGCCAAC-GTCCCAGACAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATGCC-ACTGTCCCAGACAG
*
42870727 GGTCTTACACGTAATCACATAT
65 GGTCTTACACATAATCACATAT
*
42870749 CAAT-CCTAACGTTCCAGACGTGGTCTTACACG
1 CAATGCC-AACGTCCCAGACGTGGTCTTACACG
42870781 CACACACATA
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
85 2 0.02
86 102 0.96
87 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (86 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAACGATGCCACTGTCCCAGACAGG
GTCTTACACATAATCACATAT
Found at i:42870791 original size:43 final size:43
Alignment explanation
Indices: 42870577--42870780 Score: 270
Period size: 43 Copynumber: 4.7 Consensus size: 43
42870567 ACATATCGTA
* *
42870577 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* *
42870620 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACATAATCACATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATAT
* * *
42870663 CGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATAA
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
* *
42870706 CGATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
*
42870749 CAAT-CCTAACGTTCCAGACGTGGTCTTACACG
1 CAATGCC-AACGTCCCAGACGTGGTCTTACACG
42870781 CACACACATA
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.03
43 135 0.94
44 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATAT
Found at i:42883774 original size:49 final size:50
Alignment explanation
Indices: 42883651--42883953 Score: 292
Period size: 49 Copynumber: 6.1 Consensus size: 50
42883641 TTCACCTTAC
** * * * *
42883651 AGGCTTCCCGGATGACTTGCCACAGAGGC-TTCCAAGATG-TCTTGCCAAAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAA-ATGATC-TGCCACAA
* * *
42883701 AGGCTTCCTAGATGTCTTGCCACAAAGGCTTTACAAATGATCTGCCATAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
* **
42883751 A-GCTTCCTAGATGACTCACCACAAAGGCTTTACAAATGATCCACCACAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * * *
42883800 AGGCTTCTTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * *** *
42883850 A-GCTTCCTAGATGACTCGTCACAAAGGCTTTAC-GATGATCCATCAAAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
* * * * * * *
42883898 AGGCTTCCCAAATGACTCGCTAGAAAAGCTTTACAGATTATCTGCCACAA
1 AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
42883948 AGGCTT
1 AGGCTT
42883954 TACAGATTAT
Statistics
Matches: 208, Mismatches: 40, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
48 11 0.05
49 96 0.46
50 94 0.45
51 7 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
AGGCTTCCTAGATGACTCGCCACAAAGGCTTTACAAATGATCTGCCACAA
Found at i:42883825 original size:99 final size:98
Alignment explanation
Indices: 42883695--42883949 Score: 357
Period size: 99 Copynumber: 2.6 Consensus size: 98
42883685 AGATGTCTTG
* *
42883695 CCAAAAAGGCTTCCTAGATGTCTTGCCACAAAGGCTTTACAAATGATCTGCCATAAAGCTTCCTA
1 CCAAAAAGGCTTCCTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
42883760 GATGACTCACCACAAAGGCTTTACAAATGATCCA
66 GATGACTCACCACAAAGGCTTTAC-AATGATCCA
* *
42883794 CCACAAAGGCTTCTTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
1 CCAAAAAGGCTTCCTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
** *
42883859 GATGACTCGTCACAAAGGCTTTACGATGATCCA
66 GATGACTCACCACAAAGGCTTTACAATGATCCA
* * * * * * * * *
42883892 TCAAAAAGGCTTCCCAAATGACTCGCTAGAAAAGCTTTACAGATTATCTGCCACAAAG
1 CCAAAAAGGCTTCCTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAAAG
42883950 GCTTTACAGA
Statistics
Matches: 138, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
98 55 0.40
99 83 0.60
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (98 bp):
CCAAAAAGGCTTCCTAGATGTCTTGCTACAAAGGCTTTACAAATGATCTGCCACAAAGCTTCCTA
GATGACTCACCACAAAGGCTTTACAATGATCCA
Found at i:42883955 original size:25 final size:25
Alignment explanation
Indices: 42883668--42884104 Score: 210
Period size: 25 Copynumber: 17.6 Consensus size: 25
42883658 CCGGATGACT
* *
42883668 TGCCACAGAGGC-TTCCAAGATG-TC
1 TGCCACAAAGGCTTTAC-AGATGATC
* *
42883692 TTGCCAAAAAGGC-TTCCTAGATG-TC
1 -TGCCACAAAGGCTTTAC-AGATGATC
*
42883717 TTGCCACAAAGGCTTTACAAATGATC
1 -TGCCACAAAGGCTTTACAGATGATC
* *
42883743 TGCCATAAA-GC-TTCCTAGATGA-C
1 TGCCACAAAGGCTTTAC-AGATGATC
* *
42883766 TCACCACAAAGGCTTTACAAATGATC
1 T-GCCACAAAGGCTTTACAGATGATC
** *
42883792 CACCACAAAGGCTTCT-TAGATG-TC
1 TGCCACAAAGGCTT-TACAGATGATC
* *
42883816 TTGCTACAAAGGCTTTACAAATGATC
1 -TGCCACAAAGGCTTTACAGATGATC
*
42883842 TGCCACAAA-GC-TTCCTAGATGA-C
1 TGCCACAAAGGCTTTAC-AGATGATC
*
42883865 TCGTCACAAAGGCTTTAC-GATGATC
1 T-GCCACAAAGGCTTTACAGATGATC
*** * ** *
42883890 CATCAAAAAGGCTTCCCAAATGA-C
1 TGCCACAAAGGCTTTACAGATGATC
* * * *
42883914 TCGCTAGAAAAGCTTTACAGATTATC
1 T-GCCACAAAGGCTTTACAGATGATC
* *
42883940 TGCCACAAAGGCTTTACAGATTATT
1 TGCCACAAAGGCTTTACAGATGATC
*
42883965 TGCCATAAAGGCTTCT-CAGATG-TC
1 TGCCACAAAGGCTT-TACAGATGATC
* * *
42883989 TTGCCATAAAGGCTTTACAGATAATT
