Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 132 of 295
Found at i:45262250 original size:17 final size:18
Alignment explanation
Indices: 45262223--45262256 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
45262213 CCTTCATTCC
45262223 TTTCTTTTATTCTTTTAG
1 TTTCTTTTATTCTTTTAG
45262241 TTTC-TTTATTCTTTTA
1 TTTCTTTTATTCTTTTA
45262257 TGCTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTCTTTTATTCTTTTAG
Found at i:45266816 original size:21 final size:21
Alignment explanation
Indices: 45266792--45266856 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
45266782 AAATCTAACT
45266792 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** * *
45266813 GAAGC-CCGAAG-ACT-AACT
1 GAAGCACAAAAGTGCTAAACG
* *
45266831 GAAGCACATAAGTGCTAAATG
1 GAAGCACAAAAGTGCTAAACG
45266852 GAAGC
1 GAAGC
45266857 CCGAAGGCTA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 8 0.25
19 6 0.19
20 6 0.19
21 12 0.38
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:45266832 original size:39 final size:39
Alignment explanation
Indices: 45266778--45266874 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
45266768 TGATCTGAAA
45266778 CCCGAA-ATCTAACTGAAGCACAAAAGTGCTAAACGGAAG
1 CCCGAAGA-CTAACTGAAGCACAAAAGTGCTAAACGGAAG
* *
45266817 CCCGAAGACTAACTGAAGCACATAAGTGCTAAATGGAAG
1 CCCGAAGACTAACTGAAGCACAAAAGTGCTAAACGGAAG
*
45266856 CCCGAAGGCTAACTGAAGC
1 CCCGAAGACTAACTGAAGC
45266875 TCAACAGAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.23, T:0.13
Consensus pattern (39 bp):
CCCGAAGACTAACTGAAGCACAAAAGTGCTAAACGGAAG
Found at i:45274087 original size:28 final size:27
Alignment explanation
Indices: 45274068--45274127 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
45274058 ATGGCAACCT
*
45274068 GATATGAAATGTAAGACCATGGTTGAAA
1 GATATGAAATGTAAGACCATGG-TCAAA
*
45274096 GATATGAAATGTAAGACCATGGTTGAAA
1 GATATGAAATGTAAGACCATGG-TCAAA
45274124 GATA
1 GATA
45274128 CCATGGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.25
Consensus pattern (27 bp):
GATATGAAATGTAAGACCATGGTCAAA
Found at i:45274143 original size:72 final size:74
Alignment explanation
Indices: 45274022--45274173 Score: 263
Period size: 72 Copynumber: 2.1 Consensus size: 74
45274012 TGTGCTCTTT
45274022 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-TGTAAGACC
1 GATATGAAA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAGTGTAAGACC
45274086 ATGGTTGAAA
65 ATGGTTGAAA
*
45274096 GATATGAAA-TGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAGACC
1 GATATGAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA-GTGTAAGACC
45274160 ATGGTTGAAA
65 ATGGTTGAAA
45274170 GATA
1 GATA
45274174 CCATGGCAAC
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
72 43 0.57
74 32 0.43
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (74 bp):
GATATGAAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAGTGTAAGACCA
TGGTTGAAA
Found at i:45274169 original size:46 final size:46
Alignment explanation
Indices: 45274096--45274435 Score: 499
Period size: 46 Copynumber: 7.4 Consensus size: 46
45274086 ATGGTTGAAA
*
45274096 GATATGAAATG--TAAGACCATGGTTGAAAGATACCATGGCAACTT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
** *
45274140 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
* *
45274186 GATATGAAATGAATAAGACCATGATTGAAAGATACTATGGCAACAT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
* * *
45274232 GATAGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
45274278 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
* * *
45274324 GACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGT
1 GA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
*
45274370 GACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
1 GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
* *
45274416 GACA-GAAAATGAGTAAGACC
1 GATATG-AAATGAATAAGACC
45274436 GTGGATGGGA
Statistics
Matches: 270, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
44 11 0.04
45 2 0.01
46 256 0.95
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
GATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT
Found at i:45276430 original size:17 final size:18
Alignment explanation
Indices: 45276398--45276431 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45276388 AATTTCTATC
45276398 CAATTTATACCCTAATTT
1 CAATTTATACCCTAATTT
*
45276416 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
45276432 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATACCCTAATTT
Found at i:45276886 original size:17 final size:18
Alignment explanation
Indices: 45276859--45276902 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
45276849 CCTTCATTTC
45276859 TTTCTTTTATTCCTTTA-G
1 TTTC-TTTATTCCTTTATG
*
45276877 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCCTTTATG
*
45276895 TTTATTTA
1 TTTCTTTA
45276903 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTCTTTATTCCTTTATG
Found at i:45276915 original size:23 final size:23
Alignment explanation
Indices: 45276872--45276915 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45276862 CTTTTATTCC
**
45276872 TTTAGTTTCTTTATTCTTTTATG
1 TTTAGTTTCTTTATTAATTTATG
45276895 TTTA-TTTACTTTATTAATTTA
1 TTTAGTTT-CTTTATTAATTTA
45276916 ATGATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAGTTTCTTTATTAATTTATG
Found at i:45277146 original size:19 final size:18
Alignment explanation
Indices: 45277124--45277162 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
45277114 AATTTTTCAA
45277124 ATATAATTATTACACATAT
1 ATATAATTATTAC-CATAT
**
45277143 ATATTTTTATTACCATAT
1 ATATAATTATTACCATAT
45277161 AT
1 AT
45277163 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATAATTATTACCATAT
Found at i:45277173 original size:20 final size:19
Alignment explanation
Indices: 45277130--45277166 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
45277120 TCAAATATAA
45277130 TTATTACACATATATATTT
1 TTATTACACATATATATTT
45277149 TTATTAC-CATATAT-TTT
1 TTATTACACATATATATTT
45277166 T
1 T
45277167 CTTTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTACACATATATATTT
Found at i:45277428 original size:20 final size:20
Alignment explanation
Indices: 45277382--45277429 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
45277372 AGTCCGTTTT
*
45277382 CCTAATTACTCTTAATTAAA
1 CCTAATTACACTTAATTAAA
45277402 -CTAAATT-CACTTAATTAAAA
1 CCT-AATTACACTTAATT-AAA
45277422 CCTAATTA
1 CCTAATTA
45277430 AACACACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAA
Found at i:45279710 original size:45 final size:45
Alignment explanation
Indices: 45279608--45279854 Score: 333
Period size: 45 Copynumber: 5.6 Consensus size: 45
45279598 TTTTCTCTAA
* * * *
45279608 TCACCGGCAT-TTCGCCTGCTAGGCTC-GAGGCCCG-AT-ATCATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* * ** *
45279650 TCACCGGTATTATAGCCTGCTAGGCTCGAAA-GCCTAAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTC-AAAGGCCCGAATAATATC
*
45279695 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
45279740 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
45279785 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
45279830 TCACCGGCATCATAGCCTGCTAGGC
1 TCACCGGCATCATAGCCTGCTAGGC
45279855 CCGAAGCCCG
Statistics
Matches: 184, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
42 9 0.05
43 14 0.08
44 6 0.03
45 154 0.84
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:45281722 original size:26 final size:27
Alignment explanation
Indices: 45281670--45281722 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
45281660 TTGAATTCTG
* *
45281670 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
45281697 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
45281723 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:45286681 original size:16 final size:15
Alignment explanation
Indices: 45286656--45286689 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
45286646 AATATTTTAC
*
45286656 TTTTTTTTACTAAGT
1 TTTTTTTTACTAAAT
45286671 TTTTATTTTACTAAAT
1 TTTT-TTTTACTAAAT
45286687 TTT
1 TTT
45286690 CCTTTGCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTTTTTACTAAAT
Found at i:45289508 original size:17 final size:17
Alignment explanation
Indices: 45289488--45289520 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45289478 AATAATATTA
45289488 TAATAAACA-ATAAAATG
1 TAAT-AACATATAAAATG
45289505 TAATAACATATAAAAT
1 TAATAACATATAAAAT
45289521 ATGTATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (17 bp):
TAATAACATATAAAATG
Found at i:45290007 original size:40 final size:40
Alignment explanation
Indices: 45289963--45290110 Score: 158
Period size: 40 Copynumber: 3.7 Consensus size: 40
45289953 AGCTTTAGTG
45289963 GCATTAGCGGCGCTTTTTAGAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAGAAAACGCCGCTATAGATCGA
* * ** *
45290003 GCATTAGTGGCGC-TTGTAGAAAAACGCCATTATATATCGA
1 GCATTAGCGGCGCTTTTTAG-AAAACGCCGCTATAGATCGA
*
45290043 GCATTAGCGGCGCTTTTTTA-AAAACG-CGCTATAGGTCGA
1 GCATTAGCGGCGC-TTTTTAGAAAACGCCGCTATAGATCGA
* * *
45290082 CCCATTAGCGGCTCTTTTTCAAAAAACGC
1 -GCATTAGCGGCGCTTTTT-AGAAAACGC
45290111 TGCAAAAAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
39 19 0.22
40 59 0.67
41 6 0.07
42 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAGAAAACGCCGCTATAGATCGA
Found at i:45290214 original size:25 final size:25
Alignment explanation
Indices: 45290166--45290214 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
45290156 TTGCATTAGC
**
45290166 GGCGCTTTTTGGAAAACGCCGCTAA
1 GGCGCTTTTTGGAAAACGAAGCTAA
45290191 GGCGCTTTTTGGAAAACGAAGCTA
1 GGCGCTTTTTGGAAAACGAAGCTA
45290215 TAGGTCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (25 bp):
GGCGCTTTTTGGAAAACGAAGCTAA
Found at i:45290561 original size:28 final size:28
Alignment explanation
Indices: 45290530--45290595 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
45290520 ATCATTATAG
45290530 TTTAGGGTTT-ATAGTTTAGGGTATATGA
1 TTTAGGGTTTAAT-GTTTAGGGTATATGA
*
45290558 TTTAGGGTTTAATGTTTAGGGTATATGG
1 TTTAGGGTTTAATGTTTAGGGTATATGA
*
45290586 TTTATGGTTT
1 TTTAGGGTTT
45290596 TTGGATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (28 bp):
TTTAGGGTTTAATGTTTAGGGTATATGA
Found at i:45290591 original size:7 final size:7
Alignment explanation
Indices: 45290524--45290698 Score: 79
Period size: 7 Copynumber: 24.4 Consensus size: 7
45290514 TTATTTATCA
*
45290524 TTATAGT
1 TTATGGT
*
45290531 TTAGGGT
1 TTATGGT
*
45290538 TTATAGT
1 TTATGGT
*
45290545 TTAGGGT
1 TTATGGT
* *
45290552 ATATGAT
1 TTATGGT
*
45290559 TTAGGGT
1 TTATGGT
45290566 TTAAT-GT
1 TT-ATGGT
*
45290573 TTAGGGT
1 TTATGGT
*
45290580 ATATGGT
1 TTATGGT
45290587 TTATGGT
1 TTATGGT
* *
45290594 TTTTGGA
1 TTATGGT
45290601 TTATGGGT
1 TTAT-GGT
*
45290609 TTAGTGATGA
1 TTA-TG--GT
45290619 TTATGGT
1 TTATGGT
*
45290626 TTAGGGT
1 TTATGGT
*
45290633 TTAAGGT
1 TTATGGT
45290640 TTA-GGAT
1 TTATGG-T
* *
45290647 TTAGGGG
1 TTATGGT
45290654 TTAGTGG-
1 TTA-TGGT
45290661 TTATGGGT
1 TTAT-GGT
45290669 TTATGGT
1 TTATGGT
*
45290676 TTAT-GA
1 TTATGGT
*
45290682 TTATGAT
1 TTATGGT
*
45290689 TTAGGGT
1 TTATGGT
45290696 TTA
1 TTA
45290699 GAGGATAGAG
Statistics
Matches: 124, Mismatches: 32, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
6 9 0.07
7 93 0.75
8 15 0.12
9 3 0.02
10 4 0.03
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:45291217 original size:115 final size:115
Alignment explanation
Indices: 45291067--45291328 Score: 335
Period size: 115 Copynumber: 2.3 Consensus size: 115
45291057 TTTCTTTAGC
** * ** *
45291067 GGCGTTTCCTCAAAAACATCGCAACAGGTTGTTCTTTACCAACGTTTTCAACAAAAACGCCGCAA
1 GGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCAACGTTCACAACAAAAACGCCACAA
* *
45291132 AAATGCATTAAAAGTGCAAAACGTCGTCGTTTTCCATGCTTGTTTATAGT
66 AAATGCATTAAAAGTACAAAACGTCGTCGTTTTCCATCCTTGTTTATAGT
* * * **
45291182 GGTGTTTCCTCAGAAACGCCGCAAAATGTTGTTCTTTACCGGCGTTCACAACAAAAACGCCACAA
1 GGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCAACGTTCACAACAAAAACGCCACAA
* * * ** *
45291247 AAATGCATTAAGAGTACAAAACGTTGTTGTTTTTTATCCTTGTTTTTAGT
66 AAATGCATTAAAAGTACAAAACGTCGTCGTTTTCCATCCTTGTTTATAGT
* *
45291297 GGCGTTTCCACAAAAACGCAGCAAAAGGTTGT
1 GGCGTTTCCTCAAAAACGCCGCAAAAGGTTGT
45291329 GCATTAGCGG
Statistics
Matches: 123, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
115 123 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (115 bp):
GGCGTTTCCTCAAAAACGCCGCAAAAGGTTGTTCTTTACCAACGTTCACAACAAAAACGCCACAA
AAATGCATTAAAAGTACAAAACGTCGTCGTTTTCCATCCTTGTTTATAGT
Found at i:45291441 original size:73 final size:74
Alignment explanation
Indices: 45291332--45291554 Score: 267
Period size: 74 Copynumber: 3.0 Consensus size: 74
45291322 AGGTTGTGCA
* * * * *
45291332 TTAGCGGCATTTTCGA-AAAAACGCCGCTAAGT-TGTATTAAGAGTGCAAAACGTTCG-CATTTT
1 TTAGTGGCATTTTCGACAAAAACGCTGC-AAATATGTATTAAGAGAGCAAAACG-TCGTCGTTTT
*
45291394 TATCCTT-TTT
64 TATCATTGTTT
** * *
45291404 TTAGTGGCATTTTCGACAAAAACGCTGCAAATATGTATTGTGAGAGAAAAACGACGTCGTTTTTA
1 TTAGTGGCATTTTCGACAAAAACGCTGCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTTA
45291469 TCATTGTTT
66 TCATTGTTT
* * *
45291478 TTAGTGGCGTTTTCGACATAAACG-TCGCAAATATGTATTAAGAGAGCAAAGCGTCGTCGTTTTT
1 TTAGTGGCATTTTCGACAAAAACGCT-GCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTT
45291542 ATCATTGTTT
65 ATCATTGTTT
45291552 TTA
1 TTA
45291555 CCAGCGTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
72 20 0.16
73 38 0.29
74 71 0.55
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
TTAGTGGCATTTTCGACAAAAACGCTGCAAATATGTATTAAGAGAGCAAAACGTCGTCGTTTTTA
TCATTGTTT
Found at i:45291591 original size:74 final size:74
Alignment explanation
Indices: 45291364--45291578 Score: 263
Period size: 74 Copynumber: 2.9 Consensus size: 74
45291354 GCCGCTAAGT
* * * *
45291364 TGTATTAAGAGTGCAAAACGTTCG-CATTTTTATCCTT-TTTTTAGTGGCATTTTCGACAAAAAC
1 TGTATTAAGAGAGCAAAACG-TCGTCGTTTTTATCATTGTTTTTAGTGGCGTTTTCGACAAAAAC
*
45291427 GCTGCAAATA
65 GCCGCAAATA
** * * *
45291437 TGTATTGTGAGAGAAAAACGACGTCGTTTTTATCATTGTTTTTAGTGGCGTTTTCGACATAAACG
1 TGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGCGTTTTCGACAAAAACG
*
45291502 TCGCAAATA
66 CCGCAAATA
* *** *
45291511 TGTATTAAGAGAGCAAAGCGTCGTCGTTTTTATCATTGTTTTTACCAGCGTTTTCAACAAAAACG
1 TGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGCGTTTTCGACAAAAACG
45291576 CCG
66 CCG
45291579 TAGATGTGTA
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
72 2 0.02
73 27 0.23
74 89 0.75
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (74 bp):
TGTATTAAGAGAGCAAAACGTCGTCGTTTTTATCATTGTTTTTAGTGGCGTTTTCGACAAAAACG
CCGCAAATA
Found at i:45293867 original size:9 final size:9
Alignment explanation
Indices: 45293853--45293989 Score: 86
Period size: 9 Copynumber: 15.1 Consensus size: 9
45293843 TACATGATAT
45293853 CATAACTTA
1 CATAACTTA
45293862 CATAACTTA
1 CATAACTTA
45293871 CATAA--TA
1 CATAACTTA
*
45293878 CATAA-ATA
1 CATAACTTA
* *
45293886 TATATCATATA
1 CATAAC-T-TA
45293897 -ATAACTTA
1 CATAACTTA
*
45293905 CGTAACTTA
1 CATAACTTA
45293914 CATAACATAATA
1 CATAAC-T--TA
*
45293926 CATAA-ATA
1 CATAACTTA
* * *
45293934 TATATCATA
1 CATAACTTA
*
45293943 CAATAACTTG
1 C-ATAACTTA
45293953 CATAACTTA
1 CATAACTTA
45293962 CATAACTTA
1 CATAACTTA
*
45293971 CAAAACTTA
1 CATAACTTA
*
45293980 CTTAACTTA
1 CATAACTTA
45293989 C
1 C
45293990 GTAATACATA
Statistics
Matches: 101, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
7 7 0.07
8 12 0.12
9 62 0.61
10 11 0.11
11 2 0.02
12 7 0.07
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:45293902 original size:43 final size:43
Alignment explanation
Indices: 45293849--45293966 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 43
45293839 TAAATACATG
*
45293849 ATATCATAACTTACATAACTTACATAATACATAAATATATATC
1 ATATAATAACTTACATAACTTACATAATACATAAATATATATC
*
45293892 ATATAATAACTTACGTAACTTACATAACATAATACATAAATATATATC
1 ATATAATAACTTACATAAC-T---T-ACATAATACATAAATATATATC
* *
45293940 ATACAATAACTTGCATAACTTACATAA
1 ATATAATAACTTACATAACTTACATAA
45293967 CTTACAAAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
43 23 0.35
44 2 0.03
47 2 0.03
48 38 0.58
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (43 bp):
ATATAATAACTTACATAACTTACATAATACATAAATATATATC
Found at i:45293938 original size:48 final size:48
Alignment explanation
Indices: 45293870--45293967 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
45293860 TACATAACTT
* *
45293870 ACATAATACATAAATATATATCATATAATAACTTACGTAACTTACATA
1 ACATAATACATAAATATATATCATACAATAACTTACATAACTTACATA
*
45293918 ACATAATACATAAATATATATCATACAATAACTTGCATAACTTACATA
1 ACATAATACATAAATATATATCATACAATAACTTACATAACTTACATA
45293966 AC
1 AC
45293968 TTACAAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (48 bp):
ACATAATACATAAATATATATCATACAATAACTTACATAACTTACATA
Found at i:45296967 original size:50 final size:48
Alignment explanation
Indices: 45296858--45297030 Score: 175
Period size: 50 Copynumber: 3.5 Consensus size: 48
45296848 CTGGTACGCA
* * * * *
45296858 TAGTAGCTTGCACTTACTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGA-TACACG
**
45296907 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GATACACG
* * * * * *
45296957 TAGTAGCCTGCACTTAGTACTACATACATGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATC-GATACACG
45297008 TAGTAGCCTGCACTTAGTACTAC
1 TAGTAGCCTGCACTTAGTACTAC
45297031 GCATAGTAGC
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
49 29 0.28
50 42 0.40
51 33 0.32
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGATACACG
Found at i:45297031 original size:26 final size:26
Alignment explanation
Indices: 45297002--45297056 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
45296992 AGTTATCGGG
*
45297002 TACGCATAGTAGCCTGCACTTAGTAC
1 TACGCATAGTAGCCTACACTTAGTAC
45297028 TACGCATAGTAGCCTACACTTAGTAC
1 TACGCATAGTAGCCTACACTTAGTAC
45297054 TAC
1 TAC
45297057 ACACGTGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (26 bp):
TACGCATAGTAGCCTACACTTAGTAC
Found at i:45297088 original size:77 final size:77
Alignment explanation
Indices: 45296951--45297138 Score: 283
Period size: 77 Copynumber: 2.5 Consensus size: 77
45296941 AACCATCTGA
* * *
45296951 TACACGTAGTAGCCTGCACTTAGTACTACATACATGATCGAAGTTATCGGGTACGCATAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCC
45297016 TGCACTTAGTAC
66 TGCACTTAGTAC
* * *
45297028 TACGCATAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCC
45297093 TGCACTTAGTAC
66 TGCACTTAGTAC
* *
45297105 TACACAT-G--CCCTGCACTTAGTACAACACACGTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGA
45297139 CCTCACAATA
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
74 23 0.23
76 1 0.01
77 77 0.76
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (77 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCC
TGCACTTAGTAC
Found at i:45301329 original size:13 final size:14
Alignment explanation
Indices: 45301313--45301341 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45301303 TTATAAATAT
45301313 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
45301326 TTATAATGGTTTAA
1 TTATAATGGTTTAA
45301340 TT
1 TT
45301342 CGTCGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:45302246 original size:43 final size:43
Alignment explanation
Indices: 45302179--45302316 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
45302169 GACAAAAGCT
* *
45302179 CTGCTAAAAGTCATAACTTTTAGCGATGCTTCCCCCACAAACG
1 CTGCTAAAAGCCATAACTTTTAGCGACGCTTCCCCCACAAACG
* * *
45302222 CTGCTAAAAGCCATCACTTGTAGCGGCGCTTCCCCCACAAACG
1 CTGCTAAAAGCCATAACTTTTAGCGACGCTTCCCCCACAAACG
* * * ** **
45302265 CCGCTAAAAGCCATGACTTTTAGCGGCATTTTTCCCACAAACG
1 CTGCTAAAAGCCATAACTTTTAGCGACGCTTCCCCCACAAACG
*
45302308 CCGCTAAAA
1 CTGCTAAAA
45302317 TTCGTGATCT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.22
Consensus pattern (43 bp):
CTGCTAAAAGCCATAACTTTTAGCGACGCTTCCCCCACAAACG
Found at i:45305592 original size:28 final size:28
Alignment explanation
Indices: 45305551--45305613 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
45305541 ATATAGACAT
*
45305551 TAAAAATATG-AAAATAGA-AGTAAATATA
1 TAAAAAAATGAAAAATAGATA-TAAAT-TA
* *
45305579 TAAAAAAATTAAAAATATATATAAATTA
1 TAAAAAAATGAAAAATAGATATAAATTA
45305607 TAAAAAA
1 TAAAAAA
45305614 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 17 0.57
29 12 0.40
30 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
TAAAAAAATGAAAAATAGATATAAATTA
Found at i:45305594 original size:19 final size:19
Alignment explanation
Indices: 45305572--45305622 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
45305562 AAATAGAAGT
*
45305572 AAATATATAAAAAAATTAA
1 AAATATATAAAAAAATAAA
**
45305591 AAATATATATAAATTATAAA
1 AAATATATA-AAAAAATAAA
45305611 AAAT-TATAAAAA
1 AAATATATAAAAA
45305623 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAATATATAAAAAAATAAA
Found at i:45305594 original size:29 final size:29
Alignment explanation
Indices: 45305552--45305624 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
45305542 TATAGACATT
*
45305552 AAAAATATGAAAATAGA-AGTAAATATATAA
1 AAAAATATAAAAATAGATA-TAAAT-TATAA
*
45305582 AAAAAT-TAAAAATATATATAAATTATAA
1 AAAAATATAAAAATAGATATAAATTATAA
*
45305610 AAAATTATAAAAATA
1 AAAAATATAAAAATA
45305625 AAATTTACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 10 0.26
29 21 0.55
30 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.27
Consensus pattern (29 bp):
AAAAATATAAAAATAGATATAAATTATAA
Found at i:45305856 original size:20 final size:20
Alignment explanation
Indices: 45305785--45305850 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
45305775 TTACTTGAAA
* *
45305785 TTTAAATACTTTTTTTTAATT
1 TTTAAATA-TTATTTTCAATT
*
45305806 TTTATAACA--ATTTTCAATT
1 TTTA-AATATTATTTTCAATT
* *
45305825 TTTATATATTATTTTCATTT
1 TTTAAATATTATTTTCAATT
45305845 TTTAAA
1 TTTAAA
45305851 ATTTATAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 14 0.40
21 4 0.11
22 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAAATATTATTTTCAATT
Found at i:45307519 original size:20 final size:21
Alignment explanation
Indices: 45307494--45307533 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
45307484 GTAATTAATA
45307494 ATTTTTTAAAATTT-AAAAAT
1 ATTTTTTAAAATTTCAAAAAT
*
45307514 ATTTTTTATAATTTCAAAAA
1 ATTTTTTAAAATTTCAAAAA
45307534 AAATCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTTTAAAATTTCAAAAAT
Found at i:45309316 original size:14 final size:14
Alignment explanation
Indices: 45309267--45309317 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
45309257 GTTATACAAT
45309267 ACTTAAAATTTTAAA
1 ACTT-AAATTTTAAA
*
45309282 ACTATTAA-TTTAAA
1 ACT-TAAATTTTAAA
*
45309296 TAATTAAATTTTAAA
1 -ACTTAAATTTTAAA
45309311 ACTTAAA
1 ACTTAAA
45309318 ATCTAGCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 15 0.52
15 13 0.45
16 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
ACTTAAATTTTAAA
Found at i:45324663 original size:19 final size:20
Alignment explanation
Indices: 45324621--45324669 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
45324611 TCATGCTTTC
*
45324621 TATTCACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
45324641 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
45324659 TATTCCACATT
1 TATT-CACATT
45324670 CACATTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 6 0.23
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:45325050 original size:18 final size:18
Alignment explanation
Indices: 45325029--45325065 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
45325019 ATAATTCATA
45325029 TCACTTTCAATTTCAATT
1 TCACTTTCAATTTCAATT
*
45325047 TCACTTTCACTTTCAATT
1 TCACTTTCAATTTCAATT
45325065 T
1 T
45325066 TGATCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCACTTTCAATTTCAATT
Found at i:45325054 original size:12 final size:12
Alignment explanation
Indices: 45325029--45325065 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
45325019 ATAATTCATA
45325029 TCACTTTCAATT
1 TCACTTTCAATT
* *
45325041 TCAATTTCACTT
1 TCACTTTCAATT
45325053 TCACTTTCAATT
1 TCACTTTCAATT
45325065 T
1 T
45325066 TGATCACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:45325858 original size:22 final size:20
Alignment explanation
Indices: 45325826--45325866 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
45325816 TTCTGATTCT
45325826 TTTTAGCTTTGTTTCTTTTG
1 TTTTAGCTTTGTTTCTTTTG
45325846 TTTTATGCTTTTGTTTCTTTT
1 TTTTA-GC-TTTGTTTCTTTT
45325867 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.05, C:0.10, G:0.12, T:0.73
Consensus pattern (20 bp):
TTTTAGCTTTGTTTCTTTTG
Found at i:45328025 original size:34 final size:34
Alignment explanation
Indices: 45327978--45328043 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
45327968 CAACCCATTA
*
45327978 AGATGTCATGTTATTGGAAAATTGAATAGAAATG
1 AGATGTCAGGTTATTGGAAAATTGAATAGAAATG
* *
45328012 AGATGTTAGGTTATTGGAAAGTTGAATAGAAA
1 AGATGTCAGGTTATTGGAAAATTGAATAGAAA
45328044 AGATTTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.32
Consensus pattern (34 bp):
AGATGTCAGGTTATTGGAAAATTGAATAGAAATG
Found at i:45329812 original size:21 final size:21
Alignment explanation
Indices: 45329772--45329821 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
45329762 GCAAAAAAAA
* *
45329772 CTCTAAAATTTCTCCCTAAAG
1 CTCTCAAATTTCTCACTAAAG
* *
45329793 CTCTCAAATTTCTCATTAAAT
1 CTCTCAAATTTCTCACTAAAG
*
45329814 TTCTCAAA
1 CTCTCAAA
45329822 GCTCTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (21 bp):
CTCTCAAATTTCTCACTAAAG
Found at i:45330564 original size:7 final size:7
Alignment explanation
Indices: 45330552--45330583 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
45330542 AGTCGTTTCA
45330552 TATTTAG
1 TATTTAG
45330559 TATTTAG
1 TATTTAG
45330566 TATTTAG
1 TATTTAG
45330573 TATTTAG
1 TATTTAG
45330580 TATT
1 TATT
45330584 ATGTATTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:45331106 original size:30 final size:30
Alignment explanation
Indices: 45331063--45331123 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
45331053 GCACAAACCT
*
45331063 ATTAACAGCGCCCACACAATCACCGGGCCC
1 ATTAACAGCGCCCACACAATCACCGGACCC
* * *
45331093 ATTAATAGTGCCCACACAATTACCGGACCC
1 ATTAACAGCGCCCACACAATCACCGGACCC
45331123 A
1 A
45331124 ACGCCTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.38, G:0.15, T:0.15
Consensus pattern (30 bp):
ATTAACAGCGCCCACACAATCACCGGACCC
Found at i:45331199 original size:18 final size:18
Alignment explanation
Indices: 45331176--45331218 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45331166 TGCCAAGTGC
* *
45331176 GTATCCTAGCTCTTATAT
1 GTATCCTAACCCTTATAT
45331194 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
45331212 GTTTCCT
1 GTATCCT
45331219 TTTCCCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45334954 original size:125 final size:123
Alignment explanation
Indices: 45334735--45335108 Score: 525
Period size: 126 Copynumber: 3.0 Consensus size: 123
45334725 ACTACTGTCC
* * * *
45334735 AAAAAGAGTGTCCACGTGAGAGCTTTTTTTAGAAATTTTTCTGACATTGCATCCTGCTTGAAGCA
1 AAAAAGAGCGTCCACGTGAGAGCTTTTTTAAGAAATTTTACTGACATTGCATCCTGCTTGAAGCG
* * * *
45334800 TTTTTGACACTATTTATTCAGAAACGTCTTTTCAAAATTA-TTTTTCAGGAACTATTGTA
66 TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTA--CTA
* * *
45334859 AAAACAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGATATTGCATCCTGCTTGAAGC
1 AAAA-AGAGCGTCCACGTGAGAGCTTTTTTAAGAAATTTTACTGACATTGCATCCTGCTTGAAGC
* *
45334924 GTTTTTGACACTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAAGAACTACTAA
65 GTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACT-A
* * * * *
45334984 AGGAAAAGAACATTCACGTGGGAGCTTTTTTAAGAAATTTTACTGACATTGCATTCTGCTTGAAG
1 A--AAAAGAGCGTCCACGTGAGAGCTTTTTTAAGAAATTTTACTGACATTGCATCCTGCTTGAAG
45335049 CGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTA
64 CGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTA
45335109 TAGAAAAATC
Statistics
Matches: 224, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
124 5 0.02
125 95 0.42
126 121 0.54
127 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (123 bp):
AAAAAGAGCGTCCACGTGAGAGCTTTTTTAAGAAATTTTACTGACATTGCATCCTGCTTGAAGCG
TTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAACTACTA
Found at i:45335225 original size:35 final size:34
Alignment explanation
Indices: 45335186--45335264 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 34
45335176 AAATCTACTA
45335186 AAACCCTAAACCTTAACTTATTTTAACAAAAACCT
1 AAACCCTAAACCTTAACTTATTTTAAC-AAAACCT
*
45335221 AAACCTTAAACCTTAACTTATTTTAACAAAACCT
1 AAACCCTAAACCTTAACTTATTTTAACAAAACCT
*
45335255 TAACCCTAAA
1 AAACCCTAAA
45335265 AACCCTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 15 0.37
35 26 0.63
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (34 bp):
AAACCCTAAACCTTAACTTATTTTAACAAAACCT
Found at i:45344030 original size:20 final size:20
Alignment explanation
Indices: 45344005--45344046 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45343995 ATATACATTT
45344005 AAAAAATACAAAAAATAGAA
1 AAAAAATACAAAAAATAGAA
* **
45344025 AAAAAATATAAATTATAGAA
1 AAAAAATACAAAAAATAGAA
45344045 AA
1 AA
45344047 TTTATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAAATACAAAAAATAGAA
Found at i:45358525 original size:48 final size:47
Alignment explanation
Indices: 45358430--45358754 Score: 219
Period size: 48 Copynumber: 6.9 Consensus size: 47
45358420 GTTATTGTAT
*
45358430 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA-A--ACGAGA
*
45358476 GCTAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAAACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-AAACGAGA
*
45358524 GCTAGTGTAAGA-GATGTCTGGGACAT-GCATCGGC--T--ACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAACGAGA
* *
45358565 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAA--AGT
1 -G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TAAACGAGA
* * ***
45358616 G-TCAGTGTAAGACCATGTCTGGGGCATGGCATCAGCACTGATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-T--TAAACGAGA
* * * * *** *
45358666 GCTAGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TA-AACGAGA
* *
45358715 G-TCAATGTAAGACCATGTCTGGGACATGGCATCAGCATTA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA
45358755 TACCCTATGT
Statistics
Matches: 228, Mismatches: 28, Indels: 44
0.76 0.09 0.15
Matches are distributed among these distances:
41 6 0.03
42 1 0.00
43 1 0.00
44 10 0.04
45 13 0.06
46 28 0.12
47 26 0.11
48 65 0.29
49 37 0.16
50 35 0.15
51 5 0.02
53 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAACGAGA
Found at i:45358623 original size:92 final size:93
Alignment explanation
Indices: 45358430--45358701 Score: 306
Period size: 94 Copynumber: 2.9 Consensus size: 93
45358420 GTTATTGTAT
*
45358430 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-ATTATGAGAGCTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-TATGTGAGCTAGTGTAAGACCATGT
*
45358494 ATGGGACATGGCATCGGCATTGAAACGAGA
65 CTGGGACATGGCATCGGCATTGAAAC-AGA
* * *
45358524 GCTAGTGTAAGAGATGTCTGGGACATGCATCGGCTACGAGATGTG-TC-AGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGATATGTGAGCTAGTGTAAGACCATGTC
*
45358587 TGGGACATGGCATCGGCACGTAT-AAA-AGT
66 TGGGACATGGCATCGGCA--T-TGAAACAGA
* * *
45358616 G-TCAGTGTAAGACCATGTCTGGGGCATGGCATCAGC-ACTGATATGTGAGAGCTAGTGTAAGAT
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GATATGT--GAGCTAGTGTAAGAC
*
45358679 CATGTCTGGGACATGGCGTCGGC
60 CATGTCTGGGACATGGCATCGGC
45358702 CTCGATTTTG
Statistics
Matches: 153, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
91 1 0.01
92 45 0.29
93 15 0.10
94 57 0.37
95 2 0.01
96 1 0.01
97 1 0.01
98 31 0.20
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGATATGTGAGCTAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAAACAGA
Found at i:45360617 original size:49 final size:49
Alignment explanation
Indices: 45360520--45360723 Score: 358
Period size: 49 Copynumber: 4.2 Consensus size: 49
45360510 TTTCCACTTC
* *
45360520 CATCACATTGGCCATTCGGCCTTAT--CATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
45360567 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
45360616 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
* *
45360665 CATCACATTGGCCATTCGGCCGTATCACATACACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
45360714 CATCACATTG
1 CATCACATTG
45360724 AATCCTAAAT
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 25 0.17
49 126 0.83
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
Found at i:45360620 original size:27 final size:27
Alignment explanation
Indices: 45360590--45360672 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
45360580 ATTCGGCCTT
45360590 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
45360617 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
45360639 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
45360666 ATCACAT
1 ATCACAT
45360673 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:45360759 original size:98 final size:95
Alignment explanation
Indices: 45360546--45360745 Score: 262
Period size: 98 Copynumber: 2.1 Consensus size: 95
45360536 CGGCCTTATC
* * * *
45360546 ATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTC
1 ATATAAATACACTTTCACATTCATCACATTGGCCATTCGGCCGTATCACATACACATACACTTTC
* * *
45360611 ACATTCATCACATTGGCCATTCGGCCTTATCAC
66 ACATTCATCACATTGG-CAAT--GCCTAATCAA
*
45360644 ATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCGTATCACATACACATACACTTTC
1 ATATAAATACACTTTCACATTCATCACATTGGCCATTCGGCCGTATCACATACACATACACTTTC
45360709 ACATTCATCACATT-G-AAT-CCTAAATCAAA
66 ACATTCATCACATTGGCAATGCCT-AATC-AA
45360738 ATATAAAT
1 ATATAAAT
45360746 TTTCATGTAT
Statistics
Matches: 92, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
92 3 0.03
93 3 0.03
94 8 0.09
95 2 0.02
97 1 0.01
98 75 0.82
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (95 bp):
ATATAAATACACTTTCACATTCATCACATTGGCCATTCGGCCGTATCACATACACATACACTTTC
ACATTCATCACATTGGCAATGCCTAATCAA
Found at i:45370178 original size:46 final size:48
Alignment explanation
Indices: 45370072--45370239 Score: 190
Period size: 46 Copynumber: 3.6 Consensus size: 48
45370062 AGATTATGGG
* *
45370072 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCGACATT-GAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTCGAGATGTA
* * *
45370119 GAGCTAGTGTAAGA-CATGTCTGGGATAT-GTATCGGCTTCGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGATGTA
* *
45370166 AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGATGTA
*
45370211 -GTCAGTGTAAGACCATGTCTGGGACATGG
1 AGCCAGTGTAAGACCATGTCTGGGACATGG
45370240 TATCAGCACG
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 53 0.50
47 15 0.14
48 12 0.11
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCGAGATGTA
Found at i:45370270 original size:48 final size:45
Alignment explanation
Indices: 45370124--45370283 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 45
45370114 GATGAGAGCT
* * * * * *
45370124 AGTGTAAGA-CATGTCTGGGATATGTATCGGCTTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGAGGT--GTC
* * *
45370170 AGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGAGGTGTC
*
45370214 AGTGTAAGACCATGTCTGGGACATGGTATCAGC-ACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCTACG---AGAGGTGTC
45370262 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGACCATGTCTGGGAC
45370284 TCGGGGCACG
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 43 0.43
48 30 0.30
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCTACGAGAGGTGTC
Found at i:45371723 original size:21 final size:22
Alignment explanation
Indices: 45371697--45371745 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
45371687 ATCTTATTGG
* *
45371697 TGAGTTGA-GGCAGTTTGTTGA
1 TGAGTTGAGGGCAGTCTCTTGA
*
45371718 TGAGTT-AGGGCAGTCTCTTGC
1 TGAGTTGAGGGCAGTCTCTTGA
45371739 TGAGTTG
1 TGAGTTG
45371746 GAGTAGCCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.16, C:0.10, G:0.37, T:0.37
Consensus pattern (22 bp):
TGAGTTGAGGGCAGTCTCTTGA
Found at i:45372380 original size:31 final size:31
Alignment explanation
Indices: 45372342--45372400 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
45372332 TATTTGAGTT
45372342 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCGGATCAACTCGAATAAAA
* * *
45372373 AATTAAGTTTTTCGGTTTAACTCGAATA
1 AATTAAGTTATTCGGATCAACTCGAATA
45372401 TGAATTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCGGATCAACTCGAATAAAA
Found at i:45382149 original size:20 final size:19
Alignment explanation
Indices: 45382089--45382149 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 19
45382079 CTTTGAAACA
45382089 ATTTTAAAATCAAGTGCAAATG
1 ATTTT-AAA-CAAGT-CAAATG
* *
45382111 ATTTTAACCAAGTTAAAATG
1 ATTTTAAACAAG-TCAAATG
45382131 ATTTTCAAACAAGTCAAAT
1 ATTTT-AAACAAGTCAAAT
45382150 TTGCTCTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 19 0.58
21 9 0.27
22 5 0.15
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTTTAAACAAGTCAAATG
Found at i:45384153 original size:21 final size:22
Alignment explanation
Indices: 45384129--45384169 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
45384119 GTTGATAATG
45384129 AAAAAAAGTGAG-AGAAAAATA
1 AAAAAAAGTGAGAAGAAAAATA
**
45384150 AAAAAATTTGAGAAGAAAAA
1 AAAAAAAGTGAGAAGAAAAA
45384170 AAATGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (22 bp):
AAAAAAAGTGAGAAGAAAAATA
Found at i:45384179 original size:17 final size:17
Alignment explanation
Indices: 45384128--45384180 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
45384118 GGTTGATAAT
*
45384128 GAAAAAAAGTGAGAGAAA
1 GAAAAAAAATGAGAG-AA
* **
45384146 AATAAAAAAATTTGAGAA
1 GA-AAAAAAATGAGAGAA
45384164 GAAAAAAAATGAGAGAA
1 GAAAAAAAATGAGAGAA
45384181 AAGGATATCA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 13 0.48
18 4 0.15
19 10 0.37
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (17 bp):
GAAAAAAAATGAGAGAA
Found at i:45386022 original size:32 final size:32
Alignment explanation
Indices: 45385981--45386044 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
45385971 CATAGTTTCA
*
45385981 AATTCATGCACTTGAGAAGCTCCTAGAATATT
1 AATTCATGCAATTGAGAAGCTCCTAGAATATT
45386013 AATTCATGCAATTGAGAAGCTCCTAGAATATT
1 AATTCATGCAATTGAGAAGCTCCTAGAATATT
45386045 CAAGAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (32 bp):
AATTCATGCAATTGAGAAGCTCCTAGAATATT
Found at i:45386470 original size:21 final size:22
Alignment explanation
Indices: 45386446--45386497 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
45386436 TGAACAGAAT
*
45386446 TTTAATGCTTTGTGTGAACAC-
1 TTTAATGCTTAGTGTGAACACA
45386467 TTTAATTG-TTAGTGTGAACACA
1 TTTAA-TGCTTAGTGTGAACACA
45386489 TTTAGATGC
1 TTTA-ATGC
45386498 AAAATTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 17 0.65
22 8 0.31
23 1 0.04
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (22 bp):
TTTAATGCTTAGTGTGAACACA
Found at i:45387049 original size:15 final size:15
Alignment explanation
Indices: 45387031--45387060 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45387021 AACCCTAATC
*
45387031 CTATTAGACACATCA
1 CTATCAGACACATCA
45387046 CTATCAGACACATCA
1 CTATCAGACACATCA
45387061 AAACCAGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:45388974 original size:18 final size:18
Alignment explanation
Indices: 45388951--45388986 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45388941 TAACATATAA
45388951 AAGTATATAATACATACC
1 AAGTATATAATACATACC
45388969 AAGTATATAATACATACC
1 AAGTATATAATACATACC
45388987 TGACCAACTT
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:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:45389183 original size:39 final size:39
Alignment explanation
Indices: 45389119--45389352 Score: 310
Period size: 39 Copynumber: 6.0 Consensus size: 39
45389109 AGAAAGCATG
* * *
45389119 CGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT
* * * *
45389159 CGGGACTTTAGCCCGAATATAATACCAGCATAAATACCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTT
* *
45389199 CGGGACTTAGCCCGGATATAACACTAACACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
45389238 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* *
45389277 CAGGACTTAGCCCGGATATAACACCAACACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* *
45389316 CGGGACTTAGCCCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCT
45389353 GCAGACCTCA
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.02
39 154 0.88
40 18 0.10
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
Found at i:45392586 original size:21 final size:21
Alignment explanation
Indices: 45392562--45392602 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45392552 CAACATGGCA
45392562 AGTTAACCGGCCACATTAGCT
1 AGTTAACCGGCCACATTAGCT
**
45392583 AGTTAACTTGCCACATTAGC
1 AGTTAACCGGCCACATTAGC
45392603 GGTCCCATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (21 bp):
AGTTAACCGGCCACATTAGCT
Found at i:45392681 original size:31 final size:30
Alignment explanation
Indices: 45392637--45392706 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
45392627 AATGTTAATA
*
45392637 AGTGACTGATTTGTCACTTTTTGATAATGTT-
1 AGTGATTGATTTGTCACTTTTTGA-AA-GTTG
* * *
45392668 AGTGATTGTTTTGTTATTTTTTGAAAGTTG
1 AGTGATTGATTTGTCACTTTTTGAAAGTTG
45392698 AGTGATTGA
1 AGTGATTGA
45392707 ATTGAAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 10 0.30
31 20 0.61
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (30 bp):
AGTGATTGATTTGTCACTTTTTGAAAGTTG
Found at i:45394190 original size:22 final size:23
Alignment explanation
Indices: 45394165--45394214 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
45394155 ATCTATAGTG
*
45394165 GAGTAAGGC-AGGTGATAGAGCA
1 GAGTAAGACAAGGTGATAGAGCA
**
45394187 GAGTGTGACAAAGGTGATAGAGCA
1 GAGTAAGAC-AAGGTGATAGAGCA
45394211 GAGT
1 GAGT
45394215 GTGACAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
24 17 0.74
ACGTcount: A:0.36, C:0.08, G:0.40, T:0.16
Consensus pattern (23 bp):
GAGTAAGACAAGGTGATAGAGCA
Found at i:45394201 original size:24 final size:24
Alignment explanation
Indices: 45394174--45394221 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45394164 GGAGTAAGGC
45394174 AGGTGATAGAGCAGAGTGTGACAA
1 AGGTGATAGAGCAGAGTGTGACAA
45394198 AGGTGATAGAGCAGAGTGTGACAA
1 AGGTGATAGAGCAGAGTGTGACAA
45394222 CTATGGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.38, T:0.17
Consensus pattern (24 bp):
AGGTGATAGAGCAGAGTGTGACAA
Found at i:45400035 original size:15 final size:15
Alignment explanation
Indices: 45400015--45400043 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45400005 AGGCATCCCA
45400015 CCTATTTTTAAGTTG
1 CCTATTTTTAAGTTG
45400030 CCTATTTTTAAGTT
1 CCTATTTTTAAGTT
45400044 ATCTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (15 bp):
CCTATTTTTAAGTTG
Found at i:45410099 original size:20 final size:21
Alignment explanation
Indices: 45410070--45410118 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
45410060 ACTTTTTTAT
*
45410070 CCTA-AATCTCAAACCCCAAA
1 CCTATAATCTCAAACACCAAA
45410090 CCT-TAATCTCAAACACCAAA
1 CCTATAATCTCAAACACCAAA
45410110 CCTATAATC
1 CCTATAATC
45410119 ATGAACCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTATAATCTCAAACACCAAA
Found at i:45412402 original size:18 final size:17
Alignment explanation
Indices: 45412370--45412403 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45412360 AAATTTTTAA
*
45412370 AAATTTAAAAAAAATCT
1 AAATTAAAAAAAAATCT
45412387 AAATTAAAAGAAAAATC
1 AAATTAAAA-AAAAATC
45412404 ACAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATTAAAAAAAAATCT
Found at i:45415118 original size:26 final size:24
Alignment explanation
Indices: 45415088--45415137 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
45415078 AAATAAAAAA
*
45415088 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
45415114 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
45415138 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:45415157 original size:21 final size:20
Alignment explanation
Indices: 45415116--45415167 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
45415106 TCAAATATAT
* *
45415116 TTAAAAACATAAAAACAAATA
1 TTAAAAAAATAAAAA-TAATA
45415137 TTAAAACAAATAAAAATAATA
1 TTAAAA-AAATAAAAATAATA
*
45415158 CTAAAAAAAT
1 TTAAAAAAAT
45415168 TCTTAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAAAAATAAAAATAATA
Found at i:45415243 original size:15 final size:16
Alignment explanation
Indices: 45415213--45415245 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45415203 AAATGGTTAT
45415213 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
45415230 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
45415245 A
1 A
45415246 ATATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:45415704 original size:23 final size:23
Alignment explanation
Indices: 45415678--45415722 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
45415668 TGGGTATGTG
*
45415678 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
45415701 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
45415723 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:45420699 original size:24 final size:24
Alignment explanation
Indices: 45420663--45420708 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45420653 CTGCTTATGT
* * *
45420663 ATATATGCGTGCCTTATCTTTCAC
1 ATATATACATGCCTTACCTTTCAC
45420687 ATATATACATGCCTTACCTTTC
1 ATATATACATGCCTTACCTTTC
45420709 TCATTTGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (24 bp):
ATATATACATGCCTTACCTTTCAC
Found at i:45421651 original size:12 final size:11
Alignment explanation
Indices: 45421607--45421660 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
45421597 AATTATCAAT
45421607 AATTTTTTATA
1 AATTTTTTATA
*
45421618 ATATTTTTAATA
1 A-ATTTTTTATA
45421630 AATATTTTTATA
1 AAT-TTTTTATA
45421642 TAA-TTTTT-TA
1 -AATTTTTTATA
45421652 AATTTTTTA
1 AATTTTTTA
45421661 CCTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
9 2 0.06
10 7 0.19
11 8 0.22
12 17 0.47
13 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTTTTATA
Found at i:45421657 original size:9 final size:10
Alignment explanation
Indices: 45421605--45421660 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 10
45421595 AAAATTATCA
45421605 ATAATTTTTT
1 ATAATTTTTT
45421615 ATAATATTTTT
1 ATAAT-TTTTT
45421626 AATAAATATTTTTAT
1 -AT--A-ATTTTT-T
45421641 ATAATTTTTT
1 ATAATTTTTT
45421651 A-AATTTTTT
1 ATAATTTTTT
45421660 A
1 A
45421661 CCTTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
9 9 0.22
10 7 0.17
11 11 0.28
12 3 0.08
14 7 0.17
15 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:45423709 original size:16 final size:16
Alignment explanation
Indices: 45423688--45423719 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45423678 TCAGTGTTAT
*
45423688 TAAAACTCAATTTAAA
1 TAAAACTCAATCTAAA
45423704 TAAAACTCAATCTAAA
1 TAAAACTCAATCTAAA
45423720 GGTTATTTTT
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAACTCAATCTAAA
Found at i:45423999 original size:22 final size:24
Alignment explanation
Indices: 45423974--45424053 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 24
45423964 TGGGAGATTT
45423974 ATAAATAAATAT-ACTAAA-AATA
1 ATAAATAAATATAACTAAATAATA
* *
45423996 ATAATTTAAATATAATTAAATAATA
1 ATAA-ATAAATATAACTAAATAATA
* * *
45424021 ATGAATAACTATTATAAATAAATATTA
1 ATAAATAA--A-TATAACTAAATAATA
45424048 ATAAAT
1 ATAAAT
45424054 TTCAAATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 4 0.09
23 7 0.16
24 8 0.18
25 7 0.16
26 1 0.02
27 18 0.40
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (24 bp):
ATAAATAAATATAACTAAATAATA
Found at i:45424010 original size:11 final size:12
Alignment explanation
Indices: 45423991--45424022 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
45423981 AATATACTAA
45423991 AAATAATAATTT
1 AAATAATAATTT
45424003 AAAT-ATAA-TT
1 AAATAATAATTT
45424013 AAATAATAAT
1 AAATAATAAT
45424023 GAATAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATAATTT
Found at i:45424046 original size:13 final size:14
Alignment explanation
Indices: 45424007--45424053 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
45423997 TAATTTAAAT
* *
45424007 ATAATTAAATAATA
1 ATAAATAAATATTA
* *
45424021 ATGAATAACTATT-
1 ATAAATAAATATTA
45424034 ATAAATAAATATTA
1 ATAAATAAATATTA
45424048 ATAAAT
1 ATAAAT
45424054 TTCAAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
ATAAATAAATATTA
Found at i:45424191 original size:20 final size:19
Alignment explanation
Indices: 45424162--45424199 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
45424152 AATAAAGTTA
45424162 TTTTTATTTTTATATTTTC
1 TTTTTATTTTTATATTTTC
*
45424181 TTTTCTATTTTTTTATTTT
1 TTTT-TATTTTTATATTTT
45424200 ATTTAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTATATTTTC
Found at i:45425071 original size:17 final size:19
Alignment explanation
Indices: 45425030--45425075 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
45425020 TTTCCTCATA
*
45425030 ATTTTAATATGCTTCTAGC
1 ATTTTAATATCCTTCTAGC
*
45425049 ATTTTAA-ATCCTTC-AGG
1 ATTTTAATATCCTTCTAGC
45425066 ATTTTAATAT
1 ATTTTAATAT
45425076 ACACTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 8 0.33
19 7 0.29
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (19 bp):
ATTTTAATATCCTTCTAGC
Found at i:45432617 original size:19 final size:18
Alignment explanation
Indices: 45432593--45432636 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
45432583 GCCTCTTTCA
*
45432593 AAATAAAAATAATTAAAAT
1 AAATAAAAATAAAT-AAAT
*
45432612 AAATAAAAATAAATGAAT
1 AAATAAAAATAAATAAAT
45432630 AAATAAA
1 AAATAAA
45432637 TATTTAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAAAATAAATAAAT
Found at i:45432620 original size:10 final size:10
Alignment explanation
Indices: 45432593--45432638 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
45432583 GCCTCTTTCA
45432593 AAATAAAAAT
1 AAATAAAAAT
*
45432603 -AATTAAAAT
1 AAATAAAAAT
45432612 AAATAAAAAT
1 AAATAAAAAT
45432622 AAATGAATAAAT
1 AAAT-AA-AAAT
45432634 AAATA
1 AAATA
45432639 TTTAGACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.26
10 12 0.39
11 3 0.10
12 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:45435082 original size:54 final size:54
Alignment explanation
Indices: 45435010--45435117 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
45435000 TTACACATTC
45435010 TAATGAATGTGAATTATATATATACTATACTATTATAAATATTTAATTTACTAA
1 TAATGAATGTGAATTATATATATACTATACTATTATAAATATTTAATTTACTAA
45435064 TAATGAATGTGAATTATATATATACTATACTATTATAAATATTTAATTTACTAA
1 TAATGAATGTGAATTATATATATACTATACTATTATAAATATTTAATTTACTAA
45435118 CAATTTAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (54 bp):
TAATGAATGTGAATTATATATATACTATACTATTATAAATATTTAATTTACTAA
Found at i:45439727 original size:6 final size:6
Alignment explanation
Indices: 45439716--45439742 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
45439706 TAGGTTTGAT
45439716 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
45439743 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:45439772 original size:21 final size:20
Alignment explanation
Indices: 45439731--45439772 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45439721 AAAATAAAAA
*
45439731 TAAAAATAAAAAATTTATTT
1 TAAAAATAAAAAATATATTT
*
45439751 TAAATAATAAAAAATATGTTT
1 TAAA-AATAAAAAATATATTT
45439772 T
1 T
45439773 TTTAACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATAAAAAATATATTT
Found at i:45440362 original size:14 final size:14
Alignment explanation
Indices: 45440343--45440376 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45440333 CTATCATTTC
45440343 ACTATTATATTGTT
1 ACTATTATATTGTT
*
45440357 ACTATTATGTTGTT
1 ACTATTATATTGTT
*
45440371 ATTATT
1 ACTATT
45440377 CAGATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (14 bp):
ACTATTATATTGTT
Found at i:45442094 original size:154 final size:154
Alignment explanation
Indices: 45441813--45442205 Score: 504
Period size: 154 Copynumber: 2.5 Consensus size: 154
45441803 AAAGGGGACT
* * * * * *
45441813 ATTAGCGGCGGTT-TTGTAAAAATGCCGCAAAAGTGTTGAGGAAAACGACGCCGTGTATTGGTAA
1 ATTAGCGGCGGTTGTT-TAAAAACGCCACAAAAGTTTTGA-GAAAACGACGTCGTGCATTGGTGA
* * * * *
45441877 GCTATATAGGCATTAGCGGCGCTTCCTGAAAACGCCGCAATATATCGAGAATTAGCGGTGTTTTT
64 GCTATAGAGGCATTAGCGGCACTTCCTGAAAACACAGCAATATATCGAGAATTAGCGGCGTTTTT
* *
45441942 TCTAAAACGCCACAATAGGTGAAGC-
129 CCTAAAACGCCACAAAAGGTGAAGCA
* *
45441967 ATTAGTGGCGGTTGTTTAAAAACGCTACAAAAGTTTTGAGAAATACGACGTCGTGCATTGGTGAG
1 ATTAGCGGCGGTTGTTTAAAAACGCCACAAAAGTTTTGAGAAA-ACGACGTCGTGCATTGGTGAG
* * *
45442032 CTATAGAGGCTTTAGCGGCACTTCCTGTAAACACAGCAATATATCGAGAATTAGTGGCGTTTTTC
65 CTATAGAGGCATTAGCGGCACTTCCTGAAAACACAGCAATATATCGAGAATTAGCGGCGTTTTTC
*
45442097 CTGAAACGCCACAAAAGGTGAAGCA
130 CTAAAACGCCACAAAAGGTGAAGCA
* * * *
45442122 AATAGCGGCGGCTGTTTAAAAACGCCACAAAAGTTTTGAGCAAAACAACGTCGT-CTTTTGGTGA
1 ATTAGCGGCGGTTGTTTAAAAACGCCACAAAAGTTTTGAG-AAAACGACGTCGTGC-ATTGGTGA
*
45442186 GCTATAGGGGCATTAGCGGC
64 GCTATAGAGGCATTAGCGGC
45442206 GTTTTTTCTG
Statistics
Matches: 207, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
153 4 0.02
154 128 0.62
155 72 0.35
156 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (154 bp):
ATTAGCGGCGGTTGTTTAAAAACGCCACAAAAGTTTTGAGAAAACGACGTCGTGCATTGGTGAGC
TATAGAGGCATTAGCGGCACTTCCTGAAAACACAGCAATATATCGAGAATTAGCGGCGTTTTTCC
TAAAACGCCACAAAAGGTGAAGCA
Found at i:45442945 original size:34 final size:33
Alignment explanation
Indices: 45442907--45442974 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
45442897 AGCGATTTTG
*
45442907 GGGTTTAAAGTTTGGGGATAT-GGTTTAGGATTTA
1 GGGTTTAAAGTTTAGGG-T-TGGGTTTAGGATTTA
* *
45442941 GGGTTTATAGTTTAGGGTTGGGTTTAGGGTTTA
1 GGGTTTAAAGTTTAGGGTTGGGTTTAGGATTTA
45442974 G
1 G
45442975 AGTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 14 0.47
34 15 0.50
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (33 bp):
GGGTTTAAAGTTTAGGGTTGGGTTTAGGATTTA
Found at i:45442970 original size:7 final size:7
Alignment explanation
Indices: 45442928--45442974 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
45442918 TTGGGGATAT
45442928 GGTTTAG
1 GGTTTAG
*
45442935 GATTTAG
1 GGTTTAG
*
45442942 GGTTTAT
1 GGTTTAG
*
45442949 AGTTTAG
1 GGTTTAG
45442956 GG-TT-G
1 GGTTTAG
45442961 GGTTTAG
1 GGTTTAG
45442968 GGTTTAG
1 GGTTTAG
45442975 AGTATAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
5 3 0.09
6 4 0.12
7 25 0.78
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:45443020 original size:15 final size:15
Alignment explanation
Indices: 45443000--45443031 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45442990 TTTAATTTAG
45443000 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
45443015 AAGATAAATATATAT
1 AAGATAAATATAAAT
45443030 AA
1 AA
45443032 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:45443904 original size:45 final size:44
Alignment explanation
Indices: 45443855--45443950 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
45443845 CCTCCCCTAA
*
45443855 TTCCCCAAACCCGAAATCTCTAACATTTTCCCCAAATCCCATCTT
1 TTCCCCAAACCC-AAATCCCTAACATTTTCCCCAAATCCCATCTT
* ** ** *
45443900 TTCCCCATAGTCATTTCCCTAACATTTTCCCCAAATCCCCTCTT
1 TTCCCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCATCTT
45443944 TTCCCCA
1 TTCCCCA
45443951 TATTTTTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.24, C:0.42, G:0.02, T:0.32
Consensus pattern (44 bp):
TTCCCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCATCTT
Found at i:45446476 original size:16 final size:16
Alignment explanation
Indices: 45446455--45446488 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45446445 TTAGCTCATC
45446455 TTGGTAAGATTGTTAA
1 TTGGTAAGATTGTTAA
*
45446471 TTGGTATGATTGTTAA
1 TTGGTAAGATTGTTAA
45446487 TT
1 TT
45446489 TGTAGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
TTGGTAAGATTGTTAA
Found at i:45447663 original size:209 final size:209
Alignment explanation
Indices: 45447303--45447879 Score: 1064
Period size: 214 Copynumber: 2.7 Consensus size: 209
45447293 CTTTTTTGGA
45447303 AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
1 AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
45447368 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
66 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
45447433 ATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATTTTATTTGATT
131 ATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATTTTATTTGATT
45447498 TTAATTTAATCACT
196 TTAATTTAATCACT
45447512 AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
1 AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
*
45447577 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCATGAAAAATATTGTCTACTTTTATTTT
66 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
* *
45447642 ATTTTTAAATTACTTAATTAAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAGTATTTTATT
131 ATTTTTAAATTAC----CT-AATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATTTTATT
45447707 TGATTTTAATTTAATCACT
191 TGATTTTAATTTAATCACT
* *
45447726 AAAAATATTTTATCTACTTTTATTTTAATTTTTAAATTATATAATTAAATTAAATTGTATTTAAA
1 AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
45447791 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
66 GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
45447856 ATTTTTAAATTACCTAATTAAATT
131 ATTTTTAAATTACCTAATTAAATT
45447880 GTATTTAGCA
Statistics
Matches: 356, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
209 151 0.42
210 1 0.00
213 1 0.00
214 203 0.57
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.56
Consensus pattern (209 bp):
AAAAATATTTTGTCTACTTTTATTTTAATTTTTAAATTATCTAATTAAATTAAATTGTATTTAAA
GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTGTCTACTTTTATTTT
ATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATTTTATTTGATT
TTAATTTAATCACT
Found at i:45448090 original size:9 final size:9
Alignment explanation
Indices: 45448025--45448284 Score: 99
Period size: 9 Copynumber: 28.0 Consensus size: 9
45448015 ATATCATATC
45448025 TTACATAAT
1 TTACATAAT
* *
45448034 TTACATTAC
1 TTACATAAT
45448043 TTACATAA-
1 TTACATAAT
45448051 -TACATAAAT
1 TTACAT-AAT
*
45448060 ATATATATCATAT
1 -T-TACAT-A-AT
45448073 CTTACATAAT
1 -TTACATAAT
*
45448083 TTACATAAG
1 TTACATAAT
* * * *
45448092 ATAAACAAC
1 TTACATAAT
45448101 TTACATAAT
1 TTACATAAT
*
45448110 TTACATAAC
1 TTACATAAT
45448119 TTACATAA-
1 TTACATAAT
45448127 -TACATAAAT
1 TTACAT-AAT
45448136 ATATATCAT-AT
1 -T-TA-CATAAT
45448147 CTTACATAAT
1 -TTACATAAT
45448157 TTACATAA-
1 TTACATAAT
* * *
45448165 -GACGAACAAC
1 TTAC--ATAAT
*
45448175 TTGCATAAT
1 TTACATAAT
45448184 TTACATAAT
1 TTACATAAT
*
45448193 TTGCATAA-
1 TTACATAAT
45448201 -TACATAGAT
1 TTACATA-AT
45448210 ATATATCAT-AT
1 -T-TA-CATAAT
*
45448221 CGTACATAAT
1 -TTACATAAT
45448231 TTACATAAT
1 TTACATAAT
* * *
45448240 TCAGATAAC
1 TTACATAAT
*
45448249 TTACATAAC
1 TTACATAAT
45448258 TTACATAAT
1 TTACATAAT
* *
45448267 TTACGTAAC
1 TTACATAAT
45448276 TTACATAAT
1 TTACATAAT
45448285 ACATAAATAT
Statistics
Matches: 187, Mismatches: 40, Indels: 48
0.68 0.15 0.17
Matches are distributed among these distances:
7 17 0.09
8 5 0.03
9 126 0.67
10 10 0.05
11 7 0.04
12 13 0.07
13 9 0.05
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (9 bp):
TTACATAAT
Found at i:45448119 original size:18 final size:18
Alignment explanation
Indices: 45448019--45448284 Score: 124
Period size: 18 Copynumber: 14.8 Consensus size: 18
45448009 AAATATATAT
*
45448019 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
*
45448037 CATTACTTACATAA--TA
1 CATAACTTACATAATTTA
* * *
45448053 CATAA-ATATAT-ATAT-
1 CATAACTTACATAATTTA
*
45448068 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
** * * *
45448086 CATAAGATAAACAACTTA
1 CATAACTTACATAATTTA
* *
45448104 CATAATTTACATAACTTA
1 CATAACTTACATAATTTA
45448122 CATAA--TACATAAATATATA
1 CATAACTTACAT-AAT-T-TA
*
45448141 TCATATCTTACATAATTTA
1 -CATAACTTACATAATTTA
* * * *
45448160 CATAA--GACGAACAACTTG
1 CATAACTTAC--ATAATTTA
* *
45448178 CATAATTTACATAATTTG
1 CATAACTTACATAATTTA
45448196 CATAA--TACATAGATATATA
1 CATAACTTACATA-AT-T-TA
* *
45448215 TCATATCGTACATAATTTA
1 -CATAACTTACATAATTTA
* *
45448234 CATAA-TTCAGATAACTTA
1 CATAACTT-ACATAATTTA
45448252 CATAACTTACATAATTTA
1 CATAACTTACATAATTTA
*
45448270 CGTAACTTACATAAT
1 CATAACTTACATAAT
45448285 ACATAAATAT
Statistics
Matches: 187, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
14 1 0.01
15 8 0.04
16 24 0.13
17 8 0.04
18 109 0.58
19 9 0.05
20 12 0.06
21 5 0.03
22 11 0.06
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (18 bp):
CATAACTTACATAATTTA
Found at i:45448176 original size:74 final size:74
Alignment explanation
Indices: 45448024--45448304 Score: 373
Period size: 74 Copynumber: 3.6 Consensus size: 74
45448014 TATATCATAT
*
45448024 CTTACATAATTTACATTACTTACATAATACATAAATATATATATCATATCTTACATAATTTACAT
1 CTTACATAATTTACATAACTTACATAATACAT-AA-ATATATATCATATCTTACATAATTTACAT
*
45448089 AAGATAAACAA
64 AAGACAAACAA
45448100 CTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTACATAA
*
45448165 GACGAACAA
66 GACAAACAA
* * * * *
45448174 CTTGCATAATTTACATAATTTGCATAATACATAGATATATATCATATCGTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTACAT-A
*
45448239 TTCAGATAACTTACATAA
65 ---AGACAA---AC--AA
*
45448257 CTTACATAATTTACGTAACTTACATAATACATAAATATATATCATATC
1 CTTACATAATTTACATAACTTACATAATACATAAATATATATCATATC
45448305 ATAACTTACA
Statistics
Matches: 181, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
74 96 0.53
75 3 0.02
76 31 0.17
78 4 0.02
81 2 0.01
83 45 0.25
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (74 bp):
CTTACATAATTTACATAACTTACATAATACATAAATATATATCATATCTTACATAATTTACATAA
GACAAACAA
Found at i:45453388 original size:13 final size:14
Alignment explanation
Indices: 45453372--45453400 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45453362 TTCTAAATAT
45453372 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
45453385 TTATAATTGTTTAA
1 TTATAATTGTTTAA
45453399 TT
1 TT
45453401 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:45454114 original size:33 final size:33
Alignment explanation
Indices: 45454077--45454156 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 33
45454067 AGAATTAATG
45454077 TTTTTGGTTGTATTTTTTATGCTAAATTTGCTA
1 TTTTTGGTTGTATTTTTTATGCTAAATTTGCTA
* * * *
45454110 TTTTTGGCTGTA--TTTTATGCTATATTTGTTG
1 TTTTTGGTTGTATTTTTTATGCTAAATTTGCTA
* *
45454141 TATTTGGTTGGATTTT
1 TTTTTGGTTGTATTTT
45454157 AATGCAAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 25 0.66
33 13 0.34
ACGTcount: A:0.15, C:0.05, G:0.19, T:0.61
Consensus pattern (33 bp):
TTTTTGGTTGTATTTTTTATGCTAAATTTGCTA
Found at i:45454130 original size:22 final size:21
Alignment explanation
Indices: 45454105--45454145 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
45454095 ATGCTAAATT
*
45454105 TGCTATTTTTGGCTGTATTTTA
1 TGCTATATTT-GCTGTATTTTA
*
45454127 TGCTATATTTGTTGTATTT
1 TGCTATATTTGCTGTATTT
45454146 GGTTGGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.61
Consensus pattern (21 bp):
TGCTATATTTGCTGTATTTTA
Found at i:45455349 original size:21 final size:21
Alignment explanation
Indices: 45455325--45455377 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45455315 CATTGTTTCT
*
45455325 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
** *
45455346 AATCTCACCATTACAGTAACT
1 AATCTCACCGCTACAGTAACC
45455367 AATCTCACCGC
1 AATCTCACCGC
45455378 CACCGCTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:45457514 original size:19 final size:18
Alignment explanation
Indices: 45457475--45457517 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
45457465 CTTTATTATG
45457475 TTTTTGTATTTCAGCATA
1 TTTTTGTATTTCAGCATA
*
45457493 TTTTATGTATTTTAGC-TAA
1 TTTT-TGTATTTCAGCAT-A
45457512 TTTTTG
1 TTTTTG
45457518 AATCATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTTCAGCATA
Found at i:45457706 original size:68 final size:64
Alignment explanation
Indices: 45457596--45457847 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
45457586 ATACAGATGG
** * * *
45457596 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
45457659 ATTA
62 A-TA
* *
45457663 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
45457728 TATGTAGCTAGGTCGCAT-CGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
45457792 TA
63 TA
* * *
45457794 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
45457848 CAAAATTATG
Statistics
Matches: 152, Mismatches: 24, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 25 0.16
64 17 0.11
65 16 0.11
66 39 0.26
67 4 0.03
68 49 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:45460382 original size:22 final size:21
Alignment explanation
Indices: 45460333--45460382 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
45460323 GACTGTAAAA
45460333 ATATGAAATTCGATTATTTGTT
1 ATAT-AAATTCGATTATTTGTT
45460355 AGTATAAATTCTGA-TATTTGTT
1 A-TATAAATTC-GATTATTTGTT
45460377 CATATA
1 -ATATA
45460383 TTTAAGACGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
ATATAAATTCGATTATTTGTT
Found at i:45462819 original size:93 final size:93
Alignment explanation
Indices: 45462660--45462831 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45462650 GGATGGTTGA
* * *
45462660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45462725 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45462753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
45462818 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
45462832 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45462836 original size:46 final size:46
Alignment explanation
Indices: 45462664--45462838 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
45462654 GGTTGAGCAT
* * * *
45462664 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* *
45462710 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC
45462755 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
* * *
45462803 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45462839 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 61 0.56
47 28 0.26
48 4 0.04
50 5 0.05
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
Found at i:45465338 original size:40 final size:40
Alignment explanation
Indices: 45465229--45465420 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 40
45465219 CGTTTCATGA
45465229 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
* * * *
45465269 AATGCACATACGTGGCCCTTTTTTGTACTTC-AGTACCCTTT
1 AATGCACATACGT-GCCCCTGTTTGTACTTCGA-TACCCCTG
* * *
45465310 AATACACATACGTGCCCTTGTTTGTACTTTGATACCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
* * *
45465350 AATGTACATACGTGCCCCTATTTGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
* * * *
45465390 AATGTACACACGTGCCCCAGTTTCTACTTCG
1 AATGCACATACGTGCCCCTGTTTGTACTTCG
45465421 GTAATCTTGA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 96 0.74
41 34 0.26
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTG
Found at i:45466369 original size:54 final size:54
Alignment explanation
Indices: 45466310--45466442 Score: 131
Period size: 54 Copynumber: 2.5 Consensus size: 54
45466300 TGACACGACT
* * * * * *
45466310 GTGTGTATTGAGTCAGTGAGTTACACAACCTGGCACATGGGCTGCGACACAGCC
1 GTGTGTATTAAGTCAGAGAGTTACACAACCTGGAACACGAGCAGCGACACAGCC
* * * ** * * *
45466364 GTGTGTATCAAGTCAGCGAGTTTCACGGCCTGGAACACGATCAGTGACACGGCC
1 GTGTGTATTAAGTCAGAGAGTTACACAACCTGGAACACGAGCAGCGACACAGCC
*
45466418 GTGTGTATTTAGTCAGAGAGTTACA
1 GTGTGTATTAAGTCAGAGAGTTACA
45466443 TGGGTAGAGA
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (54 bp):
GTGTGTATTAAGTCAGAGAGTTACACAACCTGGAACACGAGCAGCGACACAGCC
Found at i:45472791 original size:38 final size:38
Alignment explanation
Indices: 45472730--45472842 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
45472720 ATTTGATGTG
* *
45472730 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGTAAAA
**
45472770 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAAA
* * * *
45472808 TATCAGGGATAAATCCCGCAGGCCTAATGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
45472843 TTATATTTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAAA
Found at i:45472892 original size:43 final size:43
Alignment explanation
Indices: 45472846--45473129 Score: 451
Period size: 43 Copynumber: 6.6 Consensus size: 43
45472836 GCTGGTATTA
* * *
45472846 TATTTGGGCCTTCGTGCGTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
45472889 TATTCGGGCCTTCGTGCCTAGTAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
45472932 TATTCGGGACTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
45472975 TATTCGGGCCTTCGTGCGTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
45473018 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
45473061 TATTCGGGCCTTCGTGCCTAGTAGTCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
45473104 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
45473130 GTAATGCCGG
Statistics
Matches: 219, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 219 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:45478505 original size:38 final size:38
Alignment explanation
Indices: 45478462--45478554 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 38
45478452 TAAAGACCCG
* *
45478462 CAGGCTTCGTGCTGGTAAAATATCCGAGTTAAATCCCA
1 CAGGCTTCGTGCTGGTAAAATATCAGAGATAAATCCCA
** * *
45478500 CAGGCTTCGTGCTGGTATTATATCAGGGATAAATCCTA
1 CAGGCTTCGTGCTGGTAAAATATCAGAGATAAATCCCA
* *
45478538 CAGGCCTAGTGCTGGTA
1 CAGGCTTCGTGCTGGTA
45478555 TTATATTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTAAAATATCAGAGATAAATCCCA
Found at i:45478768 original size:43 final size:43
Alignment explanation
Indices: 45478558--45478755 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
45478548 GCTGGTATTA
* *
45478558 TATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
45478601 TATTCGGGCATTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
45478644 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
45478687 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
45478730 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
45478756 GTAATGCCGG
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:45505271 original size:23 final size:22
Alignment explanation
Indices: 45505245--45505287 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45505235 TACCCATACC
* *
45505245 ATTACTATGCTCATTCTCATGCT
1 ATTACCATGCT-AATCTCATGCT
45505268 ATTACCATGCTAATCTCATG
1 ATTACCATGCTAATCTCATG
45505288 AATTTATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (22 bp):
ATTACCATGCTAATCTCATGCT
Found at i:45510845 original size:40 final size:40
Alignment explanation
Indices: 45510742--45510918 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
45510732 CGGATGATAA
* *
45510742 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
45510782 CCGGGCTAAG-CCCGAAGGCATTTGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45510821 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45510861 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45510901 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45510919 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 50 0.40
40 74 0.60
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45510907 original size:79 final size:79
Alignment explanation
Indices: 45510742--45510918 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 79
45510732 CGGATGATAA
* * *
45510742 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
* *
45510807 TCGAGTTACTATAT
66 GCAAGTTACTATAT
*
45510821 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
45510885 GAGCAAG-TAGCTATAT
64 GAGCAAGTTA-CTATAT
* *
45510901 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45510919 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.69
80 25 0.29
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCAAGTTACTATAT
Done.