Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 131 of 253
Found at i:41597878 original size:39 final size:39
Alignment explanation
Indices: 41597730--41597887 Score: 185
Period size: 39 Copynumber: 4.1 Consensus size: 39
41597720 AACTTGAAAC
* * *
41597730 TAATTACCAGCACA-AGCCTGCGGGA-CTTTAGCCCGGACA
1 TAATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGATA
* * * * *
41597769 TATTTCCAACACGTAGCCTGCGGACCTTAAGCCCGGTTA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
41597808 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
* * *
41597847 TAATTCTAGCACATAGCCTGCAGACCTTAAGTCCGAATA
1 TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
41597886 TA
1 TA
41597888 CTTCATCACT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 9 0.09
39 94 0.91
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
TAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
Found at i:41602140 original size:50 final size:50
Alignment explanation
Indices: 41602020--41602258 Score: 259
Period size: 50 Copynumber: 4.8 Consensus size: 50
41602010 AGGTGTCGAC
* * * * * * * *
41602020 GCCATGTCCCAGACATGGTCTTACATTGGCTCACACA--TCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
** * * * *
41602068 GCCATGTCCTTGACATGGTCTTACAGTGGCTCTCATCTATCG-GTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCCAAT
** *
41602118 GCCATGTCCCAGACATTTTCTTACACTAGCTCTAATATCTCGAGGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
* * *
41602168 GCCATGTTCCAGTCATGGTCTTACACTAGCTCTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
*
41602218 GCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATCTC
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
41602259 CCTAGCATAA
Statistics
Matches: 159, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
48 31 0.19
50 127 0.80
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCAAT
Found at i:41607867 original size:20 final size:19
Alignment explanation
Indices: 41607844--41607881 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
41607834 CATTTTCCAA
41607844 ATCATAAAACATTATAACAC
1 ATCATAAAACA-TATAACAC
*
41607864 ATCATAAACCATATAACA
1 ATCATAAAACATATAACA
41607882 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
ATCATAAAACATATAACAC
Found at i:41607872 original size:19 final size:20
Alignment explanation
Indices: 41607844--41607881 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41607834 CATTTTCCAA
41607844 ATCATAAAA-CATTATAACAC
1 ATCATAAAACCA-TATAACAC
41607864 ATCAT-AAACCATATAACA
1 ATCATAAAACCATATAACA
41607882 TATTTCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
ATCATAAAACCATATAACAC
Found at i:41615161 original size:28 final size:28
Alignment explanation
Indices: 41615129--41615195 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
41615119 GAGATTGGCG
41615129 CTAAGTGTGCGAGTTT-AAT-TGTATAGCA
1 CTAAGTGTGCGAGTTTGAATAT-TA-AGCA
*
41615157 CTAAGTGTGCGAGTTTGACTATTAAGCA
1 CTAAGTGTGCGAGTTTGAATATTAAGCA
41615185 CTAAGTGTGCG
1 CTAAGTGTGCG
41615196 GACTTACTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 31 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGAATATTAAGCA
Found at i:41645270 original size:15 final size:15
Alignment explanation
Indices: 41645222--41645270 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
41645212 TTCTTTTCCT
* *
41645222 TTCTTTTCTCTTTAC
1 TTCTCTTCTCTTTTC
* * *
41645237 TTCACTTCACTTCTC
1 TTCTCTTCTCTTTTC
41645252 TTCTCTTCTCTTTTC
1 TTCTCTTCTCTTTTC
41645267 TTCT
1 TTCT
41645271 TTGCATTTCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (15 bp):
TTCTCTTCTCTTTTC
Found at i:41649524 original size:51 final size:50
Alignment explanation
Indices: 41649447--41649587 Score: 165
Period size: 50 Copynumber: 2.8 Consensus size: 50
41649437 TGAGGTCGCA
** * *
41649447 TGTGTAGTAACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGT-ACTAAGTGCAGGCTACTACACGTACCAGAT-ACTTAGATCACG
* * ** *
41649499 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATACTTAGATCACG
* *
41649549 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATA
41649588 AATGGTCACA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 44 0.57
51 25 0.32
52 8 0.10
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATACTTAGATCACG
Found at i:41651523 original size:15 final size:15
Alignment explanation
Indices: 41651503--41651558 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
41651493 GTATCTTGGG
41651503 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
41651518 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
41651533 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
41651548 TTTCTTTATTC
1 TTTCTTTATTC
41651559 GATTTTCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:41652747 original size:16 final size:16
Alignment explanation
Indices: 41652726--41652765 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
41652716 TGTAATATCC
41652726 CGAAATAGGGCCTAAT
1 CGAAATAGGGCCTAAT
41652742 CGAAATAGGGCCTAAT
1 CGAAATAGGGCCTAAT
41652758 CGAAATAG
1 CGAAATAG
41652766 TGGTTTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (16 bp):
CGAAATAGGGCCTAAT
Found at i:41654323 original size:50 final size:49
Alignment explanation
Indices: 41654202--41654391 Score: 218
Period size: 50 Copynumber: 3.8 Consensus size: 49
41654192 TGAGGTCGCA
* * * *
41654202 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAA-TT-GGTCACG
* **
41654253 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATT-GGTCACG
* * * * *
41654303 TGTGTAGTACTAAGTGCAGGCAACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCACG
* * *
41654352 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAA
41654392 CCTTGTCTAC
Statistics
Matches: 118, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 40 0.34
50 44 0.37
51 34 0.29
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAATTGGTCACG
Found at i:41661439 original size:14 final size:15
Alignment explanation
Indices: 41661422--41661450 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41661412 TCACGAAAAT
41661422 TTCACACAT-ATAAA
1 TTCACACATAATAAA
41661436 TTCACACATAATAAA
1 TTCACACATAATAAA
41661451 CATAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:41662701 original size:42 final size:42
Alignment explanation
Indices: 41662646--41662766 Score: 161
Period size: 43 Copynumber: 2.9 Consensus size: 42
41662636 TAGGGTAGCT
*
41662646 AAGATTACATGTAAGACCATATCTGGGATATGACATCGATAT
1 AAGATTACATGTAAGACCATATCTGGGATATGACATCGATAC
* * * * * * *
41662688 GAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATAC
1 AAGATTACATGTAAGACCATATCTGGGATA-TGACATCGATAC
41662731 AAGATTACATGTAAGACCATATCTGGGATATGACAT
1 AAGATTACATGTAAGACCATATCTGGGATATGACAT
41662767 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (42 bp):
AAGATTACATGTAAGACCATATCTGGGATATGACATCGATAC
Found at i:41669220 original size:27 final size:27
Alignment explanation
Indices: 41669184--41669262 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
41669174 CAGACCCCAA
* *
41669184 TTTATAAAATTATCAAAATACCCCTGG
1 TTTATAAAATTATCGAAATACCCCTAG
*
41669211 TTTAAAAAATTATCGAAATACCACC-AG
1 TTTATAAAATTATCGAAATACC-CCTAG
41669238 TTTATAAAATTA-CTGAAATACCCCT
1 TTTATAAAATTATC-GAAATACCCCT
41669263 TGTAGTGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.07
27 40 0.89
28 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTATCGAAATACCCCTAG
Found at i:41669299 original size:27 final size:28
Alignment explanation
Indices: 41669242--41669302 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
41669232 CACCAGTTTA
** *
41669242 TAAAATTACTGAAATACCCCTTGTAGTG
1 TAAAATTACCAAAATACCCCTTGTAGGG
41669270 TAAAATTACCAAAATA-CCCTTGTAGGG
1 TAAAATTACCAAAATACCCCTTGTAGGG
41669297 TAAAAT
1 TAAAAT
41669303 AACTGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCCTTGTAGGG
Found at i:41669377 original size:14 final size:14
Alignment explanation
Indices: 41669358--41669393 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
41669348 TTGATAGATT
41669358 TGACTGTGATTGTA
1 TGACTGTGATTGTA
*
41669372 TGACTGTGGTTGTA
1 TGACTGTGATTGTA
41669386 TGACTGTG
1 TGACTGTG
41669394 TTTTAACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (14 bp):
TGACTGTGATTGTA
Found at i:41673866 original size:68 final size:66
Alignment explanation
Indices: 41673794--41673940 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
41673784 CATCATGTGT
* * * *
41673794 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
41673857 TGTAG
62 TGTAG
** * *
41673862 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
41673927 AG
65 AG
41673929 ACAAGAGAGCTA
1 ACAAGAGAGCTA
41673941 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:41673899 original size:64 final size:64
Alignment explanation
Indices: 41673818--41674002 Score: 178
Period size: 67 Copynumber: 2.9 Consensus size: 64
41673808 AGACATTATG
* *
41673818 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
41673882 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41673947 AA
63 AA
* * * * *
41673949 AT-TGGCTAGGTCACATTGGTTATACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
41674003 GAACTATATG
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.21
64 25 0.26
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41684306 original size:46 final size:46
Alignment explanation
Indices: 41684253--41684347 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
41684243 CTAAATAATT
*
41684253 CATTTCAAAATTTCAATAATCACAACATAATCCATCATTAAGCATG
1 CATTTCAAAATTTCAATAATCACAACATAATCCACCATTAAGCATG
41684299 CATTTCAAAATTTCAATAATCACAACATAATCCACCATTAAGCATG
1 CATTTCAAAATTTCAATAATCACAACATAATCCACCATTAAGCATG
41684345 CAT
1 CAT
41684348 ATCGTCCCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTTCAAAATTTCAATAATCACAACATAATCCACCATTAAGCATG
Found at i:41684496 original size:30 final size:29
Alignment explanation
Indices: 41684462--41684528 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 29
41684452 GCTACAGGGG
* *
41684462 TCACACGTCCATGTGGCCAGGCCTTGTGAC
1 TCACACGT-CATGTGCCCAGGCCTTGTGAA
41684492 TCACACAGTCATGTGCCCAGGCCTTGTGAA
1 TCACAC-GTCATGTGCCCAGGCCTTGTGAA
41684522 TCACACG
1 TCACACG
41684529 GATATGACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 31 0.91