1 -TGCCACAAAGGCTTTACAGATGATC
* ***
42884015 TGCCATAAAGGCTTCGTAGATGA-C
1 TGCCACAAAGGCTTTACAGATGATC
*
42884039 T-CACTACAAAGGCTTTATAGATGATC
1 TGC-C-ACAAAGGCTTTACAGATGATC
* * ** *
42884065 CGCCATAAAGGCTTCCCAGTTG-TC
1 TGCCACAAAGGCTTTACAGATGATC
42884089 ATGCCACAAAGGCTTT
1 -TGCCACAAAGGCTTT
42884105 CAAAATAATT
Statistics
Matches: 316, Mismatches: 68, Indels: 56
0.72 0.15 0.13
Matches are distributed among these distances:
23 11 0.03
24 54 0.17
25 229 0.72
26 21 0.07
27 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
TGCCACAAAGGCTTTACAGATGATC
Found at i:42884125 original size:100 final size:100
Alignment explanation
Indices: 42883944--42884128 Score: 246
Period size: 100 Copynumber: 1.9 Consensus size: 100
42883934 ATTATCTGCC
* ** * * * *
42883944 ACAAAGGCTTTACAGATTATTTGCCATAAAGGCTTCTCAGATGTCTTGCCATAAAGGCTTTACAG
1 ACAAAGGCTTTACAGATGATCCGCCATAAAGGCTTCCCAGATGTCATGCCACAAAGGCTTTACAA
** *
42884009 ATAATTTGCCATAAAGGCTTCGTAGATGACTCACT
66 ATAATTCACCACAAAGGCTTCGTAGATGACTCACT
* *
42884044 ACAAAGGCTTTATAGATGATCCGCCATAAAGGCTTCCCAGTTGTCATGCCACAAAGGCTTT-CAA
1 ACAAAGGCTTTACAGATGATCCGCCATAAAGGCTTCCCAGATGTCATGCCACAAAGGCTTTAC-A
42884108 AATAATTCACCACAAAGGCTT
65 AATAATTCACCACAAAGGCTT
42884129 GGTTTGGTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 71 0.99
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (100 bp):
ACAAAGGCTTTACAGATGATCCGCCATAAAGGCTTCCCAGATGTCATGCCACAAAGGCTTTACAA
ATAATTCACCACAAAGGCTTCGTAGATGACTCACT
Found at i:42886056 original size:43 final size:41
Alignment explanation
Indices: 42885918--42886071 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
42885908 TAAGTCTATG
* *
42885918 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
* * *
42885960 TGTAAGACTATATCTGAGATATGGCATCGATATAAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTCA
* *
42886002 TGTAA-AGCCATAACTGGGTTATTGGCATCGATATGAGATTACA
1 TGTAAGA-CCATATCTGGGATA-TGGCATCGATATGAGATT-CA
*
42886045 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
42886072 TGGTATGGTA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 59 0.63
43 33 0.35
44 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTCA
Found at i:42893513 original size:32 final size:31
Alignment explanation
Indices: 42893460--42893519 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
42893450 CCTACAAAGT
*
42893460 AAAAAAAGAAATTGAAAAAATAAAAATAAAC
1 AAAAAAAGAAATTAAAAAAATAAAAATAAAC
42893491 AAAAAATAG-AATTAAAAGAAATAAAAATA
1 AAAAAA-AGAAATTAAAA-AAATAAAAATA
42893520 TCATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.15
Consensus pattern (31 bp):
AAAAAAAGAAATTAAAAAAATAAAAATAAAC
Found at i:42898190 original size:21 final size:21
Alignment explanation
Indices: 42898166--42898214 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
42898156 GGTCGGCATA
42898166 TGATTTTTGACGATCGGAAGC
1 TGATTTTTGACGATCGGAAGC
42898187 TGATTTTTGACGATCGGAAGC
1 TGATTTTTGACGATCGGAAGC
*
42898208 TGCTTTT
1 TGATTTT
42898215 AGACTATCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (21 bp):
TGATTTTTGACGATCGGAAGC
Found at i:42901590 original size:42 final size:42
Alignment explanation
Indices: 42901542--42901650 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
42901532 AGTATTGGTC
* *
42901542 TCGGCACTAAGTGTGCAGGTATAAATGGACATGGGGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGGGACAAGA
* *
42901584 TTGGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGA
1 TCGGCACTAAGTGTGCGGGTATAAATGGACACGGGGACAAGA
*
42901626 TCGGCACTAAGTGTGCGGGTTTAAA
1 TCGGCACTAAGTGTGCGGGTATAAA
42901651 ATTTGTACAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (42 bp):
TCGGCACTAAGTGTGCGGGTATAAATGGACACGGGGACAAGA
Found at i:42901716 original size:27 final size:28
Alignment explanation
Indices: 42901659--42901728 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
42901649 AAATTTGTAC
**
42901659 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
42901687 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
42901714 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
42901729 GACTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:42912310 original size:71 final size:71
Alignment explanation
Indices: 42912224--42912387 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
42912214 CGATTTGTCT
42912224 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42912289 CTTTCA
66 CTTTCA
42912295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42912360 CTTTCA
66 CTTTCA
42912366 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
42912388 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:42912425 original size:71 final size:70
Alignment explanation
Indices: 42912224--42912421 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
42912214 CGATTTGTCT
* * * *
42912224 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42912289 CTTTCA
