Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 88 of 206
Found at i:25394092 original size:101 final size:101
Alignment explanation
Indices: 25393908--25394092 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 101
25393898 ACCCGGTTGA
* * * *
25393908 CATAGTAGCCTACAAATAGTACTACACATGTGACCATTTTCATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACAAATAGTACTACACATGCGACCA-TATCATCCGATACACATAGGAGCCTACA
*
25393973 CATAGTACTACACGCGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * *
25394010 CATAGTAGCC-AGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGGAGCCTAC
1 CATAGTAGCCTA-CAAATAGTACTACACATGCGACCATATCA-TCCGATACACATAGGAGCCTAC
25394073 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
25394093 CCTAGCAACT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
100 4 0.06
101 37 0.51
102 31 0.43
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACAAATAGTACTACACATGCGACCATATCATCCGATACACATAGGAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:25395351 original size:17 final size:17
Alignment explanation
Indices: 25395329--25395373 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
25395319 AAAGTATCGA
25395329 AAAATTACAATCCATAT
1 AAAATTACAATCCATAT
*
25395346 AAAATTAAAATCCATAT
1 AAAATTACAATCCATAT
25395363 AAAATTACAAT
1 AAAATTACAAT
25395374 GCCACTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTACAATCCATAT
Found at i:25396869 original size:42 final size:42
Alignment explanation
Indices: 25396789--25396870 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
25396779 CGTTTTCTCT
* **
25396789 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
25396831 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
25396871 CACTCCAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:25401682 original size:131 final size:132
Alignment explanation
Indices: 25401441--25401701 Score: 391
Period size: 131 Copynumber: 2.0 Consensus size: 132
25401431 AAACCATAAG
* * * *
25401441 TCCTGTCTCCCTATGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGAAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTCCCAAGGAAGTA
* *
25401506 GGAAAACAGATTTAAGCCACTAGTACTATCTCCCTGAGCAACAGTGGAGTA-GTTGAAGATTGTA
66 GGAAAACAGATTTAAGCCACCAGTACTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAGATTGTA
25401570 GA
131 GA
* * *
25401572 TCCTATCTCCCTAAGCAGTAGTGGAGCAAATCTAAGACGACGAATCTTATCTTCTCAAGGTAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTCCCAAGGAAGTA
* * *
25401637 -GAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGT
66 GGA-AAACAGATTTAAGCCACCAGTACTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAGATTGT
25401701 A
130 A
25401702 AATCATGTCT
Statistics
Matches: 116, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
130 2 0.02
131 101 0.87
132 13 0.11
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGACGAATCTTATCTTCCCAAGGAAGTA
GGAAAACAGATTTAAGCCACCAGTACTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAGATTGTA
GA
Found at i:25403242 original size:15 final size:15
Alignment explanation
Indices: 25403219--25403253 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25403209 CGCCCTTCAA
25403219 TTTTATTTTATTTTC
1 TTTTATTTTATTTTC
* *
25403234 TTTTTTTTTATTTTG
1 TTTTATTTTATTTTC
25403249 TTTTA
1 TTTTA
25403254 AAACCATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTATTTTC
Found at i:25403446 original size:27 final size:25
Alignment explanation
Indices: 25403409--25403493 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 25
25403399 ATTAATATTG
25403409 TTTAAATTTATCGCATATTATTATTAT
1 TTTAAATTTAT--CATATTATTATTAT
*
25403436 TTTAAATTTATCATA-TATAATTAT
1 TTTAAATTTATCATATTATTATTAT
* *
25403460 TTTAAGTTT-TCAT-TCATTATTAT
1 TTTAAATTTATCATATTATTATTAT
*
25403483 TTCAAATTTAT
1 TTTAAATTTAT
25403494 TATGTATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 18 0.36
24 17 0.34
25 4 0.08
27 11 0.22
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTAAATTTATCATATTATTATTAT
Found at i:25403481 original size:23 final size:24
Alignment explanation
Indices: 25403409--25403504 Score: 97
Period size: 24 Copynumber: 3.9 Consensus size: 24
25403399 ATTAATATTG
25403409 TTTAAATTTATCGCATATTATTATTAT
1 TTTAAATTTAT--CATA-TATTATTAT
*
25403436 TTTAAATTTATCATATATAATTAT
1 TTTAAATTTATCATATATTATTAT
*
25403460 TTTAAGTTT-TCAT-TCATTATTAT
1 TTTAAATTTATCATAT-ATTATTAT
* * *
25403483 TTCAAATTTATTATGTATTATT
1 TTTAAATTTATCATATATTATT
25403505 TTATATATCT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 18 0.30
24 25 0.42
25 5 0.08
27 11 0.18
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTAAATTTATCATATATTATTAT
Found at i:25408269 original size:17 final size:17
Alignment explanation
Indices: 25408249--25408281 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25408239 TTTAACTGTC
25408249 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
25408266 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
25408282 TTTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:25415253 original size:23 final size:24
Alignment explanation
Indices: 25415211--25415257 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
25415201 CAGTGAAAGG
25415211 CATCAATTTATCACGCAGGATTTTAT
1 CATCAATTTATCA--CAGGATTTTAT
25415237 CATCAATTTATCA-AGGATTTT
1 CATCAATTTATCACAGGATTTT
25415258 TCCAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (24 bp):
CATCAATTTATCACAGGATTTTAT
Found at i:25420212 original size:14 final size:14
Alignment explanation
Indices: 25420193--25420237 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
25420183 GTTTAGGTAG
25420193 GAAGCAAGAAAAGA
1 GAAGCAAGAAAAGA
25420207 GAAGCAAGAAAAGA
1 GAAGCAAGAAAAGA
* *
25420221 GAAGTAGGAAAAGA
1 GAAGCAAGAAAAGA
25420235 GAA
1 GAA
25420238 TAAAGGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.62, C:0.04, G:0.31, T:0.02
Consensus pattern (14 bp):
GAAGCAAGAAAAGA
Found at i:25424058 original size:12 final size:12
Alignment explanation
Indices: 25424041--25424067 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25424031 TTATCAATTA
25424041 TAACATGATATT
1 TAACATGATATT
25424053 TAACATGATATT
1 TAACATGATATT
25424065 TAA
1 TAA
25424068 AATTTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
TAACATGATATT
Found at i:25425664 original size:50 final size:50
Alignment explanation
Indices: 25425547--25425791 Score: 257
Period size: 50 Copynumber: 4.9 Consensus size: 50
25425537 GATAATAACA
* * * ** * * ***
25425547 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCT-TTAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
25425596 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
25425646 TGGCC-ATGCCATGTCCCAGACATGGTCTTAC--GGGACACCTCTCATCA-CGG
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACATGGG--ACCTCTCAT-ATCGG
* *
25425696 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
25425746 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
25425792 ACCTCAATGA
Statistics
Matches: 166, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
48 3 0.02
49 39 0.23
50 117 0.70
51 4 0.02
52 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:25425807 original size:56 final size:49
Alignment explanation
Indices: 25425546--25425843 Score: 201
Period size: 50 Copynumber: 5.9 Consensus size: 49
25425536 TGATAATAAC
* * ** * **
25425546 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTC--CTTT
1 ATGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * ** * *
25425594 ATTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTG
1 A-TGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * *
25425645 GTGGCC-ATGCCATGTCCCAGACATGGTCTTAC--GGGACACCTCTCATCACG
1 AT-GCCAAAGCCATGT-CCAGACATGGTCTTACATGGG--ACCTCTCATCTCG
* *
25425695 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATCTCG
* *
25425745 GTGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATG
1 ATGCCAAAGCCATGTCC-AGACATGGTCTTACATGGGACCTCTCAT---CTC---G
* * *
25425801 ATGCCAAAGCCATGAACCAGACTTGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATG-TCCAGACATGGTCTTACATGGGACCTCT
25425844 TTACCAAAAA
Statistics
Matches: 207, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
48 4 0.02
49 40 0.19
50 114 0.55
51 5 0.02
52 3 0.01
53 3 0.01
56 36 0.17
57 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
ATGCCAAAGCCATGTCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:25431599 original size:50 final size:50
Alignment explanation
Indices: 25431532--25431778 Score: 287
Period size: 50 Copynumber: 4.8 Consensus size: 50
25431522 TTCCTTTACG
* * **
25431532 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * ** *
25431582 GCCCATGCCATGTCCCAGACAGGGTCTTACGGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* * * *
25431632 GCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTTTTATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
* *
25431682 GCCAATGCCATGTCCCAGACGTGGTCTTACATGGGACCTCTCATAACCTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGT
* *
25431738 GCCAATGCCATGTCCCAGAGATGGTCTTACATGGGATCTCT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25431779 TTAACGAAAT
Statistics
Matches: 166, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 124 0.75
53 2 0.01
56 40 0.24
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGT
Found at i:25438823 original size:50 final size:50
Alignment explanation
Indices: 25438744--25438930 Score: 236
Period size: 50 Copynumber: 3.7 Consensus size: 50
25438734 TTTCTTGTAC
* * * *
25438744 TGCCAATTCCATA-TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCA-AGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* *
25438794 TGTCC-ATGCCAAGTCCCAGACACGGTCTTACAGGGGACCTT-TCATCTCGG
1 TG-CCAATGCCAAGTCCCAGACATGGTCTTACATGGGA-CTTCTCATCTCGG
*
25438844 TGCCAATGCCAAGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCAAGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
* * *
25438894 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGA
1 TGCCAATGCCAAGTCCCAGACATGGTCTTACATGGGA
25438931 TCTCATTCCT
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
49 5 0.04
50 111 0.93
51 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCAAGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:25445566 original size:50 final size:50
Alignment explanation
Indices: 25445445--25445676 Score: 213
Period size: 50 Copynumber: 4.5 Consensus size: 50
25445435 ACATGTCAAA
* * *
25445445 GCCATGTCCCAGACATGGTCTTACATGGGATG-TTTCTTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CGGTGCCAAT
* * * * * *