31 2 0.06
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.22
Consensus pattern (29 bp):
TCACACGTCATGTGCCCAGGCCTTGTGAA
Found at i:41684876 original size:10 final size:11
Alignment explanation
Indices: 41684841--41684879 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
41684831 TTTAACCTAT
*
41684841 TCAAAACATGA
1 TCAAAACATGC
41684852 TC-AAACATGC
1 TCAAAACATGC
41684862 TCAAAACATGC
1 TCAAAACATGC
41684873 -CAAAACA
1 TCAAAACA
41684880 ATCATCCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.51, C:0.26, G:0.08, T:0.15
Consensus pattern (11 bp):
TCAAAACATGC
Found at i:41689691 original size:40 final size:40
Alignment explanation
Indices: 41689601--41689821 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
41689591 TATTCGAATG
* *
41689601 ATATCCGGGTTAAGTCCCG-AGGCATTTGTGCTATTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
41689639 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
41689679 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
41689719 ATGTCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
41689759 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
41689798 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
41689822 CTTGGTTTGG
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 34 0.20
39 32 0.19
40 100 0.60
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:41698159 original size:40 final size:40
Alignment explanation
Indices: 41698104--41698327 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
41698094 TATTCGAATG
* * *
41698104 ATATCCGGGTTAAGTCCCGAGGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
41698144 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
41698184 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
41698224 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * * *
41698264 ATATTCGGGCTAAGACCCGAAGGCATCTGTGCGAGTT-ACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
41698304 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
41698328 CTTGAGTTTT
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 16 0.10
40 149 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:41702169 original size:27 final size:27
Alignment explanation
Indices: 41702131--41702218 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
41702121 GGATAAGTTG
41702131 TAGAATTACCGAAATACCCCTATAGGA
1 TAGAATTACCGAAATACCCCTATAGGA
* * *
41702158 TAGAATTACCGAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTATAGGA
* *
41702185 TAGAAATACCGAAATACCTCTATAGGA
1 TAGAATTACCGAAATACCCCTATAGGA
41702212 TAGAATT
1 TAGAATT
41702219 CTGAGATACC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTATAGGA
Found at i:41702208 original size:54 final size:53
Alignment explanation
Indices: 41702130--41702231 Score: 159
Period size: 54 Copynumber: 1.9 Consensus size: 53
41702120 TGGATAAGTT
*
41702130 GTAGAATTACCGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTATAGGATAGAATT-CCGAAATACCCTTGTAGG
* * *
41702184 GTAGAAATACCGAAATACCTCTATAGGATAGAATTCTGAGATACCCTT
1 GTAGAAATACCGAAATACCCCTATAGGATAGAATTCCGAAATACCCTT
41702232 ATGGGGTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (53 bp):
GTAGAAATACCGAAATACCCCTATAGGATAGAATTCCGAAATACCCTTGTAGG
Found at i:41708340 original size:27 final size:27
Alignment explanation
Indices: 41708301--41708399 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 27
41708291 GGATAAGTTG
* * *
41708301 TAGAATTATCGAAATACCCCTATAGAA
1 TAGAATTACCGAAATACCCCTGTAGGA
* * *
41708328 TAGAATTACCGAAAAACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGA
*
41708355 TAGAAATACCGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGA
*
41708382 TAGAATTACCGAGATACC
1 TAGAATTACCGAAATACC
41708400 ATTGTGGGGT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGA
Found at i:41708410 original size:54 final size:54
Alignment explanation
Indices: 41708300--41708414 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
41708290 TGGATAAGTT
* * *
41708300 GTAGAATTATCGAAATACCCCTATAGAATAGAATTACCGAAAAACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTATAGAATAGAATTACCGAAAAACCATTGTAGG
* * * * *
41708354 GTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATACCATTGTGGG
1 GTAGAAATACCGAAATACCCCTATAGAATAGAATTACCGAAAAACCATTGTAGG
41708408 GTA-AAAT
1 GTAGAAAT
41708415 TACCATTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCCCTATAGAATAGAATTACCGAAAAACCATTGTAGG
Found at i:41708415 original size:27 final size:27
Alignment explanation
Indices: 41708304--41708418 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 27
41708294 TAAGTTGTAG
* * * ** *
41708304 AATTATCGAAATACCCCTATAGAATAG
1 AATTACCGAAATACCCTTGTAGGGTAA
*
41708331 AATTACCGAAAAACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCTTGTAGGGTA-A
* * *
41708359 AA-TACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAA
* * *
41708385 AATTACCGAGATACCATTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAA
41708412 AATTACC
1 AATTACC
41708419 ATTTTGCCCC
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.03
27 65 0.94
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAA
Found at i:41709122 original size:25 final size:27
Alignment explanation
Indices: 41709093--41709151 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
41709083 ACACATATAT
41709093 ATATCTGT-TCTGGTG-CCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
41709118 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
41709145 ATATCTG
1 ATATCTG
41709152 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 14 0.48
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:41715329 original size:19 final size:19
Alignment explanation
Indices: 41715292--41715329 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41715282 ACCTGTCAGA
*
41715292 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
41715311 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
41715330 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:41718815 original size:69 final size:70
Alignment explanation
Indices: 41718732--41718924 Score: 212
Period size: 71 Copynumber: 2.8 Consensus size: 70
41718722 AATTGATAAG
* * * * * *
41718732 TTGTTATATTAAAAATGTCTTCATTTACGTTCGA-TTTAAATGCTTACTGTGTTGCTGTAAAGTG
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
41718796 CTAAT
66 CTAAT
* * *
41718801 TTGTTATCTTAAAAAAATGTGTTCACTCACGTT-AATTTTAGATGCTTAATGTGCTGCTGTAAAG
1 TTGTTATCTT--AAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAG
* *
41718865 GGTTGAT
64 GGCTAAT
* * * *
41718872 TTGTTGTCTTGAAAATGTGTTCATTTAAG-TCCATTTTAAATGCTTAATGTGCT
1 TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCT
41718925 TTCCAAAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
68 1 0.01
69 44 0.43
70 1 0.01
71 56 0.55
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (70 bp):
TTGTTATCTTAAAAATGTGTTCATTTACGTTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
CTAAT
Found at i:41723287 original size:8 final size:8
Alignment explanation
Indices: 41723269--41723311 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
41723259 GTAGATCGGC
*
41723269 AAATCCCG
1 AAATGCCG
*
41723277 AAATGCTG
1 AAATGCCG
*
41723285 AAAAGCCG
1 AAATGCCG
41723293 AAATGCCG
1 AAATGCCG
*
41723301 AAAAGCCG
1 AAATGCCG
41723309 AAA
1 AAA
41723312 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (8 bp):
AAATGCCG
Found at i:41723295 original size:16 final size:16
Alignment explanation
Indices: 41723274--41723311 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
41723264 TCGGCAAATC
*
41723274 CCGAAATGCTGAAAAG
1 CCGAAATGCCGAAAAG
41723290 CCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
41723306 CCGAAA
1 CCGAAA
41723312 GTTTGGCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.08
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:41723578 original size:28 final size:29
Alignment explanation
Indices: 41723529--41723628 Score: 118
Period size: 28 Copynumber: 3.6 Consensus size: 29
41723519 CATGACTATT
*
41723529 AATGTGATTGGGCCTAACGGGCCATATGG
1 AATGTGATTGGGCCTAATGGGCCATATGG
*
41723558 AA-GTGGTTGGGCCTAATGGGCCATAT-G
1 AATGTGATTGGGCCTAATGGGCCATATGG
**
41723585 AATGTGATTGGGCCCGATGGG-CATAT-G
1 AATGTGATTGGGCCTAATGGGCCATATGG
* *
41723612 AATGAGATTAGGCCTAA
1 AATGTGATTGGGCCTAA
41723629 AGGGGCCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 22 0.36
28 37 0.61
29 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
AATGTGATTGGGCCTAATGGGCCATATGG
Found at i:41726862 original size:18 final size:19
Alignment explanation
Indices: 41726839--41726874 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41726829 AACTTGACAC
*
41726839 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
41726857 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
41726875 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:41727182 original size:30 final size:30
Alignment explanation
Indices: 41727148--41727208 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41727138 TCCTTAACTC
41727148 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41727178 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41727208 A
1 A
41727209 GGTTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41729543 original size:27 final size:28
Alignment explanation
Indices: 41729459--41729556 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41729449 CATGAGATTG
* * * *
41729459 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41729488 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41729516 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41729543 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41729557 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41729567 original size:27 final size:27
Alignment explanation
Indices: 41729487--41729569 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41729477 TAAATTGTAC
* *
41729487 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41729515 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41729542 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41729569 A
1 A
41729570 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41729570 original size:29 final size:27
Alignment explanation
Indices: 41729459--41729570 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
41729449 CATGAGATTG
** * *
41729459 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
41729488 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
41729516 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
41729543 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
41729571 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:41735452 original size:12 final size:12
Alignment explanation
Indices: 41735435--41735464 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
41735425 AGGTCGGAGA
41735435 CAAAGTATTTCT
1 CAAAGTATTTCT
41735447 CAAAGTATTTCT
1 CAAAGTATTTCT
41735459 CAAAGT
1 CAAAGT
41735465 TTCACCCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (12 bp):
CAAAGTATTTCT
Found at i:41737629 original size:27 final size:28
Alignment explanation
Indices: 41737545--41737642 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
41737535 CATGAGATTG
* * * *
41737545 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
41737574 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
41737602 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
41737629 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
41737643 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:41737653 original size:27 final size:27
Alignment explanation
Indices: 41737573--41737655 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
41737563 TAAATTGTAC
* *
41737573 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
41737601 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
41737628 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
41737655 A
1 A
41737656 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:41737656 original size:29 final size:27
Alignment explanation
Indices: 41737545--41737656 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
41737535 CATGAGATTG
** * *
41737545 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
41737574 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
41737602 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
41737629 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
41737657 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:41753942 original size:40 final size:40
Alignment explanation
Indices: 41753888--41754039 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
41753878 TGGGATTTAG
* *
41753888 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCCTAGC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGC
* *
41753928 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTATC
1 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGC
* * * * * *
41753968 CTGGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGC
1 CCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTCATAGC
* *
41754008 CCAGATATAGCAACTCGCACGAATGCCTTCGG
1 CCGGATATAGCAACTCGCACAAATGCCTTCGG
41754040 ATCTTAGTCC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCATAGC
Found at i:41754023 original size:80 final size:80
Alignment explanation
Indices: 41753890--41754045 Score: 224
Period size: 80 Copynumber: 1.9 Consensus size: 80
41753880 GGATTTAGCC
* * * *
41753890 GGATATAACAACTCGCACAAATGCCTTCGGGTCCTAGCCCGGATATAGCAACTCGCACAAATGCC
1 GGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGCC
*
41753955 TTCGGGTCTTATCCT
66 TTCGGATCTTATCCT
* * *
41753970 GGATATAATC-ACTAGCATAAATGCCTTTGGGACATAGCCCAGATATAGCAACTCGCACGAATGC
1 GGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGC
41754034 CTTCGGATCTTA
65 CTTCGGATCTTA
41754046 GTCCGGTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 66 0.99
81 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
GGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCAGATATAGCAACTCGCACAAATGCC
TTCGGATCTTATCCT
Found at i:41763588 original size:25 final size:28
Alignment explanation
Indices: 41763536--41763589 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
41763526 GATCAAAGTT
*
41763536 CATCCATTGAATATACATACCATATCACA
1 CATCCATTGAATATACAAACCA-ATCACA
41763565 CATCCATTG-ATAT-CAAACC-ATCACA
1 CATCCATTGAATATACAAACCAATCACA
41763590 ACATTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
28 4 0.17
29 9 0.38
ACGTcount: A:0.41, C:0.30, G:0.04, T:0.26
Consensus pattern (28 bp):
CATCCATTGAATATACAAACCAATCACA
Found at i:41773891 original size:40 final size:40
Alignment explanation
Indices: 41773752--41773936 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
41773742 TGGATGATAA
* **
41773752 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
* *
41773793 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-T
*
41773834 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
41773874 CCGGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
41773914 CTGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
41773937 GAGAGAGTAG
Statistics
Matches: 129, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 63 0.49
41 62 0.48
42 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:41773900 original size:81 final size:80
Alignment explanation
Indices: 41773752--41773936 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 80
41773742 TGGATGATAA
** *
41773752 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTACATCCGGGCTAAGTCCCGAAGGCATTT
*
41773817 GTGCGAGTTATTACATT
65 GTGCGAGTTACTACA-T
* * *
41773834 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTATTACATCCGGGCTAAGTCTCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTT
* *
41773898 GTGTGAGTTACTATAT
65 GTGCGAGTTACTACAT
* *
41773914 CTGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
41773937 GAGAGAGTAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 22 0.24
81 41 0.45
82 24 0.26
83 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTACAT
Found at i:41781192 original size:35 final size:34
Alignment explanation
Indices: 41781143--41781212 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 34
41781133 TTGTTATTTA
41781143 TATATACTACTTACTAAGCTA-TATAAGGCTTACT
1 TATATACTACTTACTAAGCTATTATAA-GCTTACT
41781177 TATATACTTACTTACTAAGCTATTATAAGCTTACT
1 TATATAC-TACTTACTAAGCTATTATAAGCTTACT
41781212 T
1 T
41781213 TCTTTCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 7 0.21
35 22 0.65
36 5 0.15
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (34 bp):
TATATACTACTTACTAAGCTATTATAAGCTTACT
Found at i:41785479 original size:42 final size:39
Alignment explanation
Indices: 41785354--41785536 Score: 210
Period size: 41 Copynumber: 4.6 Consensus size: 39
41785344 CTACTCTCTC
* * *
41785354 AATGCCTTCGGGACATAGCCC-GATATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGAT-TAATAACTCGCACA
*
41785393 AATGCCTTCGAGACTTAGCCCGGATT-ATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTAATAACTCGCACA
41785431 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCCGCACA
1 AATGCCTTCGGGACTTAGCCCGG-AT-TAATAACT-CGCACA
* * * *
41785473 AATGCCTTCGGGACTTAGCCCAGAACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCC-GGATTAATAACT--CGCACA
41785514 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
41785537 TTATCATCCA
Statistics
Matches: 126, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
38 32 0.25
39 22 0.17
40 5 0.04
41 34 0.27
42 32 0.25
43 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTAATAACTCGCACA
Found at i:41785529 original size:41 final size:38
Alignment explanation
Indices: 41785354--41785535 Score: 206
Period size: 42 Copynumber: 4.6 Consensus size: 38
41785344 CTACTCTCTC
* *
41785354 AATGCCTTCGGGACATAGCCCGATATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGA-ATAGTAACTCGCACA
* *
41785393 AATGCCTTCGAGACTTAGCCCGGATTA-TAACTCGCACA
1 AATGCCTTCGGGACTTAGCCC-GAATAGTAACTCGCACA
*
41785431 AATGCCTTCGGGACTTAGCCCGGAATGTAATAACTCCGCACA
1 AATGCCTTCGGGACTTAGCCC-GAA--TAGTAACT-CGCACA
*
41785473 AATGCCTTCGGGACTTAGCCCAGAACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCC-GAA-TAGTAACT--CGCACA
41785514 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
41785536 GTTATCATCC
Statistics
Matches: 126, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
38 33 0.26
39 21 0.17
40 5 0.04
41 33 0.26
42 34 0.27
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAGCCCGAATAGTAACTCGCACA
Found at i:41791605 original size:79 final size:82
Alignment explanation
Indices: 41791488--41791672 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
41791478 GCTCCTCGTT
* *
41791488 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
41791551 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
41791568 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
41791631 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
41791648 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41791673 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:41791672 original size:40 final size:40
Alignment explanation
Indices: 41791488--41791672 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
41791478 GCTCCTCGTT
* *
41791488 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41791528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
41791568 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
41791607 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
41791648 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41791673 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:41794458 original size:21 final size:21
Alignment explanation
Indices: 41794416--41794475 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
41794406 AACACTTATG
41794416 AAATAATAGTATTTTA-ATTTTA
1 AAAT-ATA-TATTTTATATTTTA
*
41794438 TAATATATATTTTATATTTTA
1 AAATATATATTTTATATTTTA
*
41794459 AAATATA-ATTTTCTATT
1 AAATATATATTTTATATT
41794476 ATATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.47
21 15 0.44
22 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
AAATATATATTTTATATTTTA
Found at i:41811291 original size:16 final size:16
Alignment explanation
Indices: 41811267--41811306 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
41811257 AATTTGATGG
*
41811267 GAATAATTCTAAGTTA
1 GAATTATTCTAAGTTA
41811283 GAATTATTCTAAGTTA
1 GAATTATTCTAAGTTA
41811299 GAATTATT
1 GAATTATT