65 CTTTCA
* * * *
42912295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42912360 CTTTCA
65 CTTTCA
* *
42912366 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
42912422 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:42925108 original size:39 final size:40
Alignment explanation
Indices: 42924998--42925179 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
42924988 GCTACTCGTT
* * *
42924998 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
42925038 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
42925078 CCAATGCCTTC-GGACTTAGCTCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
42925117 CAAATGCCTTC-GGATCTTAGCCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
42925158 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
42925180 AGACATCATT
Statistics
Matches: 126, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 40 0.32
40 73 0.58
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:42925110 original size:79 final size:80
Alignment explanation
Indices: 42925026--42925177 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 80
42925016 AGCCCGGTTA
* * *
42925026 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
42925089 -GGACTTAGCTCGGAAT
64 GGGACTTAGCTCGGAAT
* *
42925105 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
42925170 GACTTAGC
66 GACTTAGC
42925178 CCAGACATCA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 3 0.05
79 49 0.75
80 13 0.20
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCTCGGAAT
Found at i:42929551 original size:7 final size:7
Alignment explanation
Indices: 42929539--42929563 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42929529 AATTTTGACT
42929539 AAAATAG
1 AAAATAG
42929546 AAAATAG
1 AAAATAG
42929553 AAAATAG
1 AAAATAG
42929560 AAAA
1 AAAA
42929564 AGGAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATAG
Found at i:42932280 original size:34 final size:35
Alignment explanation
Indices: 42932213--42932287 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
42932203 GATCTTGACC
42932213 CCTAAAGTGACCCTAGTCGGAAATCGGTTTCGGGA
1 CCTAAAGTGACCCTAGTCGGAAATCGGTTTCGGGA
42932248 CCTAAAGTGACCCTAGTCGGAAA-CGGTTTCGGGA
1 CCTAAAGTGACCCTAGTCGGAAATCGGTTTCGGGA
*
42932282 GCTAAA
1 CCTAAA
42932288 CCGAGTCACC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 16 0.41
35 23 0.59
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (35 bp):
CCTAAAGTGACCCTAGTCGGAAATCGGTTTCGGGA
Found at i:42934083 original size:79 final size:79
Alignment explanation
Indices: 42933946--42934132 Score: 331
Period size: 79 Copynumber: 2.4 Consensus size: 79
42933936 TATTCGGATG
* *
42933946 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
42934011 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
*
42934025 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAG-CCCGAAGGCA
42934089 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
42934104 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
42934133 AGCAAGTAGC
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
78 12 0.12
79 92 0.88
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:42934146 original size:79 final size:79
Alignment explanation
Indices: 42933946--42934165 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 79
42933936 TATTCGGATG
* *
42933946 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CT-ATACCGGGCTAAGTCCCGAAGGC
42934009 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
42934025 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATACCGGGCTAAGTCCCGAAGGCA
42934089 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * *
42934104 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATA-CCGGGCTAAGTCCCGAAGG
42934166 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
78 14 0.11
79 113 0.87
80 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATACCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:42934165 original size:39 final size:40
Alignment explanation
Indices: 42933946--42934132 Score: 317
Period size: 39 Copynumber: 4.7 Consensus size: 40
42933936 TATTCGGATG
* *
42933946 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42933986 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42934025 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42934065 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42934104 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
42934133 AGCAAGTAGC
Statistics
Matches: 139, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 74 0.53
40 65 0.47
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:42942163 original size:79 final size:79
Alignment explanation
Indices: 42942033--42942179 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 79
42942023 TATTCGGATG
* *
42942033 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCAT
42942097 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
*
42942111 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
42942175 ATTTG
64 ATTTG
42942180 AGCAAGTAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
78 17 0.27
79 32 0.51
80 14 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:42942193 original size:40 final size:40
Alignment explanation
Indices: 42942033--42942179 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
42942023 TATTCGGATG
* *
42942033 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
42942072 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42942111 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
42942151 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
42942180 AGCAAGTAGC
Statistics
Matches: 100, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 44 0.44
40 55 0.55
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:42942201 original size:79 final size:78
Alignment explanation
Indices: 42942033--42942211 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 78
42942023 TATTCGGATG
* *
42942033 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATT
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATT
* *
42942098 TGTGCGAGTTACT
66 TGAGCAAGTTACT
*
42942111 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
42942175 ATTTGAGCAAG-TAGCT
63 ATTTGAGCAAGTTA-CT
* * *
42942191 ATATCC-GGCTAAATTCGAAGG
1 ATAACCGGGCTAAGTCCGAAGG
42942212 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
78 23 0.26
79 41 0.46
80 25 0.28
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATT
TGAGCAAGTTACT
Found at i:42947966 original size:6 final size:6
Alignment explanation
Indices: 42947948--42948013 Score: 91
Period size: 6 Copynumber: 11.3 Consensus size: 6
42947938 AAATCTTAAG
* * *
42947948 AAAATA ACAATA AACATA AACATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
42947996 AAAAT- AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AA
42948014 TGGACTCAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:42950292 original size:13 final size:13
Alignment explanation
Indices: 42950274--42950299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42950264 CGTGTTGGGC
42950274 CACACACCCGTGT
1 CACACACCCGTGT
42950287 CACACACCCGTGT
1 CACACACCCGTGT
42950300 GGCTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
CACACACCCGTGT
Found at i:42952847 original size:24 final size:24
Alignment explanation
Indices: 42952815--42952877 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
42952805 AATCTCAATT
42952815 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
42952839 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
42952863 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
42952878 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:42960097 original size:14 final size:14
Alignment explanation
Indices: 42960078--42960107 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
42960068 TTATTTGCAA
42960078 TTTAAATTTTTTAT
1 TTTAAATTTTTTAT
42960092 TTTAAATTTTTTAT
1 TTTAAATTTTTTAT
42960106 TT
1 TT
42960108 GCAATTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTAAATTTTTTAT
Found at i:42960113 original size:14 final size:14
Alignment explanation
Indices: 42960077--42960114 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
42960067 TTTATTTGCA
42960077 ATTT-AAATTTTTT
1 ATTTGAAATTTTTT
*
42960090 ATTTTAAATTTTTT
1 ATTTGAAATTTTTT
*
42960104 ATTTGCAATTT
1 ATTTGAAATTT
42960115 AGTGTATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTTGAAATTTTTT
Found at i:42975846 original size:24 final size:24
Alignment explanation
Indices: 42975819--42975881 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
42975809 CTTATTATGT
42975819 TCGCACACATAGTGCCATAATAAA
1 TCGCACACATAGTGCCATAATAAA
*
42975843 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAATAAA
42975867 TCGCACACATAGTGC
1 TCGCACACATAGTGC
42975882 AATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAATAAA
Found at i:42990094 original size:66 final size:69
Alignment explanation
Indices: 42989964--42990094 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 69
42989954 GGGATGTATC
* * *
42989964 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
42990029 AAAGACA
63 AAAGACA
* * *
42990036 CCATGTAGACAAGAGAGCTAC-GA-GATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
42990095 TTCACCATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 23 0.43
67 7 0.13
68 2 0.04
72 21 0.40
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAA
GACA
Found at i:42995056 original size:27 final size:27
Alignment explanation
Indices: 42995019--42995131 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
42995009 AGCATGGCTG
* *
42995019 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