25445494 GGCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAAT
* * *
25445544 GCCATGTCCCAAACATGGTCTTAC--GGGAGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAG--CTCTCATATCGGTGCCAAT
* *
25445594 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---GGTGCCAAT
25445650 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
25445677 AGATTTCATT
Statistics
Matches: 150, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
48 7 0.05
49 31 0.21
50 72 0.48
52 4 0.03
53 2 0.01
56 34 0.23
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAAT
Found at i:25449517 original size:19 final size:18
Alignment explanation
Indices: 25449476--25449521 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
25449466 TTTTTACTAT
* *
25449476 ATTTTTATTTTTTGGGTG
1 ATTTTTAATTTTTGCGTG
*
25449494 ATTTTTAATTTTTGCGTT
1 ATTTTTAATTTTTGCGTG
*
25449512 AGTTTTAATT
1 ATTTTTAATT
25449522 AGTTGGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.65
Consensus pattern (18 bp):
ATTTTTAATTTTTGCGTG
Found at i:25449925 original size:127 final size:127
Alignment explanation
Indices: 25449785--25450082 Score: 325
Period size: 127 Copynumber: 2.3 Consensus size: 127
25449775 TAGCGTTTAC
* * **
25449785 AGAAAAAAAACGCCGTTAAAGGTCATGTTCTTTAACGGCGC-TACAAAAAAAACGTTGCT-AAAG
1 AGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTA-AAAAAAAACGCCGCTAAAAG
* * * *
25449848 ATCATGTCCTTTAGCTGCGCTT-AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
65 -TAATGTCCTATAGCGGCGCTTGAAAAAAA-ACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
25449912 AGAAAAAATACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAACAAAAACGCCGCTAAAAGT
1 AGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTAAAAAAAAACGCCGCTAAAAGT
* ** *
25449977 AATGTTCTATAGCGGCGCTTGGCAAAAAACGCCACTACAGATCATGTTCTTTAGCGGCGCTT
66 AATGTCCTATAGCGGCGCTTGAAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT
** ** * * * *
25450039 TCACTACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGACGCTTA
1 AGAAAAAAAACGCCGCTAAAGA-TCATGTTCTTTAACGGCGCTTA
25450083 CTTCACAAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
126 1 0.01
127 132 0.92
128 11 0.08
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (127 bp):
AGAAAAAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTAAAAAAAAACGCCGCTAAAAGT
AATGTCCTATAGCGGCGCTTGAAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:25449946 original size:85 final size:83
Alignment explanation
Indices: 25449787--25450082 Score: 344
Period size: 85 Copynumber: 3.5 Consensus size: 83
25449777 GCGTTTACAG
* * * * * **
25449787 AAAAAAAACGCCGTTAAAGGTCATGTTCTTTAACGGCGC-TACAAAAAAAACGTTGCTAAAGATC
1 AAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATC
* *
25449851 ATGTCCTTTAGCTGCGCTT
65 ATGTTCTTTAGCGGCGCTT
*
25449870 AAAAAAAGACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAATACGCCGCTAAAGA
1 AAAAAAA-ACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTAGAAAAAA-ACGCCGCTAAAGA
25449934 TCATGTTCTTTAGCGGCGCTT
63 TCATGTTCTTTAGCGGCGCTT
* * * * *
25449955 AAACAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGCAAAAAACGCCACTACAGATC
1 AAA-AAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATC
25450020 ATGTTCTTTAGCGGCGCTTT
65 ATGTTCTTTAGCGGCGC-TT
** * *
25450040 CACTACAAACGCCGCTAAAAGTAATGTTCTTTAGCGACGCTTA
1 -AAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA
25450083 CTTCACAAAC
Statistics
Matches: 185, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
83 10 0.05
84 61 0.33
85 105 0.57
86 9 0.05
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (83 bp):
AAAAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGGCGCTT
Found at i:25450091 original size:43 final size:42
Alignment explanation
Indices: 25449788--25450124 Score: 319
Period size: 42 Copynumber: 8.0 Consensus size: 42
25449778 CGTTTACAGA
* * *
25449788 AAAAAAACGCCGTTAAAGGTCATGTTCTTTAACGGCGC-TAC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
** * *
25449829 AAAAAAAACGTTGCTAAAGATCATGTCCTTTAGCTGCGCTTA-
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
*
25449871 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
25449914 AAAAAATACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
* * *
25449956 AACAAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTTGGC
1 AA-AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTT-AC
* * *
25450000 -AAAAAACGCCACTACAGATCATGTTCTTTAGCGGCGCTTTC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
* * * *
25450041 ACTACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGACGCTTAC
1 A-AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAC
** * * * *
25450084 TTCACAAACGCCGCTATAGAACATGAAT-TTTAGCGGCGCTT
1 -AAAAAAACGCCGCTAAAGATCATG-TTCTTTAGCGGCGCTT
25450125 TTATAAAAAA
Statistics
Matches: 247, Mismatches: 34, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
41 8 0.03
42 127 0.51
43 110 0.45
44 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAC
Found at i:25450557 original size:21 final size:21
Alignment explanation
Indices: 25450529--25450618 Score: 99
Period size: 21 Copynumber: 4.3 Consensus size: 21
25450519 GCTTTTCTCG
*
25450529 CTGCTTCTCTCGTTGCAGCCT
1 CTGCTTCCCTCGTTGCAGCCT
* * * *
25450550 CTGTTTCTCTCATTGTAGCCT
1 CTGCTTCCCTCGTTGCAGCCT
* *
25450571 CTGCTTCCCTAGCTGCAGCCT
1 CTGCTTCCCTCGTTGCAGCCT
* *
25450592 CTGCTTCCCTCGATGCCGCCT
1 CTGCTTCCCTCGTTGCAGCCT
25450613 CTGCTT
1 CTGCTT
25450619 TAAGTTGTAG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.07, C:0.39, G:0.18, T:0.37
Consensus pattern (21 bp):
CTGCTTCCCTCGTTGCAGCCT
Found at i:25455177 original size:25 final size:25
Alignment explanation
Indices: 25455146--25455499 Score: 168
Period size: 25 Copynumber: 13.6 Consensus size: 25
25455136 TGATATATAA
*
25455146 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
25455171 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
25455197 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
25455222 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
** * *
25455247 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-GTATTAA-GTAAGTTATGTAAG
* *
25455274 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTAAGTAAGTTATGTAAG
*
25455300 TTATGTAAGTTATGTAAGTTAAATGT-A-
1 TTATGT-A-TTAAGTAAGTT--ATGTAAG
* *
25455327 TTATGTAGGTTATGTAAGTTGTGTAAG
1 TTATGTA--TTAAGTAAGTTATGTAAG
* * * *
25455354 ATATTTAAGTTATGTAAGTTTTGT-A-
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
25455379 TTATGTAAGTTATGTAAGTAATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
25455406 TTAAATGTATTATGTAGGTTATGCAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
* **
25455433 -TAGTGTAAGATATTTAAGTTATGTAAG
1 TTA-TGT-A-TTAAGTAAGTTATGTAAG
* * *
25455460 TTTTGTATTATGTAAGTTATGTATG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
25455485 CTATGTATTATGTAA
1 TTATGTATTAAGTAA
25455500 TTTGTTATGT
Statistics
Matches: 262, Mismatches: 39, Indels: 56
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.01
24 7 0.03
25 105 0.40
26 39 0.15
27 88 0.34
28 8 0.03
29 13 0.05
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:25455196 original size:9 final size:9
Alignment explanation
Indices: 25455157--25455531 Score: 270
Period size: 9 Copynumber: 42.8 Consensus size: 9
25455147 TATGTATTAA
*
25455157 GTAAATTAT
1 GTAAGTTAT
25455166 GTAAGTTAT
1 GTAAGTTAT
*
25455175 GTACGTGTA-
1 GTAAGT-TAT
25455184 -TAAGTTAT
1 GTAAGTTAT
25455192 GTAAGTTAT
1 GTAAGTTAT
*
25455201 GT-A-TTAA
1 GTAAGTTAT
*
25455208 GTAAGCTAT
1 GTAAGTTAT
*
25455217 GTAAGTTGT
1 GTAAGTTAT
25455226 GT-A-TTAT
1 GTAAGTTAT
25455233 GTAAGTTAT
1 GTAAGTTAT
25455242 GTAAGTTAT
1 GTAAGTTAT
** *
25455251 CAAAGTAAT
1 GTAAGTTAT
*
25455260 GTATGTTAT
1 GTAAGTTAT
25455269 GTAAG-T-T
1 GTAAGTTAT
25455276 GTAAGTTAT
1 GTAAGTTAT
*
25455285 -TATGTATTAT
1 GTAAG--TTAT
25455295 GTAAGTTAT
1 GTAAGTTAT
25455304 GTAAGTTAT
1 GTAAGTTAT
25455313 GTAAGTTAAAT
1 GTAAGTT--AT
25455324 GT-A-TTAT
1 GTAAGTTAT
*
25455331 GTAGGTTAT
1 GTAAGTTAT
*
25455340 GTAAGTTGT
1 GTAAGTTAT
*
25455349 GTAAGATAT
1 GTAAGTTAT
*
25455358 TTAAGTTAT
1 GTAAGTTAT
*
25455367 GTAAGTTTT
1 GTAAGTTAT
25455376 GT-A-TTAT
1 GTAAGTTAT
25455383 GTAAGTTAT
1 GTAAGTTAT
*
25455392 GTAAGTAAT
1 GTAAGTTAT
25455401 GTAAGTTAAAT
1 GTAAGTT--AT
25455412 GT-A-TTAT
1 GTAAGTTAT
*
25455419 GTAGGTTAT
1 GTAAGTTAT
*
25455428 GCAAG-TAGT
1 GTAAGTTA-T
*
25455437 GTAAGATAT
1 GTAAGTTAT
*
25455446 TTAAGTTAT
1 GTAAGTTAT
*
25455455 GTAAGTTTT
1 GTAAGTTAT
25455464 GT-A-TTAT
1 GTAAGTTAT
25455471 GTAAGTTAT
1 GTAAGTTAT
* *
25455480 GTATGCTAT
1 GTAAGTTAT
25455489 GT-A-TTAT
1 GTAAGTTAT
25455496 GTAATTTGTTAT
1 GTAA---GTTAT
* *
25455508 GTTA-TTAC
1 GTAAGTTAT
25455516 GTAAGTTAT
1 GTAAGTTAT
*
25455525 GCAAGTT
1 GTAAGTT
25455532 TATATATAAG
Statistics
Matches: 285, Mismatches: 49, Indels: 64
0.72 0.12 0.16
Matches are distributed among these distances:
7 41 0.14
8 26 0.09
9 190 0.67
10 10 0.04
11 11 0.04
12 7 0.02
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:25455392 original size:88 final size:88
Alignment explanation
Indices: 25455148--25455491 Score: 378
Period size: 88 Copynumber: 3.9 Consensus size: 88
25455138 ATATATAATT
* * * * * * * *
25455148 ATGTATTAAGTAAATTATGTAAGTTATGTACG-TGTATAAGTTATGTAAGTTATGTATTAAGTAA
1 ATGTATTATGTAAGTTATGTAAGTAATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
* *
25455212 GCTATGTAAGTTGTGT-A-TT--
66 GTTATGTAAGTTATGTAAGTTAA
** * * *
25455231 ATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG-T-TGTAAGTTATTATGTATTA
1 ATGT-A-TTATGTAAGTTATGTAAGTAATGTAAGATATTTAAGTTATGTAAG-T-TT-TGTATTA
25455294 TGTAAGTTATGTAAGTTATGTAAGTTAA
61 TGTAAGTTATGTAAGTTATGTAAGTTAA
* **
25455322 ATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
1 ATGTATTATGTAAGTTATGTAAGTAATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
*
25455387 GTTATGTAAGTAATGTAAGTTAA
66 GTTATGTAAGTTATGTAAGTTAA
* * *
25455410 ATGTATTATGTAGGTTATGCAAGTAGTGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
1 ATGTATTATGTAAGTTATGTAAGTAATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
* *
25455475 GTTATGTATGCTATGTA
66 GTTATGTAAGTTATGTA
25455492 TTATGTAATT
Statistics
Matches: 223, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
83 4 0.02
84 7 0.03
85 23 0.10
86 7 0.03
87 25 0.11
88 112 0.50
89 32 0.14
90 3 0.01
91 10 0.04
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.44
Consensus pattern (88 bp):
ATGTATTATGTAAGTTATGTAAGTAATGTAAGATATTTAAGTTATGTAAGTTTTGTATTATGTAA
GTTATGTAAGTTATGTAAGTTAA
Found at i:25457274 original size:6 final size:6