41811307 GAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (16 bp):
GAATTATTCTAAGTTA
Found at i:41811434 original size:23 final size:23
Alignment explanation
Indices: 41811407--41811455 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
41811397 CTCGAAAAAA
41811407 TTAAAAATAATTCAAA-T-TTCGAG
1 TTAAAAA-AATT-AAATTATTCGAG
*
41811430 TTAAACAAATTAAATTATTCGAG
1 TTAAAAAAATTAAATTATTCGAG
41811453 TTA
1 TTA
41811456 TTCAAGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 3 0.13
22 5 0.22
23 15 0.65
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (23 bp):
TTAAAAAAATTAAATTATTCGAG
Found at i:41812091 original size:18 final size:18
Alignment explanation
Indices: 41812070--41812107 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
41812060 AAAGAATCAC
41812070 ATTTTTT-ATATTTAATAT
1 ATTTTTTAAT-TTTAATAT
41812088 ATTTTTTAATTTTAATAT
1 ATTTTTTAATTTTAATAT
41812106 AT
1 AT
41812108 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTTTAATTTTAATAT
Found at i:41818664 original size:51 final size:50
Alignment explanation
Indices: 41818544--41818706 Score: 218
Period size: 50 Copynumber: 3.2 Consensus size: 50
41818534 TAAATGACCA
* * *
41818544 TGTACATTCGGCCATATATGTATGTACATATGTGATGTTATCTTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
** * * *
41818594 TGTATATTCAACCACATAGGTATGTACATATGTGATATTTATGTTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGAT-GTTATATTTGATCT
*
41818645 TGTATGTTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
41818695 TATGTATTCGGC
1 TGTATATTCGGC
41818707 TAAATGAGTG
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 52 0.54
51 44 0.46
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (50 bp):
TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:41820615 original size:41 final size:41
Alignment explanation
Indices: 41820540--41820617 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
41820530 ATAGTGATAT
*
41820540 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* *
41820581 TCGGGCTTT-ATGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGA-GCCTAGCAAGCCTT-GTGCCGGTGAAT
41820618 AAAATCAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 26 0.81
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:41820836 original size:50 final size:50
Alignment explanation
Indices: 41820757--41820918 Score: 288
Period size: 50 Copynumber: 3.2 Consensus size: 50
41820747 TAAATGACCA
41820757 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
41820807 TGTATATTCGGCCACATAGGTATGGACATATGTGATGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
41820857 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
41820907 TGTGTATTCGGC
1 TGTATATTCGGC
41820919 AAAATGAGTG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 106 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:41827617 original size:41 final size:41
Alignment explanation
Indices: 41827542--41827619 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
41827532 ATAGTGATAT
*
41827542 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
* *
41827583 TCGGGCTTT-ATGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGA-GCCTAGCAAGCCTT-GTGCCGGTGAAT
41827620 AAAATCAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.19
41 26 0.81
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTGA
Found at i:41827838 original size:50 final size:50
Alignment explanation
Indices: 41827759--41827920 Score: 279
Period size: 50 Copynumber: 3.2 Consensus size: 50
41827749 TAAATGACCA
41827759 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * *
41827809 TGTATATTCGGCCACATAGGTATGGACATATGTTATGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
41827859 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
41827909 TGTGTATTCGGC
1 TGTATATTCGGC
41827921 AAAATGAGTG
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:41830280 original size:57 final size:57
Alignment explanation
Indices: 41830187--41830302 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
41830177 AGGAAGGGAG
* *
41830187 TAAGCTTTATAGCTTAGTAAGACAGTATGGAAATAATAAGCAATTTATCAACTTACT
1 TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
* * *
41830244 TAAGATTTATATCTTAGTAAGACCGTATGAAAATAATAAGCAATTTATCAACTTGCT
1 TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
41830301 TA
1 TA
41830303 TCATGGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (57 bp):
TAAGATTTATAGCTTAGTAAGACAGTATGAAAATAATAAGCAATTTATCAACTTACT
Found at i:41833642 original size:48 final size:48
Alignment explanation
Indices: 41833582--41833904 Score: 278
Period size: 48 Copynumber: 6.8 Consensus size: 48
41833572 AAGGTGAATT
* * *
41833582 GCCGATGACATGTTCCAAACATGGTCTTACACTGGCT-TACATGTTGAG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCT-CATGTCGAG
* * * * * *
41833630 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * * * *
41833678 GCCGATGCCATATGCCAGACATGGTCTTACATTGGCTCTCATGTTGTG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* * * * * *
41833726 GTCGATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAAT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* *** *
41833773 GCCAATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCACAAC-ATC
1 GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCTCATGTCGA-G
** * * * *
41833821 GCTAATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATGCCGTG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
* *
41833869 GTCGACGCCATG-TCCTAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTTCC-AGACATGGTCTTACACTGGC
41833905 ACACATATCA
Statistics
Matches: 217, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
46 3 0.01
47 38 0.18
48 172 0.79
49 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATGTCGAG
Found at i:41833745 original size:96 final size:94
Alignment explanation
Indices: 41833581--41833813 Score: 315
Period size: 96 Copynumber: 2.4 Consensus size: 94
41833571 AAAGGTGAAT
* *
41833581 TGCCGATGACATGTTCCAAACATGGTCTTACACTGGCT-TACATGTTGAGGCCGATGCCATGTCC
1 TGCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCT-CATGTTGAGGCCGATGCCATGTCC
* * *
41833645 CAGACATGGTCTTACACTAGCTCTCGTCTCAA
64 CAGACATGGTCTTACACTAGC-CACATATCAA
* * * * *
41833677 TGCCGATGCCATATGCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGTCGATGCCATGTTCC
1 TGCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCC
41833742 AGACATGGTCTTACACTAGCCACATATCAA
65 AGACATGGTCTTACACTAGCCACATATCAA
*
41833772 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCA
1 TGCCGATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCA
41833814 CAACATCGCT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
94 2 0.02
95 44 0.36
96 74 0.61
97 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
TGCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATGTTGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTAGCCACATATCAA
Found at i:41833833 original size:95 final size:95
Alignment explanation
Indices: 41833634--41833904 Score: 287
Period size: 95 Copynumber: 2.8 Consensus size: 95
41833624 GTTGAGGCCG
* * *
41833634 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATGCC-AGAC
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAT-TCAATGCCGATGCCATGT-CCTAGAC
* ***** * *
41833698 ATGGTCTTACATTGGCTCTCATGTTGTGGTCG
64 ATGGTCTTACACTGGCTCTCACAACATGCTCA
* *
41833730 ATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAATGCCAATGCCATGTCCTAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCAT-TCAATGCCGATGCCATGTCCTAGACA
41833794 TGGTCTTACACTGGCTCTCACAACATCGCT-A
65 TGGTCTTACACTGGCTCTCACAACAT-GCTCA
* * * * ** * *
41833825 ATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATGCCGTGGTCGACGCCATGTCCTAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATTCAAT-GCCGATGCCATGTCCTAGACA
41833890 TGGTCTTACACTGGC
65 TGGTCTTACACTGGC
41833905 ACACATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
94 2 0.01
95 75 0.51
96 70 0.48
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATTCAATGCCGATGCCATGTCCTAGACAT
GGTCTTACACTGGCTCTCACAACATGCTCA
Found at i:41833843 original size:143 final size:144
Alignment explanation
Indices: 41833584--41833914 Score: 391
Period size: 143 Copynumber: 2.3 Consensus size: 144
41833574 GGTGAATTGC
* * ** * ** *
41833584 CGATGACATGTTCCAAACATGGTCTTACACTGGCTTACATGTTGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGA
* * * * *
41833649 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATGCCAGACATGGTCTTACATTGGC
66 CATGGTCTTACACTAGCTCTCGACACAATGCCAATGCCATATGCCAAACATGGTCTTACACTGGC
**
41833714 TCTCATGTTGTGGT
131 TCTCATGCCGTGGT
* * *
41833728 CGATGCCATGTTCCAGACATGGTCTTACACTAGC-CACATATCAATGCCAATGCCATGTCCTAGA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGA
* * * * *
41833792 CATGGTCTTACACTGGCTCTC-ACA-ACATCGCTAATGTCATGTTCCAAACATGGTCTTACACTG
66 CATGGTCTTACACTAGCTCTCGACACA-AT-GCCAATGCCATATGCCAAACATGGTCTTACACTG
41833855 GCTCTCATGCCGTGGT
129 GCTCTCATGCCGTGGT
*
41833871 CGACGCCATG-TCCTAGACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGTTCC-AGACATGGTCTTACACTGGCACACATATCA
41833915 CCCAAATGTC
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
141 1 0.01
142 6 0.04
143 112 0.70
144 40 0.25
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCACACATATCAAGGCCAATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCGACACAATGCCAATGCCATATGCCAAACATGGTCTTACACTGGC
TCTCATGCCGTGGT
Found at i:41842440 original size:30 final size:30
Alignment explanation
Indices: 41842406--41842488 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
41842396 TAAACTAAAA
41842406 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
41842436 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
41842466 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCGTGAG
41842489 TTGAAAGTCA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:41843188 original size:48 final size:48
Alignment explanation
Indices: 41843136--41843293 Score: 149
Period size: 48 Copynumber: 3.3 Consensus size: 48
41843126 TGAGGCTGAC
* * * *
41843136 GCCATGTCCCAGAAATGGTCTTACACTAGCTCTCCTCTCAATACCGAT
1 GCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATATCAATGCCGAT
* * * * * **
41843184 GCCATATCCCAGACACAGTCTTACACTGGCTCTCATGT-TGTGGCCGAT
1 GCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATATCAAT-GCCGAT
* * * *
41843232 GCCATGTCCCA-AACATATTCTTACACTAGCGCACATATCAATGCTGAT
1 GCCATGTCCCAGAA-ATAGTCTTACACTAGCTCTCATATCAATGCCGAT
41843280 GCCATGTCCCAGAA
1 GCCATGTCCCAGAA
41843294 GTGGTATTAT
Statistics
Matches: 85, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
47 2 0.02
48 80 0.94
49 3 0.04
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGAAATAGTCTTACACTAGCTCTCATATCAATGCCGAT
Found at i:41843273 original size:96 final size:96
Alignment explanation
Indices: 41843109--41843292 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 96
41843099 AACATGGTCG
* * * * * *
41843109 TACACTGGCTTACATGTTGAGGCTGACGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCCTCT
1 TACACTGGCTTACATGTTGAGGCCGACGCCATGTCCCAGAAATAGTCTTACACTAGCGCACATAT
41843174 CAATACCGATGCCATATCCCAGACACAGTCT
66 CAATACCGATGCCATATCCCAGACACAGTCT
* * *
41843205 TACACTGGCTCT-CATGTTGTGGCCGATGCCATGTCCCA-AACATATTCTTACACTAGCGCACAT
1 TACACTGGCT-TACATGTTGAGGCCGACGCCATGTCCCAGAA-ATAGTCTTACACTAGCGCACAT
* * *
41843268 ATCAATGCTGATGCCATGTCCCAGA
64 ATCAATACCGATGCCATATCCCAGA
41843293 AGTGGTATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
95 2 0.03
96 71 0.96
97 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
TACACTGGCTTACATGTTGAGGCCGACGCCATGTCCCAGAAATAGTCTTACACTAGCGCACATAT
CAATACCGATGCCATATCCCAGACACAGTCT
Found at i:41846047 original size:46 final size:46
Alignment explanation
Indices: 41845941--41846060 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 46
41845931 TGTCTTCGAC
* * * *
41845941 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATATATATATA
1 ATGGACTTACATGGATCATTCCTGTCTCCAAAGCCATATATATATA
*
41845987 ATACGAGCTTACATGGATCATTCCTGTCTCCAAAGCCATATA-ACTGAT-
1 AT-GGA-CTTACATGGATCATTCCTGTCTCCAAAGCCATATATA-T-ATA
* *
41846035 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGATCATTCCTGTC
41846061 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
46 21 0.34
47 5 0.08
48 34 0.55
49 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGATCATTCCTGTCTCCAAAGCCATATATATATA
Found at i:41851102 original size:46 final size:48
Alignment explanation
Indices: 41851035--41851131 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
41851025 ACAGGACAGA
*
41851035 AATGAGCCACGTAAGTCCATA-T-CAGATATATGGCTTTGGAGACAAG
1 AATGAGCCACGTAAGTCCATATTACAGATATATGGCATTGGAGACAAG
* * * *
41851081 AATGAGCCATGTAAG-CACATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCACGTAAGTC-CATATTACAGATATATGGCATTGGAGACAAG
41851129 AAT
1 AAT
41851132 AATTCATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
45 1 0.02
46 18 0.42
47 1 0.02
48 23 0.53
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (48 bp):
AATGAGCCACGTAAGTCCATATTACAGATATATGGCATTGGAGACAAG
Found at i:41853817 original size:41 final size:42
Alignment explanation
Indices: 41853755--41853841 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
41853745 TTCGAGCTCA
*
41853755 TTGAGTGGTCCAAGTTTGTGATATGAGA-GG-ATCCGAACTTG
1 TTGAGTGGTCCAAGTTCGTGATAT-AGATGGCATCCGAACTTG
* *
41853796 TTGAGTGGTCCAAGTTCGTGATATATATGGCATCCGAGCTTG
1 TTGAGTGGTCCAAGTTCGTGATATAGATGGCATCCGAACTTG
41853838 TTGA
1 TTGA
41853842 ACGGCCCGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.05
41 25 0.61
42 14 0.34
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (42 bp):
TTGAGTGGTCCAAGTTCGTGATATAGATGGCATCCGAACTTG
Found at i:41856469 original size:9 final size:9
Alignment explanation
Indices: 41856448--41856480 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
41856438 TCCCTATTTT
41856448 ACAAAAT-C
1 ACAAAATAC
41856456 ACAAAATAC
1 ACAAAATAC
41856465 ACAAAATAC
1 ACAAAATAC
41856474 ACAAAAT
1 ACAAAAT
41856481 TTGCATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.12
Consensus pattern (9 bp):
ACAAAATAC
Found at i:41860109 original size:47 final size:47
Alignment explanation
Indices: 41860042--41860131 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
41860032 AAATCAGAGT
*
41860042 AGTTTTCGGTACTAACTCAACACAAAATTCAACTTCTCGGATCGGAG
1 AGTTTCCGGTACTAACTCAACACAAAATTCAACTTCTCGGATCGGAG
41860089 AGTTTCCGGTACTAACTCAACACAAAATTCAACTTCTCGGATC
1 AGTTTCCGGTACTAACTCAACACAAAATTCAACTTCTCGGATC
41860132 AGAGGTAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (47 bp):
AGTTTCCGGTACTAACTCAACACAAAATTCAACTTCTCGGATCGGAG
Found at i:41863600 original size:43 final size:42
Alignment explanation
Indices: 41863539--41863685 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 42
41863529 ATACCGACGT
*
41863539 CCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCC-TCTGA
1 CCCAGACAG-GGTCTTACATGTAATCAAATA-CGATGCCAAC-GA
* * *
41863582 CCCAGACAGGGTCTTACATGAAATCAAGTACGATGCCAACGT
1 CCCAGACAGGGTCTTACATGTAATCAAATACGATGCCAACGA
* *
41863624 CCCAGACATGGTCTTACATGTAAATCATAAGT-CGATGCCAACGT
1 CCCAGACAGGGTCTTACATGT-AATCA-AA-TACGATGCCAACGA
41863668 CCCAGAC-GTGGTCTTACA
1 CCCAGACAG-GGTCTTACA
41863686 CAAAAACACA
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
42 27 0.30
43 32 0.36
44 30 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
CCCAGACAGGGTCTTACATGTAATCAAATACGATGCCAACGA
Found at i:41863673 original size:44 final size:43
Alignment explanation
Indices: 41863535--41863685 Score: 184
Period size: 42 Copynumber: 3.5 Consensus size: 43
41863525 TACAATACCG
* *
41863535 ACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCC-
1 ACGTCCCAGACATGGTCTTACATGTAAATCAAA-GTCGATGCCA
* * *
41863577 TCTGACCCAGACAGGGTCTTACATG-AAATC-AAGTACGATGCCA
1 AC-GTCCCAGACATGGTCTTACATGTAAATCAAAGT-CGATGCCA
41863620 ACGTCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCA
1 ACGTCCCAGACATGGTCTTACATGTAAATCA-AAGTCGATGCCA
*
41863664 ACGTCCCAGACGTGGTCTTACA
1 ACGTCCCAGACATGGTCTTACA
41863686 CAAAAACACA
Statistics
Matches: 93, Mismatches: 9, Indels: 12
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 29 0.31
44 29 0.31
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ACGTCCCAGACATGGTCTTACATGTAAATCAAAGTCGATGCCA
Found at i:41865945 original size:27 final size:27
Alignment explanation
Indices: 41865915--41865998 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
41865905 AATCTCATAT
* * *
41865915 TTGTAGGCTAGCAGTACTGAAATGCCC
1 TTGTAGGATAGAATTACTGAAATGCCC
41865942 TTGTAGGATAGAATTACTGAAATG-CC
1 TTGTAGGATAGAATTACTGAAATGCCC
* * *
41865968 TCTGTAGGGTAGAATTACTAAAATACCC
1 T-TGTAGGATAGAATTACTGAAATGCCC
41865996 TTG
1 TTG
41865999 ACTTGAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.88
28 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (27 bp):
TTGTAGGATAGAATTACTGAAATGCCC
Found at i:41866010 original size:27 final size:27
Alignment explanation
Indices: 41865980--41866296 Score: 314
Period size: 27 Copynumber: 11.7 Consensus size: 27
41865970 TGTAGGGTAG
* * *
41865980 AATTACTAAAATACCCTTGACTTGAAA
1 AATTACCAAAATACCCTTGATTTGTAA
* ** **
41866007 AATTACCGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
41866034 AATTACCGAAATACCCTTGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
41866061 AATTACAAAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
41866088 AATTACCGAAATACCCTTGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
41866115 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
*** * *
41866142 AATTATTGAAATACCATTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
* **
41866169 AATTA-CAGAAATACCCCTGATTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
* **
41866196 AATTA-TAGAAATACCCTTGACTTTCAAA
1 AATTACCA-AAATACCCTTGA-TTTGTAA
* * *
41866224 AATTACAAAAATACCATTGATTTGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
41866251 AATTACCAAAATACCCTTGATTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
41866278 ATTTACCAATACACCCTTG
1 AATTACCAAAATACCCTTG
41866297 TAGGGTGAAA
Statistics
Matches: 244, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
27 222 0.91
28 21 0.09
29 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:41866579 original size:41 final size:41
Alignment explanation
Indices: 41866534--41866654 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 41
41866524 GGAGGAAGAA
* * *
41866534 ATTGAGGATTGCATGGTTTCTTGACGACCGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
41866575 ATTGAGGCTCGCATGGTTGCTTGATGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
41866616 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
41866655 TAGTGGCTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:41869699 original size:27 final size:27
Alignment explanation
Indices: 41869668--41869744 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
41869658 AATCTCATAT
* *
41869668 CTGTAGGCTAGTATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATGCCC
*
41869695 TTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATGCCC
* *
41869722 CTATAGGGTAGAATTACTGAAAT
1 CTGTAGGATAGAATTACTGAAAT
41869745 ATCCCTGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATGCCC
Found at i:41869788 original size:27 final size:27
Alignment explanation
Indices: 41869733--41870028 Score: 184
Period size: 27 Copynumber: 10.9 Consensus size: 27
41869723 TATAGGGTAG
* * *
41869733 AATTACTGAAATATCCC-TGGTTTGTAA
1 AATTACCGAAATA-CCCTTGATTTGAAA
*** *
41869760 AATTAAAAAAATACCCTTGACTTGAAA
1 AATTACCGAAATACCCTTGATTTGAAA
* * **
41869787 AATTACCGAAATACGCTCGACCT-ATAA
1 AATTACCGAAATACCCTTGATTTGA-AA
* * *
41869814 AATTATCGAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* * **
41869841 AATTATCGAAATACCCTTAATTTTTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
41869868 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGAAA
* *
41869895 AATTACCGAAATACCATTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGAAA
** **
41869922 AATTACAAAAATACCCCAGATTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
* * **
41869949 AATTACAGAAATACACTTGACTTCCAAA
1 AATTACCGAAATACCCTTGA-TTTGAAA
** * * *
41869977 AATTACAAAAAATACCATTGGTTTGCAA
1 AATTAC-CGAAATACCCTTGATTTGAAA
* * *
41870005 AATTATCGAAATATCCTTGGTTTG
1 AATTACCGAAATACCCTTGATTTG
41870029 TAGATTTACC
Statistics
Matches: 212, Mismatches: 50, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
26 4 0.02
27 178 0.84
28 19 0.09
29 11 0.05
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGAAA
Found at i:41869791 original size:54 final size:53
Alignment explanation
Indices: 41869733--41870017 Score: 214
Period size: 54 Copynumber: 5.2 Consensus size: 53
41869723 TATAGGGTAG
* * * *
41869733 AATTACTGAAATATCCCTGGTTTGTAAAATTAAAAAAATACCCTTGACTTGAAA
1 AATTACCGAAATA-CCCTGATTTGTAAAATTACAAAAATACCCTTGATTTGAAA
* ** * * * *
41869787 AATTACCGAAATACGCTCGACCTATAAAATTATC-GAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCT-GATTTGTAAAATTA-CAAAAATACCCTTGATTTGAAA
* * * * *
41869841 AATTATCGAAATACCCTTAATTTTTAAAATTACCAAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCC-TGATTTGTAAAATTACAAAAATACCCTTGATTTGAAA
* * **
41869895 AATTACCGAAATACCATTGATTTGGAAAATTACAAAAATACCCCAGATTT-ACAA
1 AATTACCGAAATACC-CTGATTTGTAAAATTACAAAAATACCCTTGATTTGA-AA
* * *** * * *
41869949 AATTACAGAAATACACTTGACTTCCAAAAATTACAAAAAATACCATTGGTTTGCAA
1 AATTACCGAAATAC-CCTGA-TTTGTAAAATTAC-AAAAATACCCTTGATTTGAAA
*
41870005 AATTATCGAAATA
1 AATTACCGAAATA
41870018 TCCTTGGTTT
Statistics
Matches: 181, Mismatches: 40, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
53 4 0.02
54 139 0.77
55 12 0.07
56 26 0.14
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (53 bp):
AATTACCGAAATACCCTGATTTGTAAAATTACAAAAATACCCTTGATTTGAAA
Found at i:41869838 original size:81 final size:80
Alignment explanation
Indices: 41869733--41869937 Score: 203
Period size: 81 Copynumber: 2.5 Consensus size: 80
41869723 TATAGGGTAG
* * * *
41869733 AATTACTGAAATATCCCTGGTTTGTAAAATTAAAAAAATACCCTTGACTTGAAAAATTACCGAAA
1 AATTACCGAAATA-CCCTGATTTGTAAAATTAAAAAAATACCCTTAACTTGAAAAATTACCAAAA
* *
41869798 TACGCTCGACCTATAA
65 TACCCTCGACCTAGAA
* *** * **
41869814 AATTATCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTAATTTTTAAAATTACCAAAA
1 AATTACCGAAATACCCT-GATTTGTAAAATTAAAAAAATACCCTTAACTTGAAAAATTACCAAAA
* ** *
41869879 TACCCTTGATTTGGAA
65 TACCCTCGACCTAGAA
* * *
41869895 AATTACCGAAATACCATTGATTTGGAAAATTACAAAAATACCC
1 AATTACCGAAATACC-CTGATTTGTAAAATTAAAAAAATACCC
41869938 CAGATTTACA
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
80 4 0.04
81 94 0.95
82 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (80 bp):
AATTACCGAAATACCCTGATTTGTAAAATTAAAAAAATACCCTTAACTTGAAAAATTACCAAAAT
ACCCTCGACCTAGAA
Found at i:41870349 original size:41 final size:41
Alignment explanation
Indices: 41870287--41870405 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
41870277 CGGAGGAAGA
* *
41870287 AATTGAGGATCGCATGATTGCTTAACGACCGTGGATCCA-C
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCATC
* *
41870327 TGATTGAGGATCGCATGGTTGCTTGACAACCGTGGATCCATC
1 -AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCATC
* * *
41870369 AATTAAGGATCGCATGGTTGCTTGATGACTGTGGATC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATC
41870406 TACCAGTGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCATC
Found at i:41870594 original size:22 final size:22
Alignment explanation
Indices: 41870552--41870616 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
41870542 GCCAATTATT
* *
41870552 CTGATTATGGCTTTGCT-CCAAC
1 CTGAATATGGCTATG-TGCCAAC
*
41870574 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTATGTGCCAAC
*
41870596 CTGATTATGGCTATGTGCCAA
1 CTGAATATGGCTATGTGCCAA
41870617 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
22 33 0.92
23 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
CTGAATATGGCTATGTGCCAAC
Found at i:41873321 original size:17 final size:18
Alignment explanation
Indices: 41873293--41873353 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
41873283 ATTTTGTTCG
41873293 GTTTTTGATAATTTCTAC
1 GTTTTTGATAATTTCTAC
*
41873311 GTTTTTG-TAA-TTCGA-
1 GTTTTTGATAATTTCTAC
41873326 -TTTTTGATAATTTCTAC
1 GTTTTTGATAATTTCTAC
41873343 GTTTTTG-TAAT
1 GTTTTTGATAAT
41873354 CGTTGCTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 8 0.22
17 7 0.19
18 13 0.35
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.57
Consensus pattern (18 bp):
GTTTTTGATAATTTCTAC
Found at i:41873331 original size:32 final size:32
Alignment explanation
Indices: 41873289--41873353 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
41873279 ATGTATTTTG
*
41873289 TTCGGTTTTTGATAATTTCTACGTTTTTGTAA
1 TTCGATTTTTGATAATTTCTACGTTTTTGTAA
41873321 TTCGATTTTTGATAATTTCTACGTTTTTGTAA
1 TTCGATTTTTGATAATTTCTACGTTTTTGTAA
41873353 T
1 T
41873354 CGTTGCTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (32 bp):
TTCGATTTTTGATAATTTCTACGTTTTTGTAA
Found at i:41874131 original size:44 final size:43
Alignment explanation
Indices: 41874066--41874194 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
41874056 ATATGTGTTC
* * *
41874066 TCGTGTAAGGTCACGTTTGGGACATTGGCATCGAT-TTGTGATT
1 TCGTGTAAGATCATGTCTGGGACATTGGCATCGATATT-TGATT
*
41874109 TACTTGTAAGATCATGTCTGGGACATTGGCATCG-TATTTGATT
1 T-CGTGTAAGATCATGTCTGGGACATTGGCATCGATATTTGATT
* * * * *
41874152 TCGTGTAAGACCCTGTCTAGGACAGTGGTATCGATATTTGATT
1 TCGTGTAAGATCATGTCTGGGACATTGGCATCGATATTTGATT
41874195 ACATGTGACA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.36
43 17 0.23
44 30 0.41
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (43 bp):
TCGTGTAAGATCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:41874175 original size:42 final size:43
Alignment explanation
Indices: 41874085--41874194 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 43
41874075 GTCACGTTTG
* * *
41874085 GGACATTGGCATCG-ATTTGTGATTTACTTGTAAGATCATGTCTG
1 GGACATTGGCATCGTA-TT-TGATTTACGTGTAAGACCATGTCTA
*
41874129 GGACATTGGCATCGTATTTGATTT-CGTGTAAGACCCTGTCTA
1 GGACATTGGCATCGTATTTGATTTACGTGTAAGACCATGTCTA
* *
41874171 GGACAGTGGTATCGATATTTGATT
1 GGACATTGGCATCG-TATTTGATT
41874195 ACATGTGACA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 26 0.45
43 15 0.26
44 16 0.28
45 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (43 bp):
GGACATTGGCATCGTATTTGATTTACGTGTAAGACCATGTCTA
Found at i:41877420 original size:42 final size:43
Alignment explanation
Indices: 41877319--41877458 Score: 167
Period size: 42 Copynumber: 3.3 Consensus size: 43
41877309 ATGTGTTCTT
* * * *
41877319 GTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATT-TGATTT-C
*
41877363 GTGTAAGACAATGTCTAGGACATTGGCATC-ATATTTGATTTC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATTTGATTTC
* * *
41877405 GTGTAAGACCTTGTCTAGGACAGTGGCATCAATATTTGATTAC
1 GTGTAAGACCATGTCTAGGACATTGGCATCAATATTTGATTTC
*
41877448 ATGTAAGACCA
1 GTGTAAGACCA
41877459 CGTTTGGAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 28 0.33
43 28 0.33
44 28 0.33
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACATTGGCATCAATATTTGATTTC
Found at i:41880290 original size:7 final size:7
Alignment explanation
Indices: 41880278--41880311 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
41880268 TAACAATTAG
41880278 TATATAA
1 TATATAA
41880285 TATATAA
1 TATATAA
41880292 TATATAA
1 TATATAA
41880299 TATATTAA
1 TATA-TAA
41880307 TATAT
1 TATAT
41880312 TATTTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TATATAA
Found at i:41883871 original size:12 final size:12
Alignment explanation
Indices: 41883854--41883883 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41883844 TTAGGCTGTT
41883854 ACACGGCCTACC
1 ACACGGCCTACC
*
41883866 ACACGGCCTAGC
1 ACACGGCCTACC
41883878 ACACGG
1 ACACGG
41883884 GCATGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.43, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:41895598 original size:28 final size:29
Alignment explanation
Indices: 41895566--41895626 Score: 115
Period size: 28 Copynumber: 2.1 Consensus size: 29
41895556 AGCGTGTGGT
41895566 CCCACTTAGGCCAAATAATGGGTCTTA-G
1 CCCACTTAGGCCAAATAATGGGTCTTAGG
41895594 CCCACTTAGGCCAAATAATGGGTCTTAGG
1 CCCACTTAGGCCAAATAATGGGTCTTAGG
41895623 CCCA
1 CCCA
41895627 TTTACAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (29 bp):
CCCACTTAGGCCAAATAATGGGTCTTAGG
Found at i:41895794 original size:28 final size:28
Alignment explanation
Indices: 41895734--41895794 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
41895724 AATGACCAAA
*
41895734 ATACCCCTAAGGGGTGAAAATTACTATT
1 ATACCCCTAAGGGGTGAAAATGACTATT
* * * *
41895762 CTACCCCTAATGGGTGGAAATGACTGTT
1 ATACCCCTAAGGGGTGAAAATGACTATT
41895790 ATACC
1 ATACC
41895795 TTAGAGGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGGGGTGAAAATGACTATT
Found at i:41911343 original size:24 final size:24
Alignment explanation
Indices: 41911316--41911377 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
41911306 TCACAAAGTT
* * **
41911316 CACTATCACTATCATCATAGTTTG
1 CACTATTACTATCATCATAGCTCA
41911340 CACTATTACTATCATCATAGCTCA
1 CACTATTACTATCATCATAGCTCA
41911364 CACTATTACTATCA
1 CACTATTACTATCA
41911378 ACTTCTTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (24 bp):
CACTATTACTATCATCATAGCTCA
Found at i:41913609 original size:466 final size:467
Alignment explanation
Indices: 41912974--41913909 Score: 1856
Period size: 466 Copynumber: 2.0 Consensus size: 467
41912964 ATTCTGGTTG
41912974 TTCCTATCATATGTGTCCCATTCGGGAATGGCTCTTTGAATTTCAAAAACTAGATGAAGGGGTTG
1 TTCCTATCATATGTGTCCCATTCGGGAATGGCTCTTTGAATTTCAAAAACTAGATGAAGGGGTTG
41913039 TTTACATGGGTAATGATAACACGTGTAAAATAGCCGGGATAGGTTCAATTAAACTGAGGAGTCAT
66 TTTACATGGGTAATGATAACACG-GTAAAATAGCCGGGATAGGTTCAATTAAACTGAGGAGTCAT
41913104 GATGGATCTACTAGAATTTTGCGGGATGTACGATATGTCCCAAAGTTGAAGAAGAATCTCATCTC
130 GATGGATCTACTAGAATTTTGCGGGATGTACGATATGTCCCAAAGTTGAAGAAGAATCTCATCTC
41913169 TTTGGGGTCGTTAGAATCTAAAGGCCTAGTTGTGACAATACGAGATGGAGTTCTTAAAGCAACTT
195 TTTGGGGTCGTTAGAATCTAAAGGCCTAGTTGTGACAATACGAGATGGAGTTCTTAAAGCAACTT
41913234 CAGGAGCATTGGTGATGTTGAAAGGCATAAGAAAGAACAATCTGTATTACTACCAAGGTAGTACA
260 CAGGAGCATTGGTGATGTTGAAAGGCATAAGAAAGAACAATCTGTATTACTACCAAGGTAGTACA
41913299 GTGGTCGGGACAACAGCAGCAGCAATTACGAGTACCAAGAAGGACGCTGAGGCAACACAGCTGTG
325 GTGGTCGGGACAACAGCAGCAGCAATTACGAGTACCAAGAAGGACGCTGAGGCAACACAGCTGTG
41913364 GCATATGCGTTTGGGCCATGCTGGTGAAAAATCCTTGCAAACTCTAGCCAAGCAAGGATTATTGA
390 GCATATGCGTTTGGGCCATGCTGGTGAAAAATCCTTGCAAACTCTAGCCAAGCAAGGATTATTGA
41913429 AAGGTACAAAGAC
455 AAGGTACAAAGAC
41913442 TTCCTATCATATGTGTCCCATTCGGGAATGGCTCTTTGAATTTCAAAAACTAGATGAAGGGGTTG
1 TTCCTATCATATGTGTCCCATTCGGGAATGGCTCTTTGAATTTCAAAAACTAGATGAAGGGGTTG
41913507 TTTACATGGGTAATGATAACAC-GTAAAATAGCCGGGATAGGTTCAATTAAACTGAGGAGTCATG
66 TTTACATGGGTAATGATAACACGGTAAAATAGCCGGGATAGGTTCAATTAAACTGAGGAGTCATG
41913571 ATGGATCTACTAGAATTTTGCGGGATGTACGATATGTCCCAAAGTTGAAGAAGAATCTCATCTCT
131 ATGGATCTACTAGAATTTTGCGGGATGTACGATATGTCCCAAAGTTGAAGAAGAATCTCATCTCT
41913636 TTGGGGTCGTTAGAATCTAAAGGCCTAGTTGTGACAATACGAGATGGAGTTCTTAAAGCAACTTC
196 TTGGGGTCGTTAGAATCTAAAGGCCTAGTTGTGACAATACGAGATGGAGTTCTTAAAGCAACTTC
41913701 AGGAGCATTGGTGATGTTGAAAGGCATAAGAAAGAACAATCTGTATTACTACCAAGGTAGTACAG
261 AGGAGCATTGGTGATGTTGAAAGGCATAAGAAAGAACAATCTGTATTACTACCAAGGTAGTACAG
41913766 TGGTCGGGACAACAGCAGCAGCAATTACGAGTACCAAGAAGGACGCTGAGGCAACACAGCTGTGG
326 TGGTCGGGACAACAGCAGCAGCAATTACGAGTACCAAGAAGGACGCTGAGGCAACACAGCTGTGG
41913831 CATATGCGTTTGGGCCATGCTGGTGAAAAATCCTTGCAAACTCTAGCCAAGCAAGGATTATTGAA
391 CATATGCGTTTGGGCCATGCTGGTGAAAAATCCTTGCAAACTCTAGCCAAGCAAGGATTATTGAA
41913896 AGGTACAAAGAC
456 AGGTACAAAGAC
41913908 TT
1 TT
41913910 GCAAACTTGA
Statistics
Matches: 468, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
466 381 0.81
468 87 0.19
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (467 bp):
TTCCTATCATATGTGTCCCATTCGGGAATGGCTCTTTGAATTTCAAAAACTAGATGAAGGGGTTG
TTTACATGGGTAATGATAACACGGTAAAATAGCCGGGATAGGTTCAATTAAACTGAGGAGTCATG
ATGGATCTACTAGAATTTTGCGGGATGTACGATATGTCCCAAAGTTGAAGAAGAATCTCATCTCT
TTGGGGTCGTTAGAATCTAAAGGCCTAGTTGTGACAATACGAGATGGAGTTCTTAAAGCAACTTC
AGGAGCATTGGTGATGTTGAAAGGCATAAGAAAGAACAATCTGTATTACTACCAAGGTAGTACAG
TGGTCGGGACAACAGCAGCAGCAATTACGAGTACCAAGAAGGACGCTGAGGCAACACAGCTGTGG
CATATGCGTTTGGGCCATGCTGGTGAAAAATCCTTGCAAACTCTAGCCAAGCAAGGATTATTGAA
AGGTACAAAGAC
Found at i:41914732 original size:21 final size:22
Alignment explanation
Indices: 41914703--41914749 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
41914693 CAGAAGGAGT
*
41914703 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
41914725 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
41914746 GAGT
1 GAGT
41914750 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:41919043 original size:43 final size:43
Alignment explanation
Indices: 41918996--41919197 Score: 284
Period size: 43 Copynumber: 4.7 Consensus size: 43
41918986 AATGCCAACA
*
41918996 TCCAAGACATGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* * *
41919039 TCCAAGACAGGGTCTTACACG-AATCAAATA-CAATGCCGA-TG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCC-ACTG
* *
41919080 TCCCAGACATGGTCTTACACGTAATCACATATTGATGCCACTG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* *
41919123 TCCGAGACGTGGTCTTACACGTAATCACATATCGATGCCACTG
1 TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
* *
41919166 TCCCAGACAGGGTCTTACACGTAATCACATAT
1 TCCAAGACATGGTCTTACACGTAATCACATAT
41919198 AAAAAATCCT
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
41 27 0.19
42 18 0.13
43 95 0.68
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCAAGACATGGTCTTACACGTAATCACATATCGATGCCACTG
Found at i:41919123 original size:84 final size:84
Alignment explanation
Indices: 41918982--41919197 Score: 292
Period size: 84 Copynumber: 2.5 Consensus size: 84
41918972 CACACATATC
** * *
41918982 ATACAATGCCAACATCCAAGACATGGTCTTACATGTAATCACATATCGATGCCACTGTCCAAGAC
1 ATACAATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGAC
41919047 AG-GGTCTTACACG-AATCAA
65 -GTGGTCTTACACGTAATCAA
* *
41919066 ATACAATGCCGATGTCCCAGACATGGTCTTACACGTAATCACATATTGATGCCACTGTCCGAGAC
1 ATACAATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGAC
*
41919131 GTGGTCTTACACGTAATCAC
65 GTGGTCTTACACGTAATCAA
* *
41919151 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCACATAT
1 ATA-CAATGCCA-TGTCCCAGACATGGTCTTACACGTAATCACATAT
41919198 AAAAAATCCT
Statistics
Matches: 118, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
83 1 0.01
84 69 0.58
85 9 0.08
86 39 0.33
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (84 bp):
ATACAATGCCATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCAAGACG
TGGTCTTACACGTAATCAA
Found at i:41919521 original size:15 final size:15
Alignment explanation
Indices: 41919497--41919526 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41919487 AGTTCTTGAT
41919497 TAAACATATTCAAAC
1 TAAACATATTCAAAC
*
41919512 TAAACTTATTCAAAC
1 TAAACATATTCAAAC
41919527 ATAATTCCAT
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAACATATTCAAAC
Found at i:41922133 original size:27 final size:27
Alignment explanation
Indices: 41922103--41922280 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
41922093 ATATTGAGCC
* *
41922103 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
41922130 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41922157 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
41922185 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
41922212 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41922239 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
41922266 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41922281 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41922215 original size:55 final size:54
Alignment explanation
Indices: 41922103--41922280 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
41922093 ATATTGAGCC
* * *
41922103 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
41922157 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
41922212 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
41922266 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41922281 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:41930138 original size:27 final size:27
Alignment explanation
Indices: 41930108--41930285 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
41930098 ATATTGAGCC
* *
41930108 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
41930135 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
41930162 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
41930190 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
41930217 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41930244 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
41930271 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41930286 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41930220 original size:55 final size:54
Alignment explanation
Indices: 41930108--41930285 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
41930098 ATATTGAGCC
* * *
41930108 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
41930162 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
41930217 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
41930271 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41930286 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:41951561 original size:40 final size:40
Alignment explanation
Indices: 41951269--41951554 Score: 477
Period size: 40 Copynumber: 7.2 Consensus size: 40
41951259 AACCCAAGTA
* *
41951269 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
41951308 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
41951348 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41951388 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41951428 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
**
41951468 CCTTCGGGACTTAGCCCGGATATAGAAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
41951508 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
41951548 CCTTCGG
1 CCTTCGG
41951555 ATCTTAGTTC
Statistics
Matches: 236, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 13 0.06
40 222 0.94
41 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:41952984 original size:13 final size:13
Alignment explanation
Indices: 41952968--41952995 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41952958 TTTATTATTT
41952968 TTAACACAAAATA
1 TTAACACAAAATA
41952981 TTAACACAAAATA
1 TTAACACAAAATA
41952994 TT
1 TT
41952996 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:41966256 original size:48 final size:47
Alignment explanation
Indices: 41966154--41966419 Score: 211
Period size: 48 Copynumber: 5.6 Consensus size: 47
41966144 TGTAAGCCAC
* * *
41966154 TGTAAGA-CATGTTTGGGACAT-GCATCGGCTACG--AGATGTGTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATAGAAGTGTCAG
* *
41966198 TGGAAAACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACG-ATAGAAGTGTCAG
* * * *
41966246 TGTAAGACCATATCTGGGACATGGCATCAGCACGGATATGTA-TGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATA-GAAGTG-TC-AG
* * ***
41966296 TGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCTA-TAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-TAGAAGT-GTCAG
* * * * * ***
41966345 TGTAAGACCATGTCTGGGACATGGCGTCGACATGATGGATGAACCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAAGTGTCAG
41966392 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
41966420 AGCATTATAC
Statistics
Matches: 180, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
44 5 0.03
45 16 0.09
46 8 0.04
47 31 0.17
48 46 0.26
49 35 0.19
50 35 0.19
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACGATAGAAGTGTCAG
Found at i:41966356 original size:49 final size:48
Alignment explanation
Indices: 41966204--41966416 Score: 202
Period size: 50 Copynumber: 4.4 Consensus size: 48
41966194 TCAATGGAAA
* * * *
41966204 ACCATGTCTGGGACATGGCATCGGCAC-GTATAG-AAGTGTCAGTGTAAG
1 ACCATGTCTGGGACATGGCGTCGGC-CTG-ATTGTATGAGTCAGTGTAAG
* * * *
41966252 ACCATATCTGGGACATGGCATCAGCACGGATATGTATGAG-CTAGTGTAAG
1 ACCATGTCTGGGACATGGCGTCGGC-CTGAT-TGTATGAGTC-AGTGTAAG
*
41966302 ACCATGTCTGGGACATGGCGTCGGCCTCGATTTCTAT-AGTCAGTGTAAG
1 ACCATGTCTGGGACATGGCGTCGGCCT-GA-TTGTATGAGTCAGTGTAAG
* * * **
41966351 ACCATGTCTGGGACATGGCGTCGACATGA-TGGATGAACCAGTGTAAG
1 ACCATGTCTGGGACATGGCGTCGGCCTGATTGTATGAGTCAGTGTAAG
41966398 ACCATGTCTGGGACATGGC
1 ACCATGTCTGGGACATGGC
41966417 ATCAGCATTA
Statistics
Matches: 141, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
46 3 0.02
47 29 0.21
48 29 0.21
49 39 0.28
50 40 0.28
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
ACCATGTCTGGGACATGGCGTCGGCCTGATTGTATGAGTCAGTGTAAG
Found at i:41966364 original size:99 final size:96
Alignment explanation
Indices: 41966241--41966416 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
41966231 GTATAGAAGT
* * *
41966241 GTCAGTGTAAGACCATATCTGGGACATGGCATCAGCACGGAT-ATGTATGAGCTAGTGTAAGACC
1 GTCAGTGTAAGACCATATCTGGGACATGGCATC-G-AC--ATGATGGATGAACCAGTGTAAGACC
41966305 ATGTCTGGGACATGGCGTCGGCCTCGATTTCTATA
62 ATGTCTGGGACATGGCGTCGGCCTCGATTTCTATA
* *
41966340 GTCAGTGTAAGACCATGTCTGGGACATGGCGTCGACATGATGGATGAACCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATATCTGGGACATGGCATCGACATGATGGATGAACCAGTGTAAGACCATGT
41966405 CTGGGACATGGC
66 CTGGGACATGGC
41966417 ATCAGCATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 35 0.49
97 2 0.03
98 1 0.01
99 31 0.44
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (96 bp):
GTCAGTGTAAGACCATATCTGGGACATGGCATCGACATGATGGATGAACCAGTGTAAGACCATGT
CTGGGACATGGCGTCGGCCTCGATTTCTATA
Found at i:41981528 original size:46 final size:46
Alignment explanation
Indices: 41981478--41981653 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
41981468 TGGTTGAGCA
41981478 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
41981524 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
41981569 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41981617 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41981654 GCGGGTTACA
Statistics
Matches: 110, 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 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41981634 original size:93 final size:93
Alignment explanation
Indices: 41981475--41981645 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41981465 GGATGGTTGA
* *
41981475 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
41981540 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
41981568 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
41981633 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41981646 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:41984970 original size:37 final size:37
Alignment explanation
Indices: 41984910--41985059 Score: 221
Period size: 37 Copynumber: 4.1 Consensus size: 37
41984900 TTACGAAGTT
* * * *
41984910 TTACCCAGACATAATCTCCACACGAAGTTATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
* *
41984947 TTACCCGGACAAAATCCCTACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
41984984 TTACCCGGACAAAATCCCCACACGTAA-TCATCGGGTC
1 TTACCCGGACAAAATCCCCACACG-AAGTCATCGGGTC
*
41985021 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
41985058 TT
1 TT
41985060 TAGAGCTCGG
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.01
37 100 0.98
38 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (37 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
Found at i:41985256 original size:47 final size:47
Alignment explanation
Indices: 41985178--41985402 Score: 317
Period size: 47 Copynumber: 4.7 Consensus size: 47
41985168 CCCTTCGGGA
* * * * * *
41985178 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41985225 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41985272 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41985319 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41985368 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
41985403 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 115 0.71
49 46 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41985379 original size:96 final size:94
Alignment explanation
Indices: 41985178--41985402 Score: 326
Period size: 96 Copynumber: 2.4 Consensus size: 94
41985168 CCCTTCGGGA
* * * * *
41985178 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
41985243 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
41985272 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
41985337 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
41985368 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
41985403 AGAATCCTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 47 0.40
95 1 0.01
96 69 0.59
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:41988394 original size:49 final size:48
Alignment explanation
Indices: 41988341--41988513 Score: 145
Period size: 49 Copynumber: 3.6 Consensus size: 48
41988331 TGATGTGTGT
* *
41988341 CAGTGTAAGACCTGTCTGAGATATGACATCGACACTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGAGACATGACATCGAC-CTGATAGATGAAAGC
* * * * * * * *
41988390 CAGTGTAAAACCTATCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGAGACATGACATCGACCT-GATAGATGAAAGC
* ** **
41988439 CAGTGTAAGACCTGTCT-AGGACATGGCATCGATTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGA-GACATGACATCGA-CCTGATAGATGAAAGC
41988486 CAGTGTAAGACCATGTCTGAGACATGAC
1 CAGTGTAAGACC-TGTCTGAGACATGAC
41988514 GTCGGTATCT
Statistics
Matches: 97, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
47 16 0.16
48 14 0.14
49 66 0.68
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGAGACATGACATCGACCTGATAGATGAAAGC
Found at i:41991424 original size:37 final size:37
Alignment explanation
Indices: 41991374--41991452 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41991364 TTATTACGAA
* * *
41991374 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41991411 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41991448 GTCTT
1 GTCTT
41991453 TAGAATTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:41991649 original size:47 final size:47
Alignment explanation
Indices: 41991571--41992334 Score: 1217
Period size: 47 Copynumber: 16.1 Consensus size: 47
41991561 CCCTTCGGGA
* * * * * *
41991571 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41991618 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41991665 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41991713 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41991762 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41991809 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41991856 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41991904 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41991951 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41991998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41992045 CCTATCACATATGTATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATA--TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41992094 CTTATCACGTATATACACTTTCACATTCATGACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41992141 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41992188 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41992235 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41992284 CTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41992331 CTTA
1 CTTA
41992335 CTATCATTTC
Statistics
Matches: 671, Mismatches: 36, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
46 11 0.02
47 433 0.65
48 78 0.12
49 149 0.22
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41992098 original size:143 final size:141
Alignment explanation
Indices: 41991571--41992334 Score: 1235
Period size: 143 Copynumber: 5.4 Consensus size: 141
41991561 CCCTTCGGGA
* * * * * * * * * *
41991571 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
41991636 TTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACA
41991700 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
41991713 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
41991778 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
41991843 TCGGCCATTAGGC
129 TCGGCCATTAGGC
41991856 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
*
41991920 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
41991985 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
41991998 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATGTATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTA--TATAC
* * * *
41992063 ACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACGTATATACACTTTCACATTCATGACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
41992128 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
41992141 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
41992206 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACA
41992271 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
41992284 CTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
41992335 CTATCATTTC
Statistics
Matches: 587, Mismatches: 27, Indels: 15
0.93 0.04 0.02
Matches are distributed among these distances:
141 97 0.17
142 148 0.25
143 251 0.43
144 77 0.13
145 14 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:41992136 original size:190 final size:189
Alignment explanation
Indices: 41991571--41992334 Score: 1285
Period size: 190 Copynumber: 4.0 Consensus size: 189
41991561 CCCTTCGGGA
* * * * * * * * *
41991571 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
41991636 TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACAT
*
41991701 CGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41991762 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
41991827 TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACAT
* *
41991892 CGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41991951 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
41992016 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATGTATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATACACTTTCACATTCATCACA
* * *
41992081 TCGGCCATTAGGTCTTATCACGTATATACACTTTCACATTCATGACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41992141 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
41992206 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATACACTTTCACATTCATCACA
* *
41992271 TCGGCCATTAGGCCTTATCATATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41992331 CTTA
1 CTTA
41992335 CTATCATTTC
Statistics
Matches: 543, Mismatches: 28, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
189 129 0.24
190 274 0.50
191 140 0.26
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (189 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41996012 original size:15 final size:15
Alignment explanation
Indices: 41995992--41996022 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
41995982 GCAATTTGTA
41995992 ACCTATCTGGAAGGC
1 ACCTATCTGGAAGGC
41996007 ACCTATCTGGAAGGC
1 ACCTATCTGGAAGGC
41996022 A
1 A
41996023 ACAGTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (15 bp):
ACCTATCTGGAAGGC
Done.