42995045 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
* *
42995072 CCAGAAACAGATATTCGTGGCAGAGCTA
1 CCAGATACAGATATT-GTGGCAGAGCCA
*
42995100 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
42995127 CCAGA
1 CCAGA
42995132 ACGCTTCCTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
26 5 0.06
27 54 0.70
28 18 0.23
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:42995110 original size:54 final size:55
Alignment explanation
Indices: 42995019--42995132 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 55
42995009 AGCATGGCTG
42995019 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGTCACCAGATACAGATATTTGTGGCAGAGCCA
* *
42995072 CCAGAAACAGATATTCGTGGCAGAG-CTACCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGAAACAGATATT-GTGACAGAGTC-ACCAGATACAGATATTTGTGGCAGAGCCA
42995127 CCAGAA
1 CCAGAA
42995133 CGCTTCCTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
53 4 0.07
54 17 0.31
55 34 0.62
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGTCACCAGATACAGATATTTGTGGCAGAGCCA
Found at i:42995293 original size:26 final size:26
Alignment explanation
Indices: 42995237--42995293 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
42995227 AAATTAACCC
*
42995237 TAGGGTATAATGGTAATTTTGCACCT
1 TAGGGTATAATGGTAATTTTGCAACT
*
42995263 AAGGGTATAATGGTAATTTT-CATACT
1 TAGGGTATAATGGTAATTTTGCA-ACT
42995289 TAGGG
1 TAGGG
42995294 GTATTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.37
Consensus pattern (26 bp):
TAGGGTATAATGGTAATTTTGCAACT
Found at i:42998531 original size:40 final size:39
Alignment explanation
Indices: 42998486--42998693 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
42998476 CGGAATACGA
*
42998486 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42998526 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
42998566 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
42998606 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * * *
42998646 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCA-CTGCACAAATGCCTTCGGGTCTTAGC
42998686 CCGGATAT
1 CCGGATAT
42998694 CATTCAATTG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:42998626 original size:80 final size:81
Alignment explanation
Indices: 42998486--42998691 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 81
42998476 CGGAATACGA
* *
42998486 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
42998549 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
42998566 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
42998628 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
42998646 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
42998692 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 101 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:43006577 original size:45 final size:45
Alignment explanation
Indices: 43006472--43006641 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 45
43006462 AGACGAGAGC
*
43006472 TAGTGTAAGACATGTCTGGGACAT-GCATCGGCCT-CGAGATGTAAG-
1 TAGTGTAAGACATGTCTAGGACATGGCATCGG-CTACGAGATGT--GT
* * *
43006517 CAGTGTAAGATATGTCTAGGACAT-GCATCAGCTACGAGATGTGT
1 TAGTGTAAGACATGTCTAGGACATGGCATCGGCTACGAGATGTGT
* ** *
43006561 TAGTGTAAGACCATGTCTGGGGTATGGCATCGGC-ACGTATAGAGGTGT
1 TAGTGTAAGA-CATGTCTAGGACATGGCATCGGCTACG---AGATGTGT
43006609 TAGTGTAAGACCATGTCTAGGACATGGCATCGG
1 TAGTGTAAGA-CATGTCTAGGACATGGCATCGG
43006642 TATGGATATC
Statistics
Matches: 104, Mismatches: 14, Indels: 11
0.81 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 11 0.11
45 48 0.46
46 7 0.07
48 37 0.36
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (45 bp):
TAGTGTAAGACATGTCTAGGACATGGCATCGGCTACGAGATGTGT
Found at i:43006777 original size:47 final size:47
Alignment explanation
Indices: 43006423--43006833 Score: 215
Period size: 47 Copynumber: 8.7 Consensus size: 47
43006413 ACTTTTACAA
* ** * * *
43006423 CCAGTATAAGACCATGTCCAGGACATGGCATTGGCATTGAGACGA-GAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATA-GATGAG
* * *
43006471 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCG--AGATGTAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATAGATG--AG
* * * *
43006517 -CAGTGTAAGA-TATGTCTAGGACAT-GCATC-AGC-T-ACGAGATGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGA-TAGATGAG
** ** * * *
43006560 TTAGTGTAAGACCATGTCTGGGGTATGGCATCGGCACGT-ATAGAGGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATAGATGAG
** * *
43006608 TTAGTGTAAGACCATGTCTAGGACATGGCATCGGTA-TGGATATCTGA-GAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATA---GATGAG
* * * * * * *
43006658 CTAGTGTAAGACCATGTTTGGGACATGGCGTTAGCCTCGATTTCA-AT-AA
1 CCAGTGTAAGACCATGTCTGGGACATGGC-ATCGACTTGA--T-AGATGAG
* * *
43006707 TCAGTGTAAGACCATGTTTGGGACATGGCATTGACTTGATAGATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAG
* *
43006754 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAG
*
43006801 CCAGTGTAAGACTATGTCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
43006834 GCATCATACC
Statistics
Matches: 288, Mismatches: 48, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.01
44 12 0.04
45 42 0.15
46 16 0.06
47 89 0.31
48 57 0.20
49 32 0.11
50 32 0.11
51 3 0.01
52 1 0.00
53 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATAGATGAG
Found at i:43010587 original size:42 final size:42
Alignment explanation
Indices: 43010541--43010662 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
43010531 TATCATACTA
* * **
43010541 ATGCCATATCCAAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
43010583 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
43010626 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
43010663 ACTAACCTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:43012687 original size:44 final size:44
Alignment explanation
Indices: 43012624--43012715 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
43012614 AATAAAATAA
*
43012624 ATTTCTATGACTTTGGAAATAATTTAATTGAGTCAATTTATTCG
1 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
43012668 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
1 ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
43012712 ATTT
1 ATTT
43012716 TGAATTAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (44 bp):
ATTTCTATGACTTTGGAAATAATTTAATTCAGTCAATTTATTCG
Found at i:43013365 original size:31 final size:30
Alignment explanation
Indices: 43013328--43013427 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
43013318 TATTAAATTC
43013328 AATTTAATATTTATCTAGATAATATTTTATT
1 AATTTAATATTTATCT-GATAATATTTTATT
* * * **
43013359 AATTTAATATTAATATGA-GATATTAAATTT
1 AATTTAATATTTATCTGATAATATTTTA-TT
*
43013389 AATTTAACATTTATCTTGATAATATTTTATT
1 AATTTAATATTTATC-TGATAATATTTTATT
43013420 AATTTAAT
1 AATTTAAT
43013428 GTTAATGTGA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 6 0.11
30 16 0.30
31 26 0.48
32 6 0.11
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (30 bp):
AATTTAATATTTATCTGATAATATTTTATT
Found at i:43013395 original size:61 final size:61
Alignment explanation
Indices: 43013317--43013433 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
43013307 AATGAATTTA
*
43013317 ATATTAAATTCAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAG
1 ATATTAAATTCAATTTAACATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAG
* * *
43013378 ATATTAAATTTAATTTAACATTTATCTTGATAATATTTTATTAATTTAATGTTAAT
1 ATATTAAATTCAATTTAACATTTATCTAGATAATATTTTATTAATTTAATATTAAT
43013434 GTGATTAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (61 bp):
ATATTAAATTCAATTTAACATTTATCTAGATAATATTTTATTAATTTAATATTAATATGAG
Found at i:43015743 original size:28 final size:30
Alignment explanation
Indices: 43015696--43015753 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
43015686 ATTTCAGCTG
* * *
43015696 TAAATTACGCTTTGGCAAATA-A-ATAAAT
1 TAAATAACGCTTTCGAAAATATATATAAAT
43015724 TAAATAACGCTTTCGAAAATATATATAAAT
1 TAAATAACGCTTTCGAAAATATATATAAAT
43015754 GAATATGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.72
29 1 0.04
30 6 0.24
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (30 bp):
TAAATAACGCTTTCGAAAATATATATAAAT
Found at i:43018764 original size:22 final size:22
Alignment explanation
Indices: 43018739--43018781 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43018729 TAAAATGATT
* *
43018739 TAAATGAAGTGTTAAGTGATAG
1 TAAATAAAGTGTGAAGTGATAG
*
43018761 TAAATAAAGTGTGGAGTGATA
1 TAAATAAAGTGTGAAGTGATA
43018782 TGATAGTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
TAAATAAAGTGTGAAGTGATAG
Found at i:43021099 original size:27 final size:27
Alignment explanation
Indices: 43021069--43021221 Score: 137
Period size: 27 Copynumber: 5.7 Consensus size: 27
43021059 AGTTTACCAG
43021069 ATTACCAAAATACCCCTGGTTTGTAAA
1 ATTACCAAAATACCCCTGGTTTGTAAA
** * *
43021096 ATTATTAAAATACCCTTGGTTTATAAA
1 ATTACCAAAATACCCCTGGTTTGTAAA
* * * *
43021123 ATCACTAAAATACCCTTGGTTTATAAA
1 ATTACCAAAATACCCCTGGTTTGTAAA
* *
43021150 ATCAACAAAATACCCCTGGTTTGTAAA
1 ATTACCAAAATACCCCTGGTTTGTAAA
* ** ** *
43021177 ATTAACGGAATACCCCT-GTAGGATAGA
1 ATTACCAAAATACCCCTGGTTTG-TAAA
*
43021204 ATTACCGAAATACCCCTG
1 ATTACCAAAATACCCCTG
43021222 TAGGGTAGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
26 3 0.03
27 103 0.97
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (27 bp):
ATTACCAAAATACCCCTGGTTTGTAAA
Found at i:43021222 original size:27 final size:27
Alignment explanation
Indices: 43021176--43021720 Score: 727
Period size: 27 Copynumber: 20.3 Consensus size: 27
43021166 TGGTTTGTAA
* * *
43021176 AATTAACGGAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43021203 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