Alignment explanation
Indices: 25457263--25457300 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
25457253 AGCAGAGAGC
* *
25457263 GACGGT GACGGT GACGGT GACAGT GACAGT GACGGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GACGGT GA
25457301 TGCAGTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.16
Consensus pattern (6 bp):
GACGGT
Found at i:25458650 original size:7 final size:7
Alignment explanation
Indices: 25458638--25458687 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
25458628 GACAAAGCGG
25458638 CCTAAAC
1 CCTAAAC
*
25458645 CCTAAAT
1 CCTAAAC
*
25458652 CCTAAAT
1 CCTAAAC
*
25458659 CTTAAAC
1 CCTAAAC
25458666 CCTAAAC
1 CCTAAAC
*
25458673 TTCTAAAC
1 -CCTAAAC
25458681 CCTAAAC
1 CCTAAAC
25458688 TCAAAACACC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:25458749 original size:35 final size:35
Alignment explanation
Indices: 25458676--25458755 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
25458666 CCTAAACTTC
**
25458676 TAAACCCTAAACTCAAAACACCAAAACCTACATCA
1 TAAACCCTAAACTCAAAACACCAAAACCTACAAAA
* * * **
25458711 TAAACCCTAAACTCAAAACTCTAATATTTACAAAA
1 TAAACCCTAAACTCAAAACACCAAAACCTACAAAA
25458746 TAAA-CCTAAA
1 TAAACCCTAAA
25458756 ACCCTAAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 6 0.16
35 32 0.84
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (35 bp):
TAAACCCTAAACTCAAAACACCAAAACCTACAAAA
Found at i:25458962 original size:16 final size:17
Alignment explanation
Indices: 25458943--25458977 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25458933 CAAATATGAC
25458943 AAACTA-AATATATAAT
1 AAACTACAATATATAAT
*
25458959 AAACTACATTATATAAT
1 AAACTACAATATATAAT
25458976 AA
1 AA
25458978 CCTAGCGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (17 bp):
AAACTACAATATATAAT
Found at i:25459245 original size:114 final size:114
Alignment explanation
Indices: 25458997--25459787 Score: 895
Period size: 114 Copynumber: 6.9 Consensus size: 114
25458987 GCTTCCCAAA
* * * * * * * * * *
25458997 ACGCGCCGCTAATAATATGTTTTCGTGGTGTTTTCCCGTAAGCGCCACTACTGCTAGTATACATC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * * * *
25459062 AAGACCAAATCGCTGCGTTTTTGTTAATATATTTTGCGGCGCTTTCCACC
66 AAGACCAAA-CTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
* * *
25459112 AAGCACCGCTAATACTATGCATTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * *
25459177 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTGATG
66 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
* * * * * **
25459226 ACGCGCCGCTAATATTATGCATTAACGACATTTTCGAATAAGCGCCACTAATTCTAATATACCTC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* *
25459291 AAGACCAAACTCTGCGTTTTGGTTAAGATATGTTGCGGCGCTTTTTACG
66 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
*
25459340 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * * * *
25459405 AAGACCAAACTTTGCGTTTTGGTTAAGATATGTTGCAGCGCTTTTTACA
66 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
* * ** * **
25459454 ACACGCCACTAATACTAAACGTTAGATGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * * *
25459519 AAGACCAAAATCTGCATTTTGGTTAATATATTTTGCGGCGCTTTTCACA
66 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
** ** * * *
25459568 AATCGCCGCTAATACT-TGCTTTAGCGGCGTTTTTTCATATGCGCCACTAATTCTAATATACATA
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * * **
25459632 AAGACCAAACTCTGCATTTTGGTTAAGATATGTTGCGGCGCGTTTGGCG
66 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
* * * * * * * *
25459681 A-TCGCTGCTAATACT-TTCTTTGGCGGCGTTTTCCTATAATCGCCACTAATTCTAGTATACATC
1 ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
* * * * *
25459744 TAGACCAAAACGCTGTGTTTTGGTTAAGAGATTTTGCAGCGCTT
66 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
25459788 GATAGTAAAC
Statistics
Matches: 580, Mismatches: 95, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
112 57 0.10
113 111 0.19
114 351 0.61
115 61 0.11
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (114 bp):
ACGCGCCGCTAATACTATGCTTTAGCGGCGTTTTCCCATAAGCGCCACTAATTCTAATATACCTC
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTCACG
Found at i:25461473 original size:15 final size:15
Alignment explanation
Indices: 25461453--25461483 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25461443 AAAACAACAT
*
25461453 AACTCTTGGCCTTTC
1 AACTCTTGACCTTTC
25461468 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
25461483 A
1 A
25461484 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:25465777 original size:15 final size:15
Alignment explanation
Indices: 25465754--25465784 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25465744 AAAACAACAT
25465754 AACTATTGACCTTTC
1 AACTATTGACCTTTC
*
25465769 AACTCTTGACCTTTC
1 AACTATTGACCTTTC
25465784 A
1 A
25465785 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTATTGACCTTTC
Found at i:25466657 original size:14 final size:14
Alignment explanation
Indices: 25466638--25466678 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25466628 TTCCTGATTG
25466638 GTTTATTTTTTTTT
1 GTTTATTTTTTTTT
*
25466652 GTTTATTTGTTTTT
1 GTTTATTTTTTTTT
*
25466666 ATTTATTTCTTTT
1 GTTTATTT-TTTT
25466679 CATTGTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.80
Consensus pattern (14 bp):
GTTTATTTTTTTTT
Found at i:25466696 original size:31 final size:28
Alignment explanation
Indices: 25466639--25466698 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 28
25466629 TCCTGATTGG
*
25466639 TTTATTTTTTTTTGTTTATTTGTTTTTA
1 TTTATTTTTTTTTGTTTATTTATTTTTA
*
25466667 TTTATTTCTTTTCATTGTTTGTTTATTTTTA
1 TTTATTT-TTTT--TTGTTTATTTATTTTTA
25466698 T
1 T
25466699 CTTTTCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 7 0.26
29 4 0.15
31 16 0.59
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (28 bp):
TTTATTTTTTTTTGTTTATTTATTTTTA
Found at i:25471394 original size:18 final size:18
Alignment explanation
Indices: 25471371--25471406 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25471361 TGGAAGCTGC
25471371 TTTTAGACTATCCCGAAT
1 TTTTAGACTATCCCGAAT
25471389 TTTTAGACTATCCCGAAT
1 TTTTAGACTATCCCGAAT
25471407 CAGCCTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TTTTAGACTATCCCGAAT
Found at i:25476780 original size:50 final size:50
Alignment explanation
Indices: 25476663--25476898 Score: 373
Period size: 50 Copynumber: 4.7 Consensus size: 50
25476653 ACATGTCAAA
** * * * *
25476663 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
* * **
25476714 GCCATGTTCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
25476764 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
25476814 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
25476864 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25476899 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 145 0.85
51 26 0.15
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:25479886 original size:16 final size:16
Alignment explanation
Indices: 25479865--25479896 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25479855 GTTTTGTCGC
*
25479865 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25479881 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25479897 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25480185 original size:51 final size:51
Alignment explanation
Indices: 25480125--25480315 Score: 221
Period size: 51 Copynumber: 3.8 Consensus size: 51
25480115 CCAGTTCACA
*
25480125 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * * *
25480176 TCGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACG
* * *
25480227 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T-CTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGA-TACACG
*
25480277 TAGTAGCCTGCACATAGTACCACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
25480316 TTCACTTTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
49 5 0.04
50 38 0.33
51 70 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:25480302 original size:101 final size:102
Alignment explanation
Indices: 25480123--25480307 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
25480113 TACCAGTTCA
* * *
25480123 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTCGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
*
25480188 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACCACACACGTGATCGAAGCTATCCGGTACG
25480225 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTAGCCTG
25480287 CACATAGTACCACACACGTGA
64 CACATAGTACCACACACGTGA
25480308 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
101 37 0.48
102 36 0.47
103 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTGCA
CATAGTACCACACACGTGATCGAAGCTATCCGGTACG
Found at i:25480331 original size:101 final size:102
Alignment explanation
Indices: 25480118--25480307 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 102
25480108 AATGATACCA
* * *
25480118 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTCGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
* *
25480183 CTGCACATAGTACTACACACGTGATCGAAGCTATCCG
66 CTGCACATAGTACCACACACGTGATCCAAGCTATCCG
* *
25480220 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACGTAGTA
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTA
25480282 GCCTGCACATAGTACCACACACGTGA
64 GCCTGCACATAGTACCACACACGTGA
25480308 CCATCACTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
101 37 0.46
102 39 0.49
103 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
CTGCACATAGTACCACACACGTGATCCAAGCTATCCG
Found at i:25481988 original size:24 final size:23
Alignment explanation
Indices: 25481921--25481988 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 23
25481911 AAGCTGCTCT
25481921 TTGTGGTCAAACCACTCAAATATGA
1 TTGTGG-CAAACCACTC-AATATGA
25481946 -TGTGGCAAAGCCACTCAATA-GCA
1 TTGTGGCAAA-CCACTCAATATG-A
25481969 TTGTGGACAAACCACTCAAT
1 TTGTGG-CAAACCACTCAAT
25481989 TTTTTCAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.03
23 9 0.23
24 25 0.64
25 4 0.10
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (23 bp):
TTGTGGCAAACCACTCAATATGA
Found at i:25484324 original size:27 final size:28
Alignment explanation
Indices: 25484288--25484341 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
25484278 TTGAAATTCA
*
25484288 CACTTTAATTA-TAAAATAATTAATTTG
1 CACTTCAATTATTAAAATAATTAATTTG
* *
25484315 CACTTCAATTATTAACATATTTAATTT
1 CACTTCAATTATTAAAATAATTAATTT
25484342 TAATTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (28 bp):
CACTTCAATTATTAAAATAATTAATTTG
Found at i:25490234 original size:28 final size:28
