Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 138 of 295
Found at i:47094869 original size:3 final size:3
Alignment explanation
Indices: 47094861--47094885 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47094851 TCTATTGTAT
47094861 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
47094886 GTAAAACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47098516 original size:26 final size:26
Alignment explanation
Indices: 47098460--47098510 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47098450 TTGGCATTTA
47098460 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
47098486 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
47098511 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:47103020 original size:120 final size:120
Alignment explanation
Indices: 47102823--47104525 Score: 3298
Period size: 120 Copynumber: 14.2 Consensus size: 120
47102813 TTTTCAAGTT
47102823 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47102888 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47102943 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47103008 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103063 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47103128 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103183 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47103248 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103303 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47103368 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103423 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47103488 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103543 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47103608 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103663 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47103728 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103783 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47103848 TAATATAAGAACATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47103903 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47103968 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47104023 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47104088 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
*
47104143 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
47104208 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47104263 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47104328 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
* *
47104383 TTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
47104448 TAATATAATAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
47104503 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
47104526 TAAATATGAT
Statistics
Matches: 1570, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 1570 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
Found at i:47104142 original size:18 final size:17
Alignment explanation
Indices: 47104114--47104148 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47104104 ATTATTAAGA
*
47104114 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47104131 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47104149 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47104382 original size:18 final size:17
Alignment explanation
Indices: 47104354--47104388 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
47104344 ATTATTAAGA
47104354 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
47104371 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
47104389 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:47104769 original size:16 final size:16
Alignment explanation
Indices: 47104744--47104812 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
47104734 GATTAGCTAT
*
47104744 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
47104760 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
47104777 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
47104793 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
47104809 TACA
1 TACA
47104813 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47104787 original size:33 final size:32
Alignment explanation
Indices: 47104744--47104812 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
47104734 GATTAGCTAT
47104744 TACACATCTAATCCAATACACCTCTAATCCCAA
1 TACACATCTAATCCAATACACCTCTAAT-CCAA
* *
47104777 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACACCTCTAATCCAA
47104809 TACA
1 TACA
47104813 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACACCTCTAATCCAA
Found at i:47108803 original size:39 final size:38
Alignment explanation
Indices: 47108760--47108847 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 38
47108750 ACCGGTTATT
* *
47108760 AGCCTGCTAGGTATAAACCTGAACTTATTATCGGCACGA
1 AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCAC-A
*
47108799 AGCCTGCTAGGTATAAACCTGAATTTATCACCGGCACA
1 AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACA
47108837 AGGCCTGCTAG
1 A-GCCTGCTAG
47108848 ACATTAAGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 2 0.04
39 43 0.96
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (38 bp):
AGCCTGCTAGGTATAAACCTGAACTTATCACCGGCACA
Found at i:47116246 original size:16 final size:17
Alignment explanation
Indices: 47116225--47116260 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47116215 AATCATCGTA
*
47116225 TTTTTATATA-ATTTAT
1 TTTTTATATATATTCAT
47116241 TTTTTATATATATTCAT
1 TTTTTATATATATTCAT
47116258 TTT
1 TTT
47116261 GGTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATATATATTCAT
Found at i:47117347 original size:45 final size:45
Alignment explanation
Indices: 47117165--47117363 Score: 256
Period size: 45 Copynumber: 4.4 Consensus size: 45
47117155 ACTAAACGAG
* * *
47117165 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGAA
* * * *
47117210 TAAGACCACAGCTAAAAGAAGTTATGGCATCACGATTCTATCGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGAA
* *
47117255 TAAGACCATAGCTAAAAGATGTTATGGCATCACGATTCTATCGAA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGAA
* * **
47117300 TAAGACCATAGCTGAAAGACGTTATGGCATCACAAATC-AAAGAAA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCG-AA
*
47117345 TAAGACCATAGTTGAAAGA
1 TAAGACCATAGCTGAAAGA
47117364 AACTATGGCA
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 2 0.01
45 136 0.99
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGAA
Found at i:47117349 original size:90 final size:90
Alignment explanation
Indices: 47117142--47117380 Score: 257
Period size: 90 Copynumber: 2.7 Consensus size: 90
47117132 TGAAAGAAAC
* * * * *
47117142 TATGGCACCATAAA-CTAAACGAGTAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTAT
1 TATGGCATCACAAATCTAAA-GAATAAGACCATAGCTAAAAGACATTATGGCATCACGATTCTAT
*
47117206 CGAGTAAGACCACAGCTAAAAGAAGT
65 CGAATAAGACCACAGCTAAAAGAAGT
* * ** * **
47117232 TATGGCATCACGATTCTATCGAGTAAGACCATAGCTAAAAGATGTTATGGCATCACGATTCTATC
1 TATGGCATCACAAATCTAAAGAATAAGACCATAGCTAAAAGACATTATGGCATCACGATTCTATC
* * *
47117297 GAATAAGACCATAGCTGAAAGACGT
66 GAATAAGACCACAGCTAAAAGAAGT
* * * * *
47117322 TATGGCATCACAAATC-AAAGAAATAAGACCATAGTTGAAAGAAACTATGGCAACACGAT
1 TATGGCATCACAAATCTAAAG-AATAAGACCATAGCTAAAAGACATTATGGCATCACGAT
47117381 GGGAAATGAA
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
89 2 0.02
90 117 0.96
91 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (90 bp):
TATGGCATCACAAATCTAAAGAATAAGACCATAGCTAAAAGACATTATGGCATCACGATTCTATC
GAATAAGACCACAGCTAAAAGAAGT
Found at i:47117371 original size:45 final size:45
Alignment explanation
Indices: 47117298--47117454 Score: 149
Period size: 45 Copynumber: 3.5 Consensus size: 45
47117288 GATTCTATCG
* ** * *
47117298 AATAAGACCATAGCTGAAAGACGTTATGGCATCACAAATCAAAGA
1 AATAAGACCATAGTTGAAAGAAATTATGGCATCACAGATGAAAGA
* *
47117343 AATAAGACCATAGTTGAAAGAAACTATGGCAACAC-GATGGGAAATG-
1 AATAAGACCATAGTTGAAAGAAATTATGGCATCACAGAT--GAAA-GA
* * * *
47117389 AATAAGACCATGGTTTAAAGATATTATGGCATCA-AGATGAGAATA
1 AATAAGACCATAGTTGAAAGAAATTATGGCATCACAGATGA-AAGA
*
47117434 AATAAGACCATGGTTGAAAGA
1 AATAAGACCATAGTTGAAAGA
47117455 CACCAAGGCA
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
44 4 0.04
45 52 0.57
46 35 0.38
47 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGAAATTATGGCATCACAGATGAAAGA
Found at i:47117409 original size:46 final size:45
Alignment explanation
Indices: 47117342--47117454 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 45
47117332 CAAATCAAAG
* * *
47117342 AAATAAGACCATAGTTGAAAGAAACTATGGCAACACGATGGGAAAT
1 AAATAAGACCATGGTTGAAAGAAACTATGGCAACAAGATGAG-AAT
* * * * *
47117388 GAATAAGACCATGGTTTAAAGATATTATGGCATCAAGATGAGAAT
1 AAATAAGACCATGGTTGAAAGAAACTATGGCAACAAGATGAGAAT
47117433 AAATAAGACCATGGTTGAAAGA
1 AAATAAGACCATGGTTGAAAGA
47117455 CACCAAGGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 23 0.40
46 34 0.60
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (45 bp):
AAATAAGACCATGGTTGAAAGAAACTATGGCAACAAGATGAGAAT
Found at i:47118598 original size:8 final size:8
Alignment explanation
Indices: 47118585--47118614 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
47118575 AAATGAAGTG
47118585 TGTGTGTA
1 TGTGTGTA
47118593 TGTGTGTA
1 TGTGTGTA
47118601 TGTGTGATA
1 TGTGTG-TA
47118610 TGTGT
1 TGTGT
47118615 TTTGACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (8 bp):
TGTGTGTA
Found at i:47125716 original size:42 final size:42
Alignment explanation
Indices: 47125597--47125718 Score: 102
Period size: 42 Copynumber: 2.9 Consensus size: 42
47125587 TGACATTGTT
** *
47125597 ATGAGATTTCATGTAAAACCACGTCTGGGACATGTCATCGAA
1 ATGAGATCCCATGTAAAACCACGTCTGGGACATGGCATCGAA
** * ** ** * *
47125639 ATGAGATTTCAT-AAAACACCATATCTGATATATGGCATCGAT
1 ATGAGATCCCATGTAAA-ACCACGTCTGGGACATGGCATCGAA
* *
47125681 GTGAGATCCCATGTAAGACCACGTCTGGGACATGGCAT
1 ATGAGATCCCATGTAAAACCACGTCTGGGACATGGCAT
47125719 TGGTATCTTA
Statistics
Matches: 60, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
41 3 0.05
42 55 0.92
43 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
ATGAGATCCCATGTAAAACCACGTCTGGGACATGGCATCGAA
Found at i:47127118 original size:34 final size:34
Alignment explanation
Indices: 47127074--47127169 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 34
47127064 GTACAGTCAG
* *
47127074 GGCCTAAGCCCATATTAGTAGCAATATCAGTGTA
1 GGCCTTAGCCCATATTAGTAGCAGTATCAGTGTA
* * *
47127108 GGCCTTAGCCCAT-TACAGTAGCAGTATTAGTGTG
1 GGCCTTAGCCCATAT-TAGTAGCAGTATCAGTGTA
47127142 GGCCTTAGCCCA-ATTTAGTA-CAGTATCA
1 GGCCTTAGCCCATA-TTAGTAGCAGTATCA
47127170 AAAATACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
33 8 0.15
34 43 0.83
35 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
GGCCTTAGCCCATATTAGTAGCAGTATCAGTGTA
Found at i:47127231 original size:22 final size:23
Alignment explanation
Indices: 47127192--47127234 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
47127182 GAGATCCTAC
*
47127192 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
47127215 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
47127235 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:47135862 original size:44 final size:45
Alignment explanation
Indices: 47135809--47135911 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
47135799 TGTCTTTGAC
* * * *
47135809 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
47135853 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
47135899 ATGGACTTACATG
1 ATGGACTTACATG
47135912 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:47135910 original size:46 final size:44
Alignment explanation
Indices: 47135831--47135916 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
47135821 GAATTATTCT
*
47135831 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
47135875 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
47135917 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:47139777 original size:17 final size:18
Alignment explanation
Indices: 47139736--47139778 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47139726 TGTATTTACT
47139736 TATTATATAAGTAAATAG
1 TATTATATAAGTAAATAG
*
47139754 TAATATA-AAGTAAAATA-
1 TATTATATAAGT-AAATAG
47139771 TATTATAT
1 TATTATAT
47139779 TATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
TATTATATAAGTAAATAG
Found at i:47141082 original size:21 final size:21
Alignment explanation
Indices: 47141058--47141104 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
47141048 ATACATAGCT
47141058 TATTATTGTTTTAAGTATTAG
1 TATTATTGTTTTAAGTATTAG
47141079 TATTATTGTTTTAAGTATTAG
1 TATTATTGTTTTAAGTATTAG
47141100 TATTA
1 TATTA
47141105 GTTTATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (21 bp):
TATTATTGTTTTAAGTATTAG
Found at i:47143096 original size:24 final size:22
Alignment explanation
Indices: 47143052--47143097 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47143042 TTCTCTAACC
* *
47143052 TCTTTTCAATTTCTATGAAAAA
1 TCTTTTCAATTACTATAAAAAA
47143074 TCTTTTCAAGTTCACTATAAAAAA
1 TCTTTTCAA-TT-ACTATAAAAAA
47143098 ACTAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (22 bp):
TCTTTTCAATTACTATAAAAAA
Found at i:47143205 original size:20 final size:20
Alignment explanation
Indices: 47143182--47143219 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47143172 AATTAAGAAA
*
47143182 ATTAAATTAAAAATAAAAGT
1 ATTAAAATAAAAATAAAAGT
47143202 ATTAAAATAAAAATAAAA
1 ATTAAAATAAAAATAAAA
47143220 ATGACTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
ATTAAAATAAAAATAAAAGT
Found at i:47143228 original size:21 final size:20
Alignment explanation
Indices: 47143184--47143228 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47143174 TTAAGAAAAT
* * *
47143184 TAAATTAAAAATAAAAGTAT
1 TAAAATAAAAATAAAAATAC
47143204 TAAAATAAAAATAAAAATGAC
1 TAAAATAAAAATAAAAAT-AC
47143225 TAAA
1 TAAA
47143229 TTAATAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
TAAAATAAAAATAAAAATAC
Found at i:47146397 original size:41 final size:41
Alignment explanation
Indices: 47146335--47146477 Score: 142
Period size: 41 Copynumber: 3.5 Consensus size: 41
47146325 AAGAAAATAT
*
47146335 TAGCAGGCTTTGTGCCAGTGTATATTATCAAGTTTTGTGCC
1 TAGCAGGCTTTGTGCCAGTGTATATTATCAAGCTTTGTGCC
* * * * *
47146376 TAGCAGGCTTTGTGTCGGTGTATATTATTAGGCTTTGTGTC
1 TAGCAGGCTTTGTGCCAGTGTATATTATCAAGCTTTGTGCC
* * * * * * *
47146417 TAGTAGGCTTTGTGCTAGTGTAAATTATTAGGCATTGAGCC
1 TAGCAGGCTTTGTGCCAGTGTATATTATCAAGCTTTGTGCC
* * *
47146458 TACCAAGCTTCGTGCCAGTG
1 TAGCAGGCTTTGTGCCAGTG
47146478 AATTATATTG
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.38
Consensus pattern (41 bp):
TAGCAGGCTTTGTGCCAGTGTATATTATCAAGCTTTGTGCC
Found at i:47146425 original size:16 final size:15
Alignment explanation
Indices: 47146404--47146435 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
47146394 TGTATATTAT
47146404 TAGGCTTTGTGTCTAG
1 TAGGCTTTGTG-CTAG
47146420 TAGGCTTTGTGCTAG
1 TAGGCTTTGTGCTAG
47146435 T
1 T
47146436 GTAAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.44
Consensus pattern (15 bp):
TAGGCTTTGTGCTAG
Found at i:47148944 original size:44 final size:43
Alignment explanation
Indices: 47148861--47149021 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
47148851 TAGGATCCGA
* * * *
47148861 TATGTGTTTCCGTGTAAGACCACATCTAGGACGTTGGCATCGATT
1 TATGT-TTTACGTGTAAGACCACGTCTGGGAC-ATGGCATCGATT
* *
47148906 TATGTTTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TA
1 TATGTTTTACGTGTAAGACCACGTCTGGGACAT-GGCATCGATT
* * * *
47148949 TCTGATTT-CGTGTAAGA-CATTGTTTGGGACAGTGGCATCGATGT
1 TATGTTTTACGTGTAAGACCA-CGTCTGGGACA-TGGCATCGAT-T
* *
47148993 T-TG-ATTACATGTAAGACCACGTCTGGGAC
1 TATGTTTTACGTGTAAGACCACGTCTGGGAC
47149022 GTTGGCATTG
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 28 0.29
43 28 0.29
44 32 0.34
45 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TATGTTTTACGTGTAAGACCACGTCTGGGACATGGCATCGATT
Found at i:47155806 original size:94 final size:93
Alignment explanation
Indices: 47155621--47155842 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 93
47155611 TTTGTGTGCT
*
47155621 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAAATCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAGTGTAAAACCATGTCTGG
* * * ** *
47155686 GAGATGGCATCGGTATTGAGACGAGAGCC
65 GACATAGCATCGGCACGGAGACGAGAGAC
* * * *
47155715 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA-A-GATGTGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA-GAGCCAGTGTAAAACCATGTCTGG
* * *
47155778 GACATAGCATCGGCACGGATATGTGAGAGAT
65 GACATAGCATCGGCACGGAGA--CGAGAGAC
*
47155809 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC
47155843 TCAATTTCGA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
91 2 0.02
92 36 0.34
94 48 0.45
95 14 0.13
96 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAGTGTAAAACCATGTCTGGG
ACATAGCATCGGCACGGAGACGAGAGAC
Found at i:47155822 original size:50 final size:47
Alignment explanation
Indices: 47155618--47155833 Score: 178
Period size: 46 Copynumber: 4.6 Consensus size: 47
47155608 TTATTTGTGT
* *
47155618 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACGAGATGTGAGA
* * * * * *
47155664 GCCAGTGTAAAATCATGTCTGGGAGATGGCATCGGTATTGAGA--CGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CGAGATGTGAGA
* *
47155712 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGT--G-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAGATGTGAGA
* *
47155757 TC-AGTGTAAGACCATGTCTGGGACATAGCATCGGCACGGATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC-GAGATGTGAGA
*
47155806 GATAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
47155834 GCGTCGGCCT
Statistics
Matches: 137, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.07
45 17 0.12
46 34 0.25
47 28 0.20
48 23 0.17
49 2 0.01
50 24 0.18
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAGATGTGAGA
Found at i:47158829 original size:28 final size:28
Alignment explanation
Indices: 47158797--47158856 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
47158787 GCTCCTTCCA
*
47158797 TTTTCT-CATTTTCTTCTCCTCTTCTTCT
1 TTTTCTCCA-TTTCTTCTCCTATTCTTCT
*
47158825 TTTTCTCCATTTCTTCTCTTATTCTTCT
1 TTTTCTCCATTTCTTCTCCTATTCTTCT
47158853 TTTT
1 TTTT
47158857 TTCTCTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTCTCCATTTCTTCTCCTATTCTTCT
Found at i:47158844 original size:19 final size:19
Alignment explanation
Indices: 47158816--47158868 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
47158806 TTTCTTCTCC
*
47158816 TCTTCTTCTTTTTCTCCATT
1 TCTTC-TCTTATTCTCCATT
* *
47158836 TCTTCTCTTATTCTTCTTT
1 TCTTCTCTTATTCTCCATT
* *
47158855 TTTTCTCTTCTTCT
1 TCTTCTCTTATTCT
47158869 TCTACTATCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTCTCTTATTCTCCATT
Found at i:47158849 original size:11 final size:10
Alignment explanation
Indices: 47158799--47158871 Score: 57
Period size: 11 Copynumber: 7.4 Consensus size: 10
47158789 TCCTTCCATT
47158799 TTCTCATTTTC
1 TTCTC-TTTTC
*
47158810 TTCTCCTCTTC
1 TTCT-CTTTTC
47158821 TTCT-TTTTC
1 TTCTCTTTTC
*
47158830 -TC-CATTTC
1 TTCTCTTTTC
47158838 TTCTCTTATTC
1 TTCTCTT-TTC
47158849 TTCT-TTTT-
1 TTCTCTTTTC
47158857 TTCTCTTCTTC
1 TTCTCTT-TTC
47158868 TTCT
1 TTCT
47158872 ACTATCCAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
8 10 0.20
9 10 0.20
10 6 0.12
11 23 0.46
12 1 0.02
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (10 bp):
TTCTCTTTTC
Found at i:47163542 original size:12 final size:12
Alignment explanation
Indices: 47163525--47163553 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
47163515 ATGTGAAAGG
47163525 ATGTGAGTATGT
1 ATGTGAGTATGT
47163537 ATGTGAGTATGT
1 ATGTGAGTATGT
47163549 ATGTG
1 ATGTG
47163554 CTTAAGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (12 bp):
ATGTGAGTATGT
Found at i:47163869 original size:29 final size:29
Alignment explanation
Indices: 47163809--47163878 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
47163799 TAATTTGATC
**
47163809 TAAATTTTAATATTTAAAAATTAAAAGAAT
1 TAAATTTTAA-AAATAAAAATTAAAAGAAT
47163839 TAAATTCTTAAAAATAAAAA-TATAAA-AAT
1 TAAATT-TTAAAAATAAAAATTA-AAAGAAT
47163868 TAAATTTTAAA
1 TAAATTTTAAA
47163879 TTTATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
30 16 0.44
31 4 0.11
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (29 bp):
TAAATTTTAAAAATAAAAATTAAAAGAAT
Found at i:47163878 original size:14 final size:14
Alignment explanation
Indices: 47163836--47163878 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
47163826 AAATTAAAAG
47163836 AATTAAATTCTTAAA
1 AATTAAATT-TTAAA
* * *
47163851 AATAAAAATATAAA
1 AATTAAATTTTAAA
47163865 AATTAAATTTTAAA
1 AATTAAATTTTAAA
47163879 TTTATAAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAATTTTAAA
Found at i:47169296 original size:17 final size:18
Alignment explanation
Indices: 47169264--47169297 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47169254 TATAAATTTC
*
47169264 ATTTTTATATTTAAATAT
1 ATTTTTATATTAAAATAT
47169282 ATTTTTA-ATTAAAATA
1 ATTTTTATATTAAAATA
47169298 ATAAGAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTATATTAAAATAT
Found at i:47169538 original size:7 final size:7
Alignment explanation
Indices: 47169517--47169568 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
47169507 TTAAAATATA
47169517 ATTATTT
1 ATTATTT
*
47169524 A-AATTT
1 ATTATTT
47169530 ATTATTT
1 ATTATTT
47169537 ATTATTT
1 ATTATTT
47169544 ATTATTT
1 ATTATTT
*
47169551 ATTACTT
1 ATTATTT
47169558 ATTATTT
1 ATTATTT
47169565 ATTA
1 ATTA
47169569 AACAACTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (7 bp):
ATTATTT
Found at i:47170177 original size:58 final size:58
Alignment explanation
Indices: 47170060--47170182 Score: 138
Period size: 58 Copynumber: 2.1 Consensus size: 58
47170050 ATTGGACTAA
** *
47170060 AAAAAAAGATTAGATACCAAATAAAGAAAAAGTGTCACGTTCAAGTACCAATTTAGAC
1 AAAAAAAGATTAGATACCAAATAAAGAAAAAGTGTCAAATTCAAGTACCAAATTAGAC
* * * * * * * * *
47170118 AAAAAAAGCTTAGATGCCAAATTACGATAAAGTGTCAAATTTATGTATCAAATTGGAC
1 AAAAAAAGATTAGATACCAAATAAAGAAAAAGTGTCAAATTCAAGTACCAAATTAGAC
47170176 AAAAAAA
1 AAAAAAA
47170183 AACTAAGTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (58 bp):
AAAAAAAGATTAGATACCAAATAAAGAAAAAGTGTCAAATTCAAGTACCAAATTAGAC
Found at i:47175777 original size:41 final size:41
Alignment explanation
Indices: 47175705--47175786 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
47175695 TCCAATAGAC
47175705 ATAATTAGATTCACCTAAAAGTGCCAAATGTATAATTGAAT
1 ATAATTAGATTCACCTAAAAGTGCCAAATGTATAATTGAAT
* * *
47175746 ATAATTAGATTCATCC-AAATGTGGCAGATGTATAATTGAAT
1 ATAATTAGATTCA-CCTAAAAGTGCCAAATGTATAATTGAAT
47175787 TGTCTTTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (41 bp):
ATAATTAGATTCACCTAAAAGTGCCAAATGTATAATTGAAT
Found at i:47176839 original size:22 final size:22
Alignment explanation
Indices: 47176789--47176832 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47176779 AAATGAGATA
47176789 AATTCTTTTAATTTCAAAAGCT
1 AATTCTTTTAATTTCAAAAGCT
47176811 AATTCTTTTAATTTCAAAAGCT
1 AATTCTTTTAATTTCAAAAGCT
47176833 TTTTCTTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTCTTTTAATTTCAAAAGCT
Found at i:47178101 original size:13 final size:13
Alignment explanation
Indices: 47178079--47178129 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
47178069 ATACTTACTG
*
47178079 TAATATAAATAAT
1 TAATAAAAATAAT
*
47178092 TAATAAAAAT-TT
1 TAATAAAAATAAT
*
47178104 TAATTAAAA-AAT
1 TAATAAAAATAAT
*
47178116 TAATAGAAATAAT
1 TAATAAAAATAAT
47178129 T
1 T
47178130 TATTATAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TAATAAAAATAAT
Found at i:47178116 original size:24 final size:25
Alignment explanation
Indices: 47178079--47178125 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
47178069 ATACTTACTG
*
47178079 TAATATAAATAATTAATAAAAATTT
1 TAATATAAAAAATTAATAAAAATTT
*
47178104 TAAT-TAAAAAATTAATAGAAAT
1 TAATATAAAAAATTAATAAAAAT
47178126 AATTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
TAATATAAAAAATTAATAAAAATTT
Found at i:47190007 original size:43 final size:42
Alignment explanation
Indices: 47189959--47190104 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 42
47189949 TTATTTTAAA
* * **
47189959 AAACGCCGCTAAAAATCATGACCTTTAGCGGCACTTTTCTTAC
1 AAACGCAGCTAAAAGTCA-GACCTTTAGCGGCACTTTTCCCAC
*
47190002 AAACGCAGCTAAAAGTCGCGACCTTTAGC-GCACTTTTCCCAC
1 AAACGCAGCTAAAAGTC-AGACCTTTAGCGGCACTTTTCCCAC
* * * *
47190044 AAACGCTGCTAAAAGCCAGAACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCAGCTAAAAGTCAG-ACCTTTAGCGGCACTTTTCCCAC
* *
47190087 AAACGCAACTAAAGGTCA
1 AAACGCAGCTAAAAGTCA
47190105 TAAAAATTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 35 0.41
43 50 0.58
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
AAACGCAGCTAAAAGTCAGACCTTTAGCGGCACTTTTCCCAC
Found at i:47191054 original size:21 final size:22
Alignment explanation
Indices: 47191022--47191074 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
47191012 CAACTTTCAG
47191022 ACACCATAAA-TTACAGCATTTA
1 ACACC-TAAATTTACAGCATTTA
*
47191044 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTTACAGCATTTA
*
47191066 ACACATAAA
1 ACACCTAAA
47191075 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (22 bp):
ACACCTAAATTTACAGCATTTA
Found at i:47194227 original size:14 final size:14
Alignment explanation
Indices: 47194208--47194250 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
47194198 TCAAAGGGAT
47194208 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
47194222 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
47194236 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
47194250 G
1 G
47194251 CAAGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:47194335 original size:14 final size:14
Alignment explanation
Indices: 47194316--47194345 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47194306 AATGGTGGAA
*
47194316 GGATTTTGATTTGG
1 GGATTTCGATTTGG
47194330 GGATTTCGATTTGG
1 GGATTTCGATTTGG
47194344 GG
1 GG
47194346 GAAAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.40, T:0.43
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:47195394 original size:21 final size:23
Alignment explanation
Indices: 47195357--47195400 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
47195347 TAGGCCTAAG
47195357 CCCCTAACCCTTTGAACCATAAA
1 CCCCTAACCCTTTGAACCATAAA
47195380 CCCC-AACCC-TTGAACCATAAA
1 CCCCTAACCCTTTGAACCATAAA
47195401 TCATAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (23 bp):
CCCCTAACCCTTTGAACCATAAA
Found at i:47195707 original size:41 final size:41
Alignment explanation
Indices: 47195662--47195770 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
47195652 TTAATATAAA
47195662 TAATGCTATGGTTTTTAGCGGCGTTTT-ACAAAAAGCGCCGC
1 TAATGCTATGGTTTTTAGCGGCGTTTTAAC-AAAAGCGCCGC
* * *
47195703 TAATGCTTTTGTTTTTAGCGGCGTTTTAACAGAAGCGCCGC
1 TAATGCTATGGTTTTTAGCGGCGTTTTAACAAAAGCGCCGC
*
47195744 TAATGCTCTGGTTTTTAGCGGCGTTTT
1 TAATGCTATGGTTTTTAGCGGCGTTTT
47195771 TGGTAAAACG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 60 0.97
42 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TAATGCTATGGTTTTTAGCGGCGTTTTAACAAAAGCGCCGC
Found at i:47195783 original size:41 final size:40
Alignment explanation
Indices: 47195662--47195800 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 40
47195652 TTAATATAAA
* *
47195662 TAATGCTATGGTTTTTAGCGGCGTTTTACAAAAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTA-AAAAAACGCCGC
* * * *
47195703 TAATGCTTTTGTTTTTAGCGGCGTTTTAACAGAAGCGCCGC
1 TAATGCTCTGGTTTTTAGCGGCGTTTTAA-AAAAACGCCGC
***
47195744 TAATGCTCTGGTTTTTAGCGGCGTTTTTGGTAAAACGCCGC
1 TAATGCTCTGGTTTTTAGCGGCG-TTTTAAAAAAACGCCGC
*
47195785 TATTGCTCTGTGTTTT
1 TAATGCTCTG-GTTTT
47195801 ATAATTTTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.01
41 74 0.88
42 9 0.11
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (40 bp):
TAATGCTCTGGTTTTTAGCGGCGTTTTAAAAAAACGCCGC
Found at i:47196099 original size:22 final size:23
Alignment explanation
Indices: 47196071--47196123 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
47196061 CACGTTGGCG
47196071 AACAAATATATAAATAT-AAATA
1 AACAAATATATAAATATAAAATA
* *
47196093 AACAAATATTTAAGTATAAAATA
1 AACAAATATATAAATATAAAATA
47196116 AACTAAAT
1 AAC-AAAT
47196124 TGAATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 15 0.56
23 8 0.30
24 4 0.15
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (23 bp):
AACAAATATATAAATATAAAATA
Found at i:47196588 original size:20 final size:20
Alignment explanation
Indices: 47196563--47196611 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
47196553 AGTAGCAATT
*
47196563 AAATCAAATTGATTAAAATC
1 AAATCAAATTGATTAAAATA
*
47196583 AAATCAAATTGATTAGAATA
1 AAATCAAATTGATTAAAATA
*
47196603 AAATAAAAT
1 AAATCAAAT
47196612 CAGAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:47199566 original size:35 final size:30
Alignment explanation
Indices: 47199472--47199541 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
47199462 CACGGTCTGG
*
47199472 CACATGGCCGTGTGTCCAGACCAGGTGGCT
1 CACACGGCCGTGTGTCCAGACCAGGTGGCT
47199502 CACACGGCCGTGTGTCCAGACCAGGTGGCT
1 CACACGGCCGTGTGTCCAGACCAGGTGGCT
47199532 CACACGGCCG
1 CACACGGCCG
47199542 CGCCGTGTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (30 bp):
CACACGGCCGTGTGTCCAGACCAGGTGGCT
Found at i:47202466 original size:17 final size:18
Alignment explanation
Indices: 47202432--47202467 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47202422 TGAATTTCTA
47202432 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
47202450 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
47202467 T
1 T
47202468 AACTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:47203099 original size:23 final size:25
Alignment explanation
Indices: 47203079--47203127 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
47203069 ATTCATTAAT
47203079 ATAATAATATAATATCAATTAAT-TAA
1 ATAATAATA-AATAT-AATTAATATAA
*
47203105 ATAATAATAAATATAATAAATAT
1 ATAATAATAAATATAATTAATAT
47203128 CTATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATAATAAATATAATTAATATAA
Found at i:47203122 original size:15 final size:13
Alignment explanation
Indices: 47203075--47203123 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
47203065 ATTTATTCAT
47203075 TAATATAATAATA
1 TAATATAATAATA
47203088 TAATATCAATTAAT-
1 TAATAT-AA-TAATA
47203102 TAA-ATAATAATA
1 TAATATAATAATA
47203114 -AATATAATAA
1 TAATATAATAA
47203124 ATATCTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 6 0.19
12 9 0.28
13 8 0.25
14 5 0.16
15 4 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:47203682 original size:30 final size:27
Alignment explanation
Indices: 47203648--47203712 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
47203638 TTTCCTTTAA
47203648 TATAATATCTTAATTTAAATTAATATAATT
1 TATAATATCTTAA-TTAAA-TAATAT-ATT
* * *
47203678 TATAATGTTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
47203705 TATAATAT
1 TATAATAT
47203713 AAATCAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 6 0.19
29 5 0.16
30 11 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:47204559 original size:6 final size:6
Alignment explanation
Indices: 47204548--47204600 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
47204538 GAAGTTTAAG
* * *
47204548 AAATAA AAATAAA ACAACTAA AAATAA AAATGA AAATGA AAATAA AAAGAA
1 AAATAA AAAT-AA A-AA-TAA AAATAA AAATAA AAATAA AAATAA AAATAA
47204599 AA
1 AA
47204601 TAATAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 30 0.73
7 5 0.12
8 5 0.12
9 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:47204591 original size:18 final size:17
Alignment explanation
Indices: 47204568--47204601 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
47204558 AAAACAACTA
47204568 AAAATAAAAATGAAAATG
1 AAAATAAAAA-GAAAATG
47204586 AAAATAAAAAGAAAAT
1 AAAATAAAAAGAAAAT
47204602 AATAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAGAAAATG
Found at i:47206266 original size:11 final size:12
Alignment explanation
Indices: 47206237--47206284 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
47206227 AAAATAGTTC
*
47206237 AAAATATAATAAT
1 AAAA-ATAATAAG
*
47206250 AAAAAT-ATAGG
1 AAAAATAATAAG
47206261 AAAAATAATAAG
1 AAAAATAATAAG
47206273 AAAAAATAATAA
1 -AAAAATAATAA
47206285 AAGTAGAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 9 0.30
12 6 0.20
13 15 0.50
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (12 bp):
AAAAATAATAAG
Found at i:47206286 original size:33 final size:32
Alignment explanation
Indices: 47206244--47206332 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
47206234 TTCAAAATAT
*
47206244 AATAATAAAAATATAGGA-AAAATAATAAGAAAA
1 AATAATAAAAATAGA-GATAAAATAA-AAGAAAA
* *
47206277 AATAATAAAAGTAGAGATAAAATAAAATAAAA
1 AATAATAAAAATAGAGATAAAATAAAAGAAAA
47206309 AATAA-AAATAATA-AG--AAAATAAAA
1 AATAATAAA-AATAGAGATAAAATAAAA
47206333 TAGTGAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
29 9 0.18
31 5 0.10
32 16 0.32
33 20 0.40
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (32 bp):
AATAATAAAAATAGAGATAAAATAAAAGAAAA
Found at i:47210339 original size:155 final size:155
Alignment explanation
Indices: 47210106--47210415 Score: 575
Period size: 155 Copynumber: 2.0 Consensus size: 155
47210096 AAAATATTCA
*
47210106 TATGGGTCTAAAAATCATATTTTTACAAATTTATATTTTGACCCCTAAACTTTTGCATATTTGCA
1 TATGAGTCTAAAAATCATATTTTTACAAATTTATATTTTGACCCCTAAACTTTTGCATATTTGCA
* * *
47210171 CTTTTGCCTCAAGGCTCGGAAATTAAACTTCATCCTATTTTCTTATGTTTTATGGCATGCTGATC
66 CTTTTGCCCCAAGGCTCGAAAATTAAACTTCATCCTATTTTCTTATATTTTATGGCATGCTGATC
*
47210236 ATTTTTCATAACTATGACAGCCCCC
131 ATTTTTCATAACTATGAAAGCCCCC
47210261 TATGAGTCTAAAAATCATATTTTTACAAATTTATATTTTGACCCCTAAACTTTTGCATATTTGCA
1 TATGAGTCTAAAAATCATATTTTTACAAATTTATATTTTGACCCCTAAACTTTTGCATATTTGCA
47210326 CTTTTGCCCCAAGGCTCGAAAATTAAACTTCATCCTATTTTCTTATATTTTATGGCATGCTGATC
66 CTTTTGCCCCAAGGCTCGAAAATTAAACTTCATCCTATTTTCTTATATTTTATGGCATGCTGATC
47210391 ATTTTTCATAACTATGAAAGCCCCC
131 ATTTTTCATAACTATGAAAGCCCCC
47210416 AATTTCCACT
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 150 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (155 bp):
TATGAGTCTAAAAATCATATTTTTACAAATTTATATTTTGACCCCTAAACTTTTGCATATTTGCA
CTTTTGCCCCAAGGCTCGAAAATTAAACTTCATCCTATTTTCTTATATTTTATGGCATGCTGATC
ATTTTTCATAACTATGAAAGCCCCC
Found at i:47217250 original size:46 final size:46
Alignment explanation
Indices: 47217196--47217459 Score: 211
Period size: 46 Copynumber: 5.7 Consensus size: 46
47217186 AGATTTGTGT
* * *
47217196 GCCAGTGTAAGACATGTCTGGGACATGGATTGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* * *
47217242 ACCAGTGTAAGACCATGTCTGGGACATTACATTGG---CATTGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCACATT-ATGA-GA
* * *
47217288 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* * * **
47217336 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGA-GATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
* * * * **
47217382 GCCAGTGTCAGACATGTCTGGGACATGCGTCGGCTAC--GA-GATTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GA
*
47217426 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
47217460 ACAGATGGAC
Statistics
Matches: 179, Mismatches: 27, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 34 0.19
45 6 0.03
46 87 0.49
47 27 0.15
48 19 0.11
49 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:47222783 original size:20 final size:20
Alignment explanation
Indices: 47222748--47222802 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
47222738 TAGAATGTAG
47222748 AAATTAAATTTAAAAAAAT-AT
1 AAATTAAA--TAAAAAAATAAT
*
47222769 AAAATTAAATAAAAAATTAAT
1 -AAATTAAATAAAAAAATAAT
47222790 AAATT-AATAAAAA
1 AAATTAAATAAAAA
47222803 GAAAGTGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 8 0.26
20 13 0.42
21 2 0.06
22 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTAAATAAAAAAATAAT
Found at i:47223892 original size:30 final size:30
Alignment explanation
Indices: 47223858--47223918 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
47223848 CACGGTCTGG
*
47223858 CACATGACCGTGTGTCCAGAC-CGTGTGGCT
1 CACATGACCGTGTATCCA-ACTCGTGTGGCT
* *
47223888 CACATGGCCGTGTATCCAACTCTTGTGGCT
1 CACATGACCGTGTATCCAACTCGTGTGGCT
47223918 C
1 C
47223919 CTACAATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.16, C:0.31, G:0.26, T:0.26
Consensus pattern (30 bp):
CACATGACCGTGTATCCAACTCGTGTGGCT
Found at i:47225788 original size:19 final size:19
Alignment explanation
Indices: 47225761--47225797 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47225751 AGATCGAATA
*
47225761 AAATCTATTAAACGAAATC
1 AAATATATTAAACGAAATC
47225780 AAATATATTAAACGAAAT
1 AAATATATTAAACGAAAT
47225798 AGAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATATATTAAACGAAATC
Found at i:47226687 original size:22 final size:21
Alignment explanation
Indices: 47226651--47226692 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
47226641 CACTTAACAT
47226651 AGGGGCACACACCCGTGTGAG
1 AGGGGCACACACCCGTGTGAG
*
47226672 AGGGGCAACACGCCCGTGTGA
1 AGGGGC-ACACACCCGTGTGA
47226693 CCATTTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.29, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGAG
Found at i:47233326 original size:15 final size:15
Alignment explanation
Indices: 47233306--47233335 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47233296 GAGTCCTAAG
*
47233306 AAAACAGAATTAGAA
1 AAAACAGAAATAGAA
47233321 AAAACAGAAATAGAA
1 AAAACAGAAATAGAA
47233336 TTTTTAGGGT
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:0.70, C:0.07, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAACAGAAATAGAA
Found at i:47235544 original size:33 final size:34
Alignment explanation
Indices: 47235501--47235571 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
47235491 AAGATAACTT
47235501 GAAGAAAAATGCATCAGAAAAGG-T-TGCAACGTG
1 GAAGAAAAATG-ATCAGAAAAGGCTATGCAACGTG
* ** *
47235534 GAAGACAAATGATGTGATAAGGCTATGCAACGTG
1 GAAGAAAAATGATCAGAAAAGGCTATGCAACGTG
47235568 GAAG
1 GAAG
47235572 TAACTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 8 0.25
33 11 0.34
34 13 0.41
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (34 bp):
GAAGAAAAATGATCAGAAAAGGCTATGCAACGTG
Found at i:47239191 original size:16 final size:16
Alignment explanation
Indices: 47239160--47239196 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
47239150 ATGTGAATAA
47239160 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
47239176 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
47239192 TATTA
1 TATTA
47239197 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:47239256 original size:22 final size:20
Alignment explanation
Indices: 47239206--47239264 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 20
47239196 AAAATAAAAA
* * *
47239206 TAAAATATTAAATAATTTAT
1 TAAAATAATAATTTATTTAT
47239226 TAAAATAATACATTATATTTAT
1 TAAAATAATA-ATT-TATTTAT
* *
47239248 TATATTAATAATTTATT
1 TAAAATAATAATTTATT
47239265 ATATGACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 13 0.41
21 5 0.16
22 14 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATAATAATTTATTTAT
Found at i:47244704 original size:17 final size:16
Alignment explanation
Indices: 47244663--47244696 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47244653 TACTATTACT
*
47244663 AATTTAAAATTTTAAA
1 AATTTAAAATTATAAA
47244679 AATTATAAAATTATAAA
1 AATT-TAAAATTATAAA
47244696 A
1 A
47244697 GGTTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTTAAAATTATAAA
Found at i:47245283 original size:31 final size:31
Alignment explanation
Indices: 47245217--47245301 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
47245207 TCTAAACTCA
*
47245217 TTTTAAATCTATTCATATTATTTATTTTTAATT
1 TTTTAAA--TATTTATATTATTTATTTTTAATT
47245250 TTTTAAATATTTATATTATATTA-TTTTAATT
1 TTTTAAATATTTATATTAT-TTATTTTTAATT
*
47245281 TTTAACAAT-TTTATA-TATTTA
1 TTTTA-AATATTTATATTATTTA
47245302 ATATAAGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.06
30 3 0.06
31 29 0.60
32 6 0.12
33 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTAAATATTTATATTATTTATTTTTAATT
Found at i:47245299 original size:39 final size:37
Alignment explanation
Indices: 47245226--47245301 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
47245216 ATTTTAAATC
**
47245226 TATTCATATTATTTATTTTTAATTTTTTAAATATTTA
1 TATTCATATTATTTATTTTTAAAATTTTAAATATTTA
*
47245263 TATT-ATATTATTTTAATTTTTAACAATTTTATATATTTA
1 TATTCATATTA-TTT-ATTTTTAA-AATTTTAAATATTTA
47245302 ATATAAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 6 0.18
37 7 0.21
38 8 0.24
39 12 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (37 bp):
TATTCATATTATTTATTTTTAAAATTTTAAATATTTA
Found at i:47245349 original size:16 final size:17
Alignment explanation
Indices: 47245328--47245375 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
47245318 TTTAAGGTGT
47245328 TATAAAATA-AATAAAA
1 TATAAAATATAATAAAA
**
47245344 TATAAAA-ATAATCTAA
1 TATAAAATATAATAAAA
*
47245360 TATAAAATATTATAAA
1 TATAAAATATAATAAA
47245376 CTAAAAAGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 19 0.76
17 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAAAATATAATAAAA
Found at i:47247727 original size:3 final size:3
Alignment explanation
Indices: 47247719--47247748 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47247709 GCACAATTTT
47247719 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47247749 AGAGTAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47259505 original size:17 final size:17
Alignment explanation
Indices: 47259485--47259527 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
47259475 AAAAAGTGTT
**
47259485 AAAAAAAATCAAAGTTA
1 AAAAAAAATCAAAGAGA
*
47259502 AAAAAAAATCGAAGAGA
1 AAAAAAAATCAAAGAGA
47259519 AAAAAAAAT
1 AAAAAAAAT
47259528 GTTAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAAATCAAAGAGA
Found at i:47260442 original size:15 final size:13
Alignment explanation
Indices: 47260404--47260445 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
47260394 ACCTCTTGTA
*
47260404 AAAAGAAAATGAG
1 AAAAGAAAAAGAG
47260417 AAAAGAAAAAGACG
1 AAAAGAAAAAGA-G
47260431 AAAAGCAAAAAGAG
1 AAAAG-AAAAAGAG
47260445 A
1 A
47260446 TCAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:47260456 original size:15 final size:15
Alignment explanation
Indices: 47260404--47260460 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 15
47260394 ACCTCTTGTA
*
47260404 AAAAGAAAA-TGA-G
1 AAAAGAAAAGAGACG
47260417 AAAAGAAAA-AGACG
1 AAAAGAAAAGAGACG
47260431 AAAAGCAAAAAGAGATC-
1 AAAAG--AAAAGAGA-CG
47260448 AAAAGAAAAGAGA
1 AAAAGAAAAGAGA
47260461 GGCAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.29
14 6 0.16
15 8 0.21
16 4 0.11
17 8 0.21
18 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.21, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAGAGACG
Found at i:47260544 original size:19 final size:20
Alignment explanation
Indices: 47260508--47260548 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
47260498 GAATGAAATC
47260508 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
*
47260528 GAGAGAA-AAATAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
47260547 GA
1 GA
47260549 AAGTGAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:47265467 original size:42 final size:42
Alignment explanation
Indices: 47265420--47265502 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
47265410 ATTTTCAAAT
47265420 GCTCAGCATGCTTGGATTTATCTCGAGAATAAATCATAATAC
1 GCTCAGCATGCTTGGATTTATCTCGAGAATAAATCATAATAC
47265462 GCTCAGCATGCTTGGATTTATCTCGAGAATAAATCATAATA
1 GCTCAGCATGCTTGGATTTATCTCGAGAATAAATCATAATA
47265503 TCATCAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (42 bp):
GCTCAGCATGCTTGGATTTATCTCGAGAATAAATCATAATAC
Found at i:47266533 original size:11 final size:11
Alignment explanation