43021230 AATTATTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43021257 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43021284 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43021311 AATTACCGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43021338 AATTACCGGAATACCCCTATAGGGAAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43021365 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43021392 AATTAACGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43021419 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43021446 AATTACCGAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43021473 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43021500 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43021527 AATTATC-ACAATTCCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
** *
43021554 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43021581 AATTACCAAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43021607 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43021634 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
43021661 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43021688 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
43021714 AATTACC
1 AATTACC
43021721 ATTTTGGCCC
Statistics
Matches: 458, Mismatches: 57, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
26 39 0.09
27 418 0.91
28 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:43022199 original size:22 final size:22
Alignment explanation
Indices: 43022147--43022211 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
43022137 TTAAAGCCTT
* *
43022147 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
43022169 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
43022191 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
43022212 ATGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:43022399 original size:27 final size:27
Alignment explanation
Indices: 43022369--43022471 Score: 109
Period size: 27 Copynumber: 3.8 Consensus size: 27
43022359 TATTCTGTTA
* *
43022369 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTATGCCACAATATCTGTTTCT
43022396 AGTGGCTATGCCACAAATATCTG-TTCT
1 AGTGGCTATGCCAC-AATATCTGTTTCT
* * *
43022423 GGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTATGCCACAATATCTGTTTCT
* * * *
43022450 GGTGACTCTGTCACAATATCTG
1 AGTGGCTATGCCACAATATCTG
43022472 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
AGTGGCTATGCCACAATATCTGTTTCT
Found at i:43022428 original size:54 final size:53
Alignment explanation
Indices: 43022370--43022471 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
43022360 ATTCTGTTAA
* * * *
43022370 GTGGCTTTGCCACATTATCTGTTTCTAGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* * *
43022424 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTG
43022472 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:43022641 original size:19 final size:19
Alignment explanation
Indices: 43022619--43022676 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
43022609 TTCTGATTTT
43022619 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
43022638 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
43022650 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
43022669 TGATTCTG
1 TGATTCTG
43022677 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:43022646 original size:6 final size:6
Alignment explanation
Indices: 43022608--43022727 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
43022598 TTGCATTCAC
* * *
43022608 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
43022658 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
43022708 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
43022728 AACGTTTCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:43022654 original size:31 final size:31
Alignment explanation
Indices: 43022608--43022718 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
43022598 TTGCATTCAC
*
43022608 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
43022640 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * **
43022671 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
43022702 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
43022719 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:43024723 original size:27 final size:27
Alignment explanation
Indices: 43024701--43024855 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
43024691 TTAGTTTACC
*
43024701 AAATTACCAAAATACCCCTAGTTGT-TA
1 AAATTACCAAAATACCCCTGGTT-TATA
** *
43024728 AAATTATTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
43024755 AAATCACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
43024782 AAATCAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* **
43024809 AAATTACCGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTGGT-TTATA
* *
43024836 GAATTACCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