Alignment explanation
Indices: 25490195--25490313 Score: 150
Period size: 28 Copynumber: 4.3 Consensus size: 28
25490185 CTATTCAGTA
**
25490195 ACAGT-ACAGTGTGGGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
**
25490222 ACAGTAACAGTGTGGTTCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * * * *
25490250 ATAGTAATAGTGTAGGACTTAGCCAAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
25490278 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
25490306 ACAGTAAC
1 ACAGTAAC
25490314 CAGTACAGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 5 0.07
28 71 0.93
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:25490447 original size:26 final size:26
Alignment explanation
Indices: 25490418--25490472 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
25490408 AACACACCAA
* *
25490418 TATCGCAGCAAAGCTTCCAATAATAG
1 TATCGCAGCAAAGCTGCCAATAACAG
* *
25490444 TATCGCAGCGAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAATAACAG
25490470 TAT
1 TAT
25490473 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAACAG
Found at i:25490587 original size:22 final size:22
Alignment explanation
Indices: 25490562--25490612 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
25490552 TATGTGTATG
25490562 TCTCATGGCTAACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
** *
25490584 TCTCATGTTTCACGTACTAAGC
1 TCTCATGGCTAACGTACTAAGC
25490606 TCTCATG
1 TCTCATG
25490613 TTTGAACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (22 bp):
TCTCATGGCTAACGTACTAAGC
Found at i:25490613 original size:22 final size:22
Alignment explanation
Indices: 25490573--25490615 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25490563 CTCATGGCTA
25490573 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
25490595 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
25490616 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:25490690 original size:27 final size:27
Alignment explanation
Indices: 25490660--25491062 Score: 405
Period size: 27 Copynumber: 15.0 Consensus size: 27
25490650 GGTATAACAA
25490660 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* ** *
25490687 TCATTCTA-CCTATAAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
25490713 TTATTTTACCTTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
25490740 TCATTTTACCCTACAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
25490767 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *** *
25490794 CCATTTTACCCTACAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * **
25490821 TCATTTTACCTTACGGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25490848 TCATTTTATCCTATGGGGCTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25490875 TCAGTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25490902 TCATTTTACTCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
25490929 CCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
** * *
25490956 TCATTTTACCCTATAAGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
25490983 TTATTTTACCCTATAGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*** *
25491010 TCATTTTACCCTACAAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
25491037 TCATTTTACCTTAT-GGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
25491063 GGTCTCGGTG
Statistics
Matches: 303, Mismatches: 72, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
26 31 0.10
27 272 0.90
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:25490785 original size:54 final size:54
Alignment explanation
Indices: 25490660--25491062 Score: 452
Period size: 54 Copynumber: 7.5 Consensus size: 54
25490650 GGTATAACAA
* * *
25490660 TCATTTTACCCTATGGGGGTATTTCGGTCATTCTA-CCTATAAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
* * * * * *
25490713 TTATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACAGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
* * *
25490767 TCATTTTACCCTATGGGGGTATTTTGGCCATTTTACCCTACAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
* * ** * ** *
25490821 TCATTTTACCTTACGGGGGTATTTTAGTCATTTTATCCTA-TGGGGCTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGG-TATTTCGG
* * * ** *
25490875 TCAGTTTACCCTATGAGGGTATTTCGGTCATTTTACTCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
* * * * *
25490929 CCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
* * * *
25490983 TTATTTTACCCTATAGAGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
*
25491037 TCATTTTACCTTAT-GGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
25491063 GGTCTCGGTG
Statistics
Matches: 292, Mismatches: 55, Indels: 6
0.83 0.16 0.02
Matches are distributed among these distances:
53 44 0.15
54 244 0.84
55 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTACAAGGGTATTTCGG
Found at i:25494134 original size:21 final size:21
Alignment explanation
Indices: 25494109--25494186 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
25494099 ATCTTCAAGG
25494109 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
25494130 ATATGCAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
25494149 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
25494173 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
25494187 GATTTAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
19 12 0.25
20 3 0.06
21 18 0.38
22 6 0.12
23 9 0.19
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:25494170 original size:17 final size:19
Alignment explanation
Indices: 25494108--25494163 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
25494098 AATCTTCAAG
*
25494108 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
25494127 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
25494148 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
25494164 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
21 18 0.53
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:25495052 original size:14 final size:15
Alignment explanation
Indices: 25495026--25495058 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25495016 TCCCAAGCTG
25495026 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
25495041 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
25495055 GGAA
1 GGAA
25495059 AAGCATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:25495337 original size:42 final size:42
Alignment explanation
Indices: 25495257--25495337 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
25495247 CCTGAAAAGG
* *
25495257 GCAGCTCAAATATCGATCAGAATGGGGCATAAGGTGATCAGA
1 GCAGCTCAAATATAGATCAGAATGGGGCATAAGATGATCAGA
* * * *
25495299 GCAGTTCAAATTTAGATCAGATTGGGGCATATGATGATC
1 GCAGCTCAAATATAGATCAGAATGGGGCATAAGATGATC
25495338 TTGAATCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (42 bp):
GCAGCTCAAATATAGATCAGAATGGGGCATAAGATGATCAGA
Found at i:25496539 original size:44 final size:44
Alignment explanation
Indices: 25496403--25496546 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
25496393 GATAATAGAT
*
25496403 CTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAAC
** * ** * * * *
25496447 CTTGCCTCCCTG-AGTTG-TAGCGAAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCA-CCGATAGCGAAGCAGATCGAAGACACCA-AC
* * *
25496491 CTTGCCTTCCTGCACCGACAGCGAAGAAGATCGAAGACACCAAC
1 CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAAC
25496535 CTTGCCTCCCTG
1 CTTGCCTCCCTG
25496547 GGTTGCAGCG
Statistics
Matches: 73, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 19 0.26
44 37 0.51
45 17 0.23
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (44 bp):
CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAAC
Found at i:25496564 original size:88 final size:88
Alignment explanation
Indices: 25496399--25497434 Score: 1207
Period size: 88 Copynumber: 11.8 Consensus size: 88
25496389 TGAAGATAAT
* * * *
25496399 AGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
25496464 TAGCGAAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
25496487 AGATCTTGCCTTCCTGCACCGACAGCGAAGAAGATCGAAGACACCAACCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
25496552 CAGCGGAACAGGTTGAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
** ** * *
25496575 AGATCTTGCCTTCCTATACTAACAATGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
25496640 CAGCGGAGCACGTTAAAAATTGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * * *
25496663 AGATCTTACCTTCCTGTACCGGCAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
** *
25496728 CAGTAGAGCAGGTTGAAAATTA-C
66 CAGCGGAGCAGGTT-AAAAATAGC
** * * * * * * *
25496751 AGATCTTATCTCCCTAAGCA--G-TAGTGGAGTAGATTGAAGACACTAGCCTTGCCTCCCTCGGT
1 AGATCTTGCCTTCCT--GCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGT
* * *
25496813 AGCAGCGGAGCAGGTTAAAGATAAC
64 TGCAGCGGAGCAGGTTAAAAATAGC
* * * * ** * *
25496838 AGATATTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACTTGCCTTGCCTCCCTCGGTGG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * *
25496903 CAGCGAAGCAGGTTAAAGATAAC
66 CAGCGGAGCAGGTTAAAAATAGC
* * * * * * * ** *
25496926 AGATATTGCCTTCTTGTACTGACAATGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCAGTGG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
25496991 CAGCGGAGCAGCTTAAAGATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * ** * * * *
25497014 ATATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTCGGTGG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
25497079 CAGCGGAGCAGGTTAAAGATAGT
66 CAGCGGAGCAGGTTAAAAATAGC
** * * * * *
25497102 AGATCTTGCCTTCCTATACTGACAGTGAAGCAAATTGAAGACACTAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
25497167 CAGCGGAGCAGGTTAAAAATAGT
66 CAGCGGAGCAGGTTAAAAATAGC
* *
25497190 AGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
25497255 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
*
25497278 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCATGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
25497343 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* *** * * * *
25497366 AGATCTTGCCTTCCTGCACCGATAACAAAGCAGATTGAAGACACAAGTCTTGCCTCCCTGAGTTG
1 AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
25497431 CAGC
66 CAGC
25497435 AGATCAAGTT
Statistics
Matches: 838, Mismatches: 103, Indels: 14
0.88 0.11 0.01
Matches are distributed among these distances:
85 2 0.00
86 5 0.01
87 60 0.07
88 764 0.91
89 5 0.01
90 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
CAGCGGAGCAGGTTAAAAATAGC
Found at i:25496848 original size:44 final size:44
Alignment explanation
Indices: 25496799--25496936 Score: 122
Period size: 44 Copynumber: 3.1 Consensus size: 44
25496789 GACACTAGCC
*
25496799 TTGCCTCCCTCGGTAGCAGCGGAGCAGGTTAAAGATAACAGATA
1 TTGCCTCCCTCGGTAGCAGCGAAGCAGGTTAAAGATAACAGATA
* * * * * * **
25496843 TTGCCTTCCT--GTACTGACAGTGAAGCAGATTGAAGA-CACTTG-CC
1 TTGCCTCCCTCGGTA--G-CAGCGAAGCAGGTTAAAGATAAC-AGATA
*
25496887 TTGCCTCCCTCGGTGGCAGCGAAGCAGGTTAAAGATAACAGATA
1 TTGCCTCCCTCGGTAGCAGCGAAGCAGGTTAAAGATAACAGATA
25496931 TTGCCT
1 TTGCCT
25496937 TCTTGTACTG
Statistics
Matches: 68, Mismatches: 18, Indels: 16
0.67 0.18 0.16
Matches are distributed among these distances:
42 3 0.04
43 17 0.25
44 30 0.44
45 16 0.24
46 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (44 bp):
TTGCCTCCCTCGGTAGCAGCGAAGCAGGTTAAAGATAACAGATA
Found at i:25497198 original size:44 final size:44
Alignment explanation
Indices: 25497062--25497288 Score: 127
Period size: 44 Copynumber: 5.2 Consensus size: 44
25497052 AGACACTAGC
* *
25497062 CTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGTAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAGATAGTAGAT
* *** * * ** * * * *
25497106 CTTGCCTTCCTATACTGACAGTGAAGCAAATTGAAGACACTAG-C
1 CTTGCCTCCCTAGGTTG-CAGCGGAGCAGGTTAAAGATAGTAGAT
*
25497150 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAGATAGTAGAT
* **** * * ** * ** *
25497194 CTTGCCTTCCT-GCACCAACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTAG--GTTGCAGCGGAGCAGGTTAAAGATAGTAGAT
* * *
25497238 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAGATAGTAGAT
25497282 CTTGCCT
1 CTTGCCT
25497289 TCCTGCACCG
Statistics
Matches: 123, Mismatches: 54, Indels: 12
0.65 0.29 0.06
Matches are distributed among these distances:
43 36 0.29
44 51 0.41
45 36 0.29
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAGATAGTAGAT
Found at i:25497222 original size:45 final size:45
Alignment explanation
Indices: 25497167--25497385 Score: 115
Period size: 43 Copynumber: 5.0 Consensus size: 45
25497157 CCCTAGGTTG
* *
25497167 CAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGCACCAA
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAA
* ** * * * * * *****
25497212 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTG-GGTTG
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAA
* *
25497255 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAA
* * ** * * * * *****
25497300 CAGTGAAGCAGATCGAAGACACCAG-CCTTGCC-TCCATG-GGTTG
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCC-TGCACCAA
*
25497343 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACC
1 CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACC
25497386 GATAACAAAG
Statistics
Matches: 113, Mismatches: 55, Indels: 12
0.63 0.31 0.07
Matches are distributed among these distances:
43 38 0.34
44 38 0.34
45 37 0.33
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (45 bp):
CAGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAA
Found at i:25497265 original size:43 final size:43
Alignment explanation
Indices: 25497212--25497353 Score: 122
Period size: 43 Copynumber: 3.3 Consensus size: 43
25497202 CCTGCACCAA
25497212 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * ** * * * * * ****
25497255 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCG
1 CAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG
* *
25497299 ACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCATGGGTTG
1 -CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
25497343 CAGCGGAGCAG
1 CAGCGAAGCAG
25497354 GTTAAAAATA
Statistics
Matches: 67, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 27 0.40
44 23 0.34
45 17 0.25
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
Found at i:25497330 original size:44 final size:44
Alignment explanation
Indices: 25497194--25497332 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 44
25497184 AATAGTAGAT
*
25497194 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* **** * * ** * * * *
25497238 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
*
25497282 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
25497326 CTTGCCT
1 CTTGCCT
25497333 CCATGGGTTG
Statistics
Matches: 65, Mismatches: 28, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
43 18 0.28
44 30 0.46
45 17 0.26
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:25497374 original size:44 final size:43
Alignment explanation
Indices: 25497150--25497381 Score: 126
Period size: 44 Copynumber: 5.3 Consensus size: 43
25497140 AGACACTAGC
* *
25497150 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCT-CCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
***** * * ** * * * *
25497194 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCC-TCCTG-GGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
25497238 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCT-CCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
**** * * * ** * * * *
25497282 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCC-TCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
25497326 CTTGCCTCCATGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCC-TGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
25497370 CTTGCCTTCCTG
1 CTTGCC-TCCTG
25497382 CACCGATAAC
Statistics
Matches: 125, Mismatches: 54, Indels: 18
0.63 0.27 0.09
Matches are distributed among these distances:
43 39 0.31
44 47 0.38
45 39 0.31
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (43 bp):
CTTGCCTCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:25497868 original size:19 final size:19
Alignment explanation
Indices: 25497795--25497865 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
25497785 ATCTTCAAGT
25497795 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
25497814 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
25497833 ATATATGCAATCTTGGATATG
1 --ATATGCAATCTTAGATATG
25497854 ATATGCAATCTT
1 ATATGCAATCTT
25497866 GGAAGATATG
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:25523013 original size:9 final size:9
Alignment explanation
Indices: 25522995--25523036 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
25522985 GGTTTCCATT
25522995 AAAA-AAAG
1 AAAATAAAG
25523003 AAAATAAAG
1 AAAATAAAG
*
25523012 AAGATAAAG
1 AAAATAAAG
*
25523021 AAAA-AAGG
1 AAAATAAAG
25523029 AAAATAAA
1 AAAATAAA
25523037 TTTATGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 11 0.39
9 17 0.61
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (9 bp):
AAAATAAAG
Found at i:25523474 original size:21 final size:22
Alignment explanation
Indices: 25523450--25523494 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25523440 TTGCTTGTAC
25523450 TTAAGTACACTTT-GTT-GCATT
1 TTAAG-ACACTTTAGTTAGCATT
*
25523471 TTAAGACATTTTAGTTAGCATT
1 TTAAGACACTTTAGTTAGCATT
25523493 TT
1 TT
25523495 TGCATTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (22 bp):
TTAAGACACTTTAGTTAGCATT
Found at i:25530014 original size:30 final size:29
Alignment explanation
Indices: 25529956--25530016 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
25529946 TGCTTTCTGA
* *
25529956 AATATTTACAAAAAAAGCATCTAATTTTT
1 AATATTTACAAAAAAAGCACCAAATTTTT
*
25529985 AATATTTACAAAAAGAGCAACCAAATTTTT
1 AATATTTACAAAAAAAGC-ACCAAATTTTT
25530015 AA
1 AA
25530017 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAAAAGCACCAAATTTTT
Found at i:25538717 original size:27 final size:27
Alignment explanation
Indices: 25538687--25538748 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
25538677 CTGTCAGGAA
* * *
25538687 AGTAAACACGGGATAGTCCTCCA-AGAC
1 AGTAAACAAGGGATAATCCACCAGA-AC
25538714 AGTAAACAAGGGATAATCCACCAGAAC
1 AGTAAACAAGGGATAATCCACCAGAAC
25538741 AGTAAACA
1 AGTAAACA
25538749 TGGGGTACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (27 bp):
AGTAAACAAGGGATAATCCACCAGAAC
Found at i:25549859 original size:10 final size:10
Alignment explanation
Indices: 25549846--25549875 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25549836 ATGTGATTTT
*
25549846 TAAATATATA
1 TAAATAAATA
25549856 TAAATAAATA
1 TAAATAAATA
25549866 TAAATAAATA
1 TAAATAAATA
25549876 AAAGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAATAAATA
Found at i:25549865 original size:14 final size:14
Alignment explanation
Indices: 25549846--25549877 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25549836 ATGTGATTTT
*
25549846 TAAATATATATAAA
1 TAAATATAAATAAA
25549860 TAAATATAAATAAA
1 TAAATATAAATAAA
25549874 TAAA
1 TAAA
25549878 AGTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATATAAATAAA
Found at i:25550347 original size:41 final size:41
Alignment explanation
Indices: 25550290--25550442 Score: 198
Period size: 41 Copynumber: 3.7 Consensus size: 41
25550280 TTCTATAAGT
*
25550290 TCAGGCTTTATGCCTAGCAGGCTTTATGCCCGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCAGTGAATTATA
* *
25550331 TCAGGCTTTATGCCTAGCAGGCTCTGTGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCAGTGAATTATA
** * * * *
25550372 TCAAACTTTATGTCTAGCAGGCTTTGTGCCAGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCAGTGAATTATA
* * *
25550413 TCGGGCTTTGTGCCTAGTAGGCTTTATGCC
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCC
25550443 GGTGTTTTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCAGTGAATTATA
Found at i:25550466 original size:82 final size:83
Alignment explanation
Indices: 25550292--25550466 Score: 201
Period size: 82 Copynumber: 2.1 Consensus size: 83
25550282 CTATAAGTTC
* * * *
25550292 AGGCTTTATGCCTAGCAGGCTTTATGCCCGTGAATTATATCAGGCTTTATGCCTAGCAGGCTCTG
1 AGGCTTTATGTCTAGCAGGCTTTATGCCAGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTA
25550357 TGCCAGTGAATTATATCA
66 TGCCAGTGAATTATATCA
* * * * * * *
25550375 A-ACTTTATGTCTAGCAGGCTTTGTGCCAGTGAAATGTATCGGGCTTTGTGCCTAGTAGGCTTTA
1 AGGCTTTATGTCTAGCAGGCTTTATGCCAGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTA
* **
25550439 TGCCGGTGTTTTATA-CA
66 TGCCAGTGAATTATATCA
*
25550456 AGGCTCTATGT
1 AGGCTTTATGT
25550467 TCTATAAATC
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 3 0.04
82 71 0.95
83 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (83 bp):
AGGCTTTATGTCTAGCAGGCTTTATGCCAGTGAAATATATCAGGCTTTATGCCTAGCAGGCTCTA
TGCCAGTGAATTATATCA
Found at i:25551305 original size:23 final size:22
Alignment explanation
Indices: 25551279--25551446 Score: 80
Period size: 22 Copynumber: 7.3 Consensus size: 22
25551269 TGGTGTAAAA
25551279 ATGCTGCTCAATTTGGTACGTAT
1 ATGCTGCTCAATTTGGTA-GTAT
*
25551302 ATGCTGC-CCATTTGTTGTA-TAT
1 ATGCTGCTCAATTTG--GTAGTAT
* *