43024856 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 105 0.97
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:43024856 original size:27 final size:27
Alignment explanation
Indices: 43024810--43025328 Score: 756
Period size: 27 Copynumber: 19.3 Consensus size: 27
43024800 TGGTTTGTAA
*
43024810 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43024837 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43024864 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43024891 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43024918 TATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43024945 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43024972 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43024999 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43025026 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43025053 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43025080 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43025107 AATTATCGCAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43025134 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43025161 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43025188 AATTACCGAAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43025215 AATTATCAC-AAA-ACCCCTGTAGGGTAG
1 AATTA-C-CGAAATACCCCTGTAGGGTAG
43025242 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
43025269 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43025296 AATTACCGAGATA-CCATGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
43025322 AATTACC
1 AATTACC
43025329 ATTTTGGCCC
Statistics
Matches: 444, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
25 1 0.00
26 20 0.05
27 418 0.94
28 4 0.01
29 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:43025807 original size:22 final size:22
Alignment explanation
Indices: 43025755--43025819 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
43025745 TTAAAGCCTT
* *
43025755 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
* *
43025777 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
43025799 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
43025820 ATGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:43026008 original size:27 final size:27
Alignment explanation
Indices: 43025978--43026079 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
43025968 ATTCTGTTAA
* *
43025978 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
43026005 GTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
43026032 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* ** *
43026059 GTGACTCCGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
43026080 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:43026249 original size:19 final size:19
Alignment explanation
Indices: 43026227--43026284 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
43026217 TTCTGATTTT
43026227 TGATTCTGTTACTTGATAC
1 TGATTCTGTTACTTGATAC
43026246 TGATTCTG--A-TT--T--
1 TGATTCTGTTACTTGATAC
*
43026258 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACTTGATAC
43026277 TGATTCTG
1 TGATTCTG
43026285 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 1 0.03
16 2 0.06
17 2 0.06
19 16 0.52
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACTTGATAC
Found at i:43026254 original size:6 final size:6
Alignment explanation
Indices: 43026216--43026335 Score: 86
Period size: 6 Copynumber: 19.3 Consensus size: 6
43026206 TTGCATTCAC
* * *
43026216 ATTCTG ATTTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
43026266 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
43026316 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
43026336 AACGTTTCTT
Statistics
Matches: 90, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
5 6 0.07
6 67 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:43026262 original size:31 final size:31
Alignment explanation
Indices: 43026216--43026326 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
43026206 TTGCATTCAC
* *
43026216 ATTCTGATTTTTGATTCTGTTACTTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
43026248 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
43026279 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
43026310 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
43026327 AGTTCTGATA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 67 0.91
32 7 0.09
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:43030884 original size:2 final size:2
Alignment explanation
Indices: 43030872--43030901 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43030862 CATGCATGCT
*
43030872 TA TA TA AA 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
43030902 AGCTTACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Done.