25551324 ATGCTG-TAAAATTTTGGT-GTAAAA
1 ATGCTGCT-CAA-TTTGGTAGT--AT
25551348 ATGCTGCTCAATTTGGTATGTAT
1 ATGCTGCTCAATTTGGTA-GTAT
*
25551371 ATGCTGC-CCATTTGTTGTA-TAT
1 ATGCTGCTCAATTTG--GTAGTAT
* * *
25551393 ATGCTGTTAAATTTTGGT-GTAAA
1 ATGCTGCTCAA-TTTGGTAGT-AT
* *
25551416 AGTGCTGTTAAATTTGGTATGTAT
1 A-TGCTGCTCAATTTGGTA-GTAT
25551440 ATGCTGC
1 ATGCTGC
25551447 CCATTTGTTG
Statistics
Matches: 112, Mismatches: 13, Indels: 40
0.68 0.08 0.24
Matches are distributed among these distances:
22 36 0.32
23 36 0.32
24 35 0.31
25 5 0.04
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (22 bp):
ATGCTGCTCAATTTGGTAGTAT
Found at i:25551341 original size:69 final size:69
Alignment explanation
Indices: 25551255--25551515 Score: 405
Period size: 69 Copynumber: 3.8 Consensus size: 69
25551245 TATTATGTAC
*
25551255 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTACGTATATGCTGCCCATTTGTTGT
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
25551320 ATAT
66 ATAT
*
25551324 ATGCTGTAAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
25551389 ATAT
66 ATAT
* * *
25551393 ATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCTGCCCATTTGTTGT
1 ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
25551458 ATAT
66 ATAT
* * * * * * *
25551462 AAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTTGGTATATAAATGCTG
1 ATGCTGT-TAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTG
25551516 TCCAAATTGA
Statistics
Matches: 178, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
69 138 0.78
70 40 0.22
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (69 bp):
ATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAATTTGGTATGTATATGCTGCCCATTTGTTGT
ATAT
Found at i:25551491 original size:47 final size:45
Alignment explanation
Indices: 25551302--25551492 Score: 113
Period size: 47 Copynumber: 4.1 Consensus size: 45
25551292 TGGTACGTAT
* * * *
25551302 ATGCTGCCCATTTGTTGTATATATGCTGTAAAATTTTGGTGTAAAA
1 ATGCTGCCAATTTGTTGTATATAAGCTGTCAAA-TTTGGTGTATAA
** * *
25551348 ATGCTGCTCAATTTGGTATGTATAT--GCTG-CCCATTTGTTGTATAT
1 ATGCTGC-CAATTT-GT-TGTATATAAGCTGTCAAATTTGGTGTATAA
** * * * * *
25551393 ATGCTGTTAAATTTTGGTGTA-A-AAGTGCTGTTAAATTTGGTATGTAT
1 ATGCTG-CCAA-TTTGTTGTATATAA--GCTGTCAAATTTGGTGTATAA
*
25551440 ATGCTGCCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAA
1 ATGCTGCCAATTTGTTGTATATAAGCTGT-CAAA-TTTGGTGTATAA
25551487 ATGCTG
1 ATGCTG
25551493 TTTAATTTGG
Statistics
Matches: 107, Mismatches: 24, Indels: 27
0.68 0.15 0.17
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 31 0.29
46 20 0.19
47 42 0.39
48 2 0.02
49 7 0.07
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (45 bp):
ATGCTGCCAATTTGTTGTATATAAGCTGTCAAATTTGGTGTATAA
Found at i:25551501 original size:23 final size:23
Alignment explanation
Indices: 25551255--25551516 Score: 124
Period size: 23 Copynumber: 11.3 Consensus size: 23
25551245 TATTATGTAC
*
25551255 ATGCTGTTAAATTTTGGTGTAAAA
1 ATGCTGTTAAA-TTTGGTGTATAA
* *
25551279 ATGCTGCTCAATTTGGTACGTAT--
1 ATGCTGTTAAATTTGGT--GTATAA
*** * *
25551302 ATGCTG-CCCATTTGTTGTATAT
1 ATGCTGTTAAATTTGGTGTATAA
* *
25551324 ATGCTGTAAAATTTTGGTGTAAAA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * * * *
25551348 ATGCTGCTCAATTTGGTATGTAT
1 ATGCTGTTAAATTTGGTGTATAA
*** * *
25551371 ATGCTG-CCCATTTGTTGTATAT
1 ATGCTGTTAAATTTGGTGTATAA
25551393 ATGCTGTTAAATTTTGGTGTA-AA
1 ATGCTGTTAAA-TTTGGTGTATAA
* * *
25551416 AGTGCTGTTAAATTTGGTATGTAT
1 A-TGCTGTTAAATTTGGTGTATAA
*** *
25551440 ATGCTG-CCCATTTGTTGTATATA
1 ATGCTGTTAAATTTGGTGTATA-A
*
25551463 A-GCTGTCCAAATTTTGGTGTATAA
1 ATGCTGT-TAAA-TTTGGTGTATAA
* *
25551487 ATGCTGTTTAATTTGGTATATAA
1 ATGCTGTTAAATTTGGTGTATAA
25551510 ATGCTGT
1 ATGCTGT
25551517 CCAAATTGAT
Statistics
Matches: 178, Mismatches: 45, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
20 4 0.02
22 43 0.24
23 61 0.34
24 52 0.29
25 18 0.10
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (23 bp):
ATGCTGTTAAATTTGGTGTATAA
Found at i:25551531 original size:23 final size:22
Alignment explanation
Indices: 25551455--25551544 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 22
25551445 GCCCATTTGT
25551455 TGTATATAAGCTGTCCAAATTTTGG
1 TGTATA-AAGCTGTCCAAA--TTGG
** *
25551480 TGTATAAATGCTGTTTAATTTGG
1 TGTATAAA-GCTGTCCAAATTGG
* *
25551503 TATATAAATGCTGTCCAAATTGA
1 TGTATAAA-GCTGTCCAAATTGG
25551526 TGTATAAGAGCTGTCCAAA
1 TGTATAA-AGCTGTCCAAA
25551545 CAAGGTAGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
23 38 0.70
24 3 0.06
25 13 0.24
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (22 bp):
TGTATAAAGCTGTCCAAATTGG
Found at i:25560092 original size:24 final size:25
Alignment explanation
Indices: 25560063--25560134 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
25560053 AGTGAAAGAA
25560063 AAAGAAAAATAAGAAAATAGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
* *
25560088 -AAG-AAAATGAGGGAAAATA-ATAGG
1 AAAGAAAAAT-A-AGAAAATAGAAAGG
25560112 AAAGAAAAA-AAGAAAA-AGAAAGG
1 AAAGAAAAATAAGAAAATAGAAAGG
25560135 TACAGTAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
22 1 0.03
23 14 0.37
24 9 0.24
25 10 0.26
26 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (25 bp):
AAAGAAAAATAAGAAAATAGAAAGG
Found at i:25570039 original size:47 final size:47
Alignment explanation
Indices: 25569985--25570077 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
25569975 CTTGAAGGAA
25569985 AAGTCTAGTATAAATAAGTTGTAATGTATGCTTTATAGCCAAAATTG
1 AAGTCTAGTATAAATAAGTTGTAATGTATGCTTTATAGCCAAAATTG
25570032 AAGTCTAGTATAAATAAGTTGTAATGTATGCTTTATAGCCAAAATT
1 AAGTCTAGTATAAATAAGTTGTAATGTATGCTTTATAGCCAAAATT
25570078 ATTATTCTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (47 bp):
AAGTCTAGTATAAATAAGTTGTAATGTATGCTTTATAGCCAAAATTG
Found at i:25575629 original size:140 final size:140
Alignment explanation
Indices: 25575372--25575658 Score: 443
Period size: 140 Copynumber: 2.1 Consensus size: 140
25575362 AAATAGAACA
*
25575372 TATTC-TTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTGGTCTCTCAAAACTCCTCCT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * *
25575436 GCCGAAGCAGAACCTGTGTTGATTTTAACAGCTCCATCAAACCGTATGGTGATAAATTCTCTTCA
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCATCAAACCGTATAGTGATAAAGTCTCTTCA
*
25575501 AATTTTAAGT
131 AAGTTTAAGT
* * * *
25575511 TATTCATTATTTTGTGATTGAACCCAATGATCTATTCACCATTTTAGTCTCTCAAAACTCCTCTT
1 TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
* * *
25575576 GCCGAAGCCGAACCTATGTTGATTTTAATAGCTCCA-CTAGACCGTATAGTGATAAAGTCTCTTC
66 GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCATC-AAACCGTATAGTGATAAAGTCTCTTC
25575640 AAAGTTTAAGT
130 AAAGTTTAAGT
25575651 TATTCATT
1 TATTCATT
25575659 TAGTTTGTAT
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
139 6 0.04
140 128 0.96
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (140 bp):
TATTCATTATTTTGCGATTGAAACCAATGATCCATTCACCATTTTAGTCTCTCAAAACTCCTCCT
GCCGAAGCAGAACCTATGTTGATTTTAACAGCTCCATCAAACCGTATAGTGATAAAGTCTCTTCA
AAGTTTAAGT
Found at i:25578162 original size:26 final size:24
Alignment explanation
Indices: 25578132--25578193 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 24
25578122 GAGCTATGAT
25578132 CGGTAAGCTCAT-TCTGAGCTGAAGAA
1 CGGTAAGCTCATATC-GAGCT-AA-AA
25578158 CGGTAAGCTC-TATCGAGCTAAAA
1 CGGTAAGCTCATATCGAGCTAAAA
25578181 CGGTAAGCTCATA
1 CGGTAAGCTCATA
25578194 CAAGCTGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.35
24 4 0.12
25 6 0.18
26 12 0.35
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (24 bp):
CGGTAAGCTCATATCGAGCTAAAA
Found at i:25578186 original size:23 final size:23
Alignment explanation
Indices: 25578114--25578190 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 23
25578104 ATTATCATTT
* * *
25578114 GCTCTTTCGAGCTATGATCGGTAA
1 GCTCTATCGAGCTA-AAACGGTAA
25578138 GCTC-ATTCTGAGCTGAAGAACGGTAA
1 GCTCTA-TC-GAGCT-AA-AACGGTAA
25578164 GCTCTATCGAGCTAAAACGGTAA
1 GCTCTATCGAGCTAAAACGGTAA
25578187 GCTC
1 GCTC
25578191 ATACAAGCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
23 12 0.27
24 8 0.18
25 10 0.22
26 14 0.31
27 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (23 bp):
GCTCTATCGAGCTAAAACGGTAA
Found at i:25578199 original size:23 final size:25
Alignment explanation
Indices: 25578132--25578200 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 25
25578122 GAGCTATGAT
*
25578132 CGGTAAGCTCATTCTGAGCTGAAGAA
1 CGGTAAGCTCATAC-GAGCTGAAGAA
25578158 CGGTAAGCTC-TATCGAGCT-AA-AA
1 CGGTAAGCTCATA-CGAGCTGAAGAA
*
25578181 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
25578201 TGGTGAGTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 17 0.45
24 4 0.11
25 6 0.16
26 11 0.29
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGAAGAA
Found at i:25578734 original size:12 final size:12
Alignment explanation
Indices: 25578717--25578741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25578707 CCACTAACAT
25578717 ATTAATGGTCTA
1 ATTAATGGTCTA
25578729 ATTAATGGTCTA
1 ATTAATGGTCTA
25578741 A
1 A
25578742 GTGTCATATA
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATTAATGGTCTA
Found at i:25586124 original size:21 final size:22
Alignment explanation
Indices: 25586070--25586124 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
25586060 AATTATAGCT
*
25586070 TGATTAATTAA-AACTAACATA
1 TGATTAATTAACCACTAACATA
* *
25586091 TTATT-ATTAAACCACTAATA-A
1 TGATTAATT-AACCACTAACATA
25586112 TGATTAATTAACC
1 TGATTAATTAACC
25586125 TTAATTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 9 0.33
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
TGATTAATTAACCACTAACATA
Found at i:25588215 original size:25 final size:26
Alignment explanation
Indices: 25588170--25588219 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
25588160 ATGTGAGTTA
*
25588170 ATAATGATAATATGCAAATTGATTAT
1 ATAATGATAATAAGCAAATTGATTAT
25588196 ATAATG-TAATAAG-AACATTGATTA
1 ATAATGATAATAAGCAA-ATTGATTA
25588220 CTGACCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 14 0.64
26 6 0.27
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (26 bp):
ATAATGATAATAAGCAAATTGATTAT
Found at i:25588636 original size:22 final size:22
Alignment explanation
Indices: 25588583--25588645 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
25588573 TGCGACACGT
*
25588583 CTCCTATGTTGCA-ACATAGCAA
1 CTCCTGTGTTG-AGACATAGCAA
*
25588605 C-CTTGTGTTGAGACATAGCAA
1 CTCCTGTGTTGAGACATAGCAA
*
25588626 CTCCTGTGTTGAGACGTAGC
1 CTCCTGTGTTGAGACATAGC
25588646 TTGAATGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 17 0.49
22 17 0.49
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
CTCCTGTGTTGAGACATAGCAA
Found at i:25594323 original size:23 final size:23
Alignment explanation
Indices: 25594280--25594324 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25594270 GATGACCATG
*
25594280 TTTTCATCATTTTACTTTTATTA
1 TTTTCATCATTTTACTCTTATTA
*
25594303 TTTTCATTATTTTAAC-CTTATT
1 TTTTCATCATTTT-ACTCTTATT
25594325 TTATTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTCATCATTTTACTCTTATTA
Found at i:25596707 original size:22 final size:22
Alignment explanation
Indices: 25596682--25596728 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
25596672 GGCAATCTAT
25596682 CGGATTATTCGTCCCAATTTGG
1 CGGATTATTCGTCCCAATTTGG
25596704 CGG---ATTCGTCCCAATTTGG
1 CGGATTATTCGTCCCAATTTGG
*
25596723 CAGATT
1 CGGATT
25596729 CTTACCACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
19 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CGGATTATTCGTCCCAATTTGG
Found at i:25596712 original size:19 final size:19
Alignment explanation
Indices: 25596688--25596729 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
25596678 CTATCGGATT
*
25596688 ATTCGTCCCAATTTGGCGG
1 ATTCGTCCCAATTTGGCAG
25596707 ATTCGTCCCAATTTGGCAG
1 ATTCGTCCCAATTTGGCAG
25596726 ATTC
1 ATTC
25596730 TTACCACGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (19 bp):
ATTCGTCCCAATTTGGCAG
Found at i:25598185 original size:19 final size:19
Alignment explanation
Indices: 25598161--25598222 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
25598151 AATCTTCAAG
25598161 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
25598180 GATATGTAATCTTATATAT
1 GATATGCAATCTTAGATAT
25598199 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25598218 GATAT
1 GATAT
25598223 TAGATATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25598227 original size:12 final size:12
Alignment explanation
Indices: 25598210--25598234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25598200 ATATGCAATC
25598210 TTAGATATGATA
1 TTAGATATGATA
25598222 TTAGATATGATA
1 TTAGATATGATA
25598234 T
1 T
25598235 GCAATCTTAG
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAGATATGATA
Found at i:25598250 original size:22 final size:23
Alignment explanation
Indices: 25598224--25598268 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25598214 ATATGATATT
25598224 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
25598246 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
25598269 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:25598278 original size:22 final size:22
Alignment explanation
Indices: 25598237--25598282 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
25598227 TATGATATGC
*
25598237 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
25598260 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
25598281 AA
1 AA
25598283 ATACCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:25598281 original size:21 final size:23
Alignment explanation
Indices: 25598224--25598282 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
25598214 ATATGATATT
* *
25598224 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
25598246 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
25598268 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
25598283 ATACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:25598498 original size:23 final size:23
Alignment explanation
Indices: 25598454--25598498 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
25598444 CTTATTTTTG
* *
25598454 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
25598477 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
25598499 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:25600773 original size:50 final size:50
Alignment explanation
Indices: 25600645--25600886 Score: 216
Period size: 50 Copynumber: 4.7 Consensus size: 50
25600635 GATAATAACA
* * ** * * * *
25600645 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTTCCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * ** *
25600694 TGCCAATGTCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* ** * *
25600744 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * *
25600794 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AG
25600850 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
25600887 TCTCATTCTC
Statistics
Matches: 153, Mismatches: 33, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 36 0.24
50 79 0.52
53 2 0.01
56 36 0.24
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:25608101 original size:20 final size:20
Alignment explanation
Indices: 25608065--25608103 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25608055 TTGCTTTTTC
*
25608065 TTTACTTACTCTTTTACTTG
1 TTTACTTACTCTCTTACTTG
25608085 TTTACTTACT-TGCTTACTT
1 TTTACTTACTCT-CTTACTT
25608104 AAATAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.21, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:25608423 original size:50 final size:50
Alignment explanation
Indices: 25608360--25608541 Score: 150
Period size: 50 Copynumber: 3.5 Consensus size: 50
25608350 GTACTACCAT
* * * ** *
25608360 TGCCATATCCCAGATATGGTCTTACATGCGAGTTCTCATATCGGTGCCCA
1 TGCCATGTCCCAGACATGGTCTTACAGGCGACCTCTCATATCGGTGCCAA
* * * *
25608410 TGCCATGTCCCAGACATGGTATTACGGGGGACCTCTCATCTCGGTGCCAA
1 TGCCATGTCCCAGACATGGTCTTACAGGCGACCTCTCATATCGGTGCCAA
* * * ** *
25608460 CGCCATGTCCCAAACATGGTCTTAC-GTGGGACCTCTCATAACCTCAATAATTCCAA
1 TGCCATGTCCCAGACATGGTCTTACAG-GCGACCTCTCAT-A--TC---GGTGCCAA
25608516 TGCCATGTCCCAGACATGGTCTTACA
1 TGCCATGTCCCAGACATGGTCTTACA
25608542 TGGGATCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 74 0.70
53 2 0.02
56 28 0.27
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCCATGTCCCAGACATGGTCTTACAGGCGACCTCTCATATCGGTGCCAA
Found at i:25612266 original size:4 final size:4
Alignment explanation
Indices: 25612257--25612294 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
25612247 TTTCTCCTCT
*
25612257 TTTC TTTC TTTC TGT- TTTC TTTC TTTC TTTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TT
25612295 ATTTAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 24 0.80
5 4 0.13
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:25612276 original size:15 final size:13
Alignment explanation
Indices: 25612254--25612294 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
25612244 GTCTTTCTCC
25612254 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
25612267 TCTGTTTTCTTTCTT
1 TC--TTTTCTTTCTT
25612282 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
25612295 ATTTAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 13 0.50
15 13 0.50
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:25618342 original size:17 final size:18
Alignment explanation
Indices: 25618320--25618363 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
25618310 TAAACAAGGT
25618320 AAATAAAAAAATTAA-GA
1 AAATAAAAAAATTAATGA
* *
25618337 AAATAACATAATTAATGA
1 AAATAAAAAAATTAATGA
*
25618355 ATATAAAAA
1 AAATAAAAA
25618364 TTTAGTACGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAAAATTAATGA
Found at i:25628775 original size:14 final size:14
Alignment explanation
Indices: 25628756--25628783 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25628746 ATCCAATGAT
25628756 TGTGCGAAGCCTAA
1 TGTGCGAAGCCTAA
25628770 TGTGCGAAGCCTAA
1 TGTGCGAAGCCTAA
25628784 AGAAAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
TGTGCGAAGCCTAA
Found at i:25633107 original size:26 final size:26
Alignment explanation
Indices: 25633066--25633173 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
25633056 TTTAGAGTTC
* *
25633066 GCCATAAAGGCTTCCATTTCAGATAT
1 GCCAAAAAGGCTTCCATTTTAGATAT
* *
25633092 GCTACAAAGGCTTCCATTTTAGATAT
1 GCCAAAAAGGCTTCCATTTTAGATAT
25633118 GCCAAAAAGGCTTCCATTTTAGATAT
1 GCCAAAAAGGCTTCCATTTTAGATAT
*
25633144 GCCATAAAGGCTTCCATTTTAGATAT
1 GCCAAAAAGGCTTCCATTTTAGATAT
25633170 GCCA
1 GCCA
25633174 CTGATAGGGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (26 bp):
GCCAAAAAGGCTTCCATTTTAGATAT
Found at i:25634557 original size:46 final size:46
Alignment explanation
Indices: 25634487--25634577 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
25634477 GCGACATTAA
* *
25634487 GATTTCCCTCGGGCTATTCGCCCAACGTAGGACCCGTCAATTTTGG
1 GATTTCCCTCGAGCTATTCACCCAACGTAGGACCCGTCAATTTTGG
*
25634533 GATTTCCTTCGAGCTATTCACCCAACGTAGGACCCGTCAATTTTG
1 GATTTCCCTCGAGCTATTCACCCAACGTAGGACCCGTCAATTTTG
25634578 AGTGTTACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.30
Consensus pattern (46 bp):
GATTTCCCTCGAGCTATTCACCCAACGTAGGACCCGTCAATTTTGG
Found at i:25639469 original size:38 final size:37
Alignment explanation
Indices: 25639427--25639556 Score: 116
Period size: 38 Copynumber: 3.5 Consensus size: 37
25639417 CTTTGTTCGA
* * * * *
25639427 TTGAGCTTTATTTTAGTATATCTATAGATTTTACTCAT
1 TTGAGCTTCA-TTCAGTATAACAATAGAATTTACTCAT
* *
25639465 TTGAGCTCCATTCAGTATAACAATAGAATTTGCTCAT
1 TTGAGCTTCATTCAGTATAACAATAGAATTTACTCAT
* * * * *
25639502 TTGAGCTTCACATCAGTATAACAGTAAAATTTTCTCGT
1 TTGAGCTTCA-TTCAGTATAACAATAGAATTTACTCAT
* *
25639540 TTGAGCTACTTTCAGTA
1 TTGAGCTTCATTCAGTA
25639557 GAATCATTAG
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
37 37 0.49
38 38 0.51
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (37 bp):
TTGAGCTTCATTCAGTATAACAATAGAATTTACTCAT
Found at i:25639654 original size:40 final size:40
Alignment explanation
Indices: 25639549--25639801 Score: 269
Period size: 40 Copynumber: 6.3 Consensus size: 40
25639539 TTTGAGCTAC
* * *
25639549 TTTCAGTAGAATCATTAGGTATGGCTCGATAA-AACATAC-
1 TTTCAGTAGATTCAGTAGGTATGGCTCGA-AAGCACATACA
* * *
25639588 TTTCAGTAGAATCAGTAGGTAAGGCTCGACAGCACATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
* * * ** *
25639628 TTTTAGTGAGA-CCAGTAGGTATGGCTCAAAAGTGCATACG
1 TTTCAGT-AGATTCAGTAGGTATGGCTCGAAAGCACATACA
* **
25639668 TTTCAGTAGATTTAGTAGGTATGGCTCGAAAGCACATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
* * * * * *
25639708 CTTCAGTAGATTCAATAGATATCGCTCAAAAGCACATACC
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
*
25639748 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCATATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
25639788 TTTCAGTAGATTCA
1 TTTCAGTAGATTCA
25639802 ATAGATATCT
Statistics
Matches: 176, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
38 1 0.01
39 36 0.20
40 136 0.77
41 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACA
Found at i:25647927 original size:27 final size:27
Alignment explanation
Indices: 25647907--25648279 Score: 404
Period size: 27 Copynumber: 14.0 Consensus size: 27
25647897 GGGTATAACA
*
25647907 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
25647934 GTCATTTTTCCCTATG-GGGATATTTTG
1 GTCATTTTACCCTATGAGGG-TATTTCG
* **
25647961 GTCATTTTACCGTAT-AGGGGTATTTTA
1 GTCATTTTACCCTATGA-GGGTATTTCG
25647988 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
25648015 ATCATTCTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
25648042 GTTATTCTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
*
25648069 GTCATTCTACCCTAT-AGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
25648095 GTCATTTTACTCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
25648122 ATCATTTTACCCTAT-AGGGGTATTTCA
1 GTCATTTTACCCTATGA-GGGTATTTCG
*
25648149 GTCA-TTTA-CCTATCAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
25648174 GTCATTTTATCCTATG-GGGTATTGCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
25648200 GTTATTTCACCCTATTGA-GGTAATTCG
1 GTCATTTTACCCTA-TGAGGGTATTTCG
*
25648227 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
25648254 ATCATTCTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGAGGGTATTTC
25648280 AATCATAACA
Statistics
Matches: 297, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.06
26 58 0.20
27 217 0.73
28 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:25654047 original size:68 final size:68
Alignment explanation
Indices: 25653921--25654106 Score: 176
Period size: 68 Copynumber: 2.7 Consensus size: 68
25653911 CAGAATCGAG
* * * * * * * *
25653921 AGTCCGCCAAGACATTAAACATGGGACCATATTGTGTCAGATCATCGCTCGACCATGGAAATATA
1 AGTCTGCCAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACATA
**
25653986 TGG
66 TAA
* * * *
25653989 AGTTCT-CTAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTTGGCTATGGAAACAT
1 AG-TCTGCCAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACAT
25654053 ATAA
65 ATAA
** * * **
25654057 AGTCTGCCAGGACATTAAACACAAGATCATGTTATGTAAGATAATAGCTC
1 AGTCTGCCAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTC
25654107 AGCTATGGCA
Statistics
Matches: 94, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
67 3 0.03
68 89 0.95
69 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (68 bp):
AGTCTGCCAGGACATTAAACATGAGATCATATTGTGTAAGACCATAGCTCGACCATGGAAACATA
TAA
Found at i:25672126 original size:39 final size:39
Alignment explanation
Indices: 25672072--25672168 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
25672062 TAAACATGTT
25672072 TTTGAGTATTGTGATATATGCTTGAATGTTATGTGATTA
1 TTTGAGTATTGTGATATATGCTTGAATGTTATGTGATTA
*
25672111 TTTGATTATTGTGATATATGCTTGAATGTTATGTGATTA
1 TTTGAGTATTGTGATATATGCTTGAATGTTATGTGATTA
* *
25672150 TATGTGTGA-TGTGATATAT
1 TTTGAGT-ATTGTGATATAT
25672169 ATTTAAACGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 52 0.98
40 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (39 bp):
TTTGAGTATTGTGATATATGCTTGAATGTTATGTGATTA
Found at i:25672161 original size:22 final size:22
Alignment explanation
Indices: 25672081--25672153 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
25672071 TTTTGAGTAT
25672081 TGTGATATATGCTTGAATGTTA
1 TGTGATATATGCTTGAATGTTA
25672103 TGTGAT-TAT--TTG-A--TTA
1 TGTGATATATGCTTGAATGTTA
25672119 TTGTGATATATGCTTGAATGTTA
1 -TGTGATATATGCTTGAATGTTA
25672142 TGTGATTATATG
1 TGTGA-TATATG
25672154 TGTGATGTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.07
17 6 0.14
18 4 0.09
19 3 0.07
20 3 0.07
21 4 0.09
22 11 0.26
23 9 0.21
ACGTcount: A:0.26, C:0.03, G:0.22, T:0.49
Consensus pattern (22 bp):
TGTGATATATGCTTGAATGTTA
Found at i:25677773 original size:15 final size:15
Alignment explanation
Indices: 25677753--25677783 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25677743 GTTATTTAAA
*
25677753 TGAAAGGTCAATAGT
1 TGAAAGGTCAAGAGT
25677768 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
25677783 T
1 T
25677784 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:25691344 original size:19 final size:18
Alignment explanation
Indices: 25691322--25691358 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
25691312 ATAAAACTTG
*
25691322 TCTACTTAAATAAGATTTA
1 TCTACCTAAATAA-ATTTA
25691341 TCTACCTAAATAAATTTA
1 TCTACCTAAATAAATTTA
25691359 AAATATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (18 bp):
TCTACCTAAATAAATTTA
Found at i:25695978 original size:41 final size:42
Alignment explanation
Indices: 25695918--25695997 Score: 135
Period size: 41 Copynumber: 1.9 Consensus size: 42
25695908 CTAATTGGTA
*
25695918 AAATAATTTCCTTATTCTAATAAATTACTAAAACATAAAGGT
1 AAATAATTTCCTTATTCTAATAAACTACTAAAACATAAAGGT
*
25695960 AAATAATTT-CTTATTCTAATAAACTACTAAAAGATAAA
1 AAATAATTTCCTTATTCTAATAAACTACTAAAACATAAA
25695998 ATAAAACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 27 0.75
42 9 0.25
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (42 bp):
AAATAATTTCCTTATTCTAATAAACTACTAAAACATAAAGGT
Found at i:25696065 original size:18 final size:19
Alignment explanation
Indices: 25696019--25696066 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
25696009 CTAGAATATG
*
25696019 AATAAAACTTATCTACCTA
1 AATAAAATTTATCTACCTA
25696038 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCTA
25696057 AAT-AAATTTA
1 AATAAAATTTA
25696067 AAATATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (19 bp):
AATAAAATTTATCTACCTA
Found at i:25704014 original size:14 final size:16
Alignment explanation
Indices: 25703986--25704020 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
25703976 TGTGCCTCGT
25703986 TAAAACCTTATTAGGA
1 TAAAACCTTATTAGGA
25704002 -AAAACCTTA-TAGGA
1 TAAAACCTTATTAGGA
25704016 TAAAA
1 TAAAA
25704021 GCCTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (16 bp):
TAAAACCTTATTAGGA
Found at i:25707244 original size:17 final size:17
Alignment explanation
Indices: 25707222--25707270 Score: 89
Period size: 17 Copynumber: 2.8 Consensus size: 17
25707212 TGAGTGTGGC
25707222 CGTGTGGGCCACACAGG
1 CGTGTGGGCCACACAGG
25707239 CGTGTGGGCCACACAGG
1 CGTGTGGGCCACACAGG
25707256 CGTGTGGGCCTACAC
1 CGTGTGGGCC-ACAC
25707271 GCCTACGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.16, C:0.31, G:0.39, T:0.14
Consensus pattern (17 bp):
CGTGTGGGCCACACAGG
Found at i:25712007 original size:24 final size:25
Alignment explanation
Indices: 25711980--25712042 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 25
25711970 TAATATATTG
25711980 TTAAT-TGTTAGAATAATTATAAGT
1 TTAATATGTTAGAATAATTATAAGT
* **
25712004 TTAATATGAT-GTTTAATTATAAGT
1 TTAATATGTTAGAATAATTATAAGT
25712028 TT-ATATGTTA-AATAA
1 TTAATATGTTAGAATAA
25712043 ATGTAGAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 9 0.29
24 19 0.61
25 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (25 bp):
TTAATATGTTAGAATAATTATAAGT
Found at i:25712008 original size:12 final size:12
Alignment explanation
Indices: 25711993--25712030 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25711983 ATTGTTAGAA
25711993 TAATTATAAGTT
1 TAATTATAAGTT
*
25712005 TAA-TATGATGTT
1 TAATTAT-AAGTT
25712017 TAATTATAAGTT
1 TAATTATAAGTT
25712029 TA
1 TA
25712031 TATGTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.14
12 16 0.73
13 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (12 bp):
TAATTATAAGTT
Found at i:25713892 original size:37 final size:36
Alignment explanation
Indices: 25713798--25713929 Score: 113
Period size: 37 Copynumber: 3.6 Consensus size: 36
25713788 TAATCTTTAC
* * * * *
25713798 TCAGTATAACAGTAGAATTTTCTTGATTAATCATCAT
1 TCAGTATAACGGTA-AATTTGCTAGATTAAGCTTCAT
* *
25713835 TCAGTTTAACGGTAAGATTTGCTTAG-TTAAGCTTTAT
1 TCAGTATAACGGTAA-ATTTGC-TAGATTAAGCTTCAT
* * *
25713872 TCAGTATAACGATATAATTTGCTCGATTGAGCTTCAT
1 TCAGTATAACGGTA-AATTTGCTAGATTAAGCTTCAT
*
25713909 TTAGTATAACGGTAAAATTTG
1 TCAGTATAACGGT-AAATTTG
25713930 GCTCGATTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
36 3 0.04
37 69 0.91
38 4 0.05
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (36 bp):
TCAGTATAACGGTAAATTTGCTAGATTAAGCTTCAT
Found at i:25713919 original size:74 final size:74
Alignment explanation
Indices: 25713787--25713929 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 74
25713777 ATCTACTCGT
* * * * * *
25713787 TTAATCTTTACTCAGTATAACAGTAGAATTTTCTTGATTAATCATCATTCAGTTTAACGGTAAGA
1 TTAAGCTTTACTCAGTATAACAGTAGAATTTGCTCGATTAAGCATCATTCAGTATAACGGTAAAA
25713852 TTTGCTTAG
66 TTTGCTTAG
* * * * *
25713861 TTAAGCTTTATTCAGTATAAC-GATATAATTTGCTCGATTGAGCTTCATTTAGTATAACGGTAAA
1 TTAAGCTTTACTCAGTATAACAG-TAGAATTTGCTCGATTAAGCATCATTCAGTATAACGGTAAA
25713925 ATTTG
65 ATTTG
25713930 GCTCGATTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
73 1 0.02
74 56 0.98
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (74 bp):
TTAAGCTTTACTCAGTATAACAGTAGAATTTGCTCGATTAAGCATCATTCAGTATAACGGTAAAA
TTTGCTTAG
Found at i:25720886 original size:24 final size:25
Alignment explanation
Indices: 25720858--25720920 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
25720848 AGTTATGAAC
25720858 TGGGAAGCTCATACGAGCTGT-AAT
1 TGGGAAGCTCATACGAGCTGTAAAT
* *
25720882 TGGGAAGATTATACGAGCTGTAAAT
1 TGGGAAGCTCATACGAGCTGTAAAT
* *
25720907 CGGAAAGCTCATAC
1 TGGGAAGCTCATAC
25720921 AAACCGTGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
TGGGAAGCTCATACGAGCTGTAAAT
Found at i:25722494 original size:50 final size:50
Alignment explanation
Indices: 25722416--25722656 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 50
25722406 ATTTGGGTAA
*
25722416 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* *
25722466 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * *
25722516 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
*** * * * * * **
25722566 AGAACACTCATGTAAGACCATATCTAGGATATTGCATTGGCAGTACAG--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATG
* ** *
25722615 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25722657 TGTTATTATC
Statistics
Matches: 157, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
49 33 0.21
50 123 0.78
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:25723626 original size:31 final size:31
Alignment explanation
Indices: 25723588--25723680 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
25723578 AGGCAAATTA
25723588 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25723619 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25723650 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25723681 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Done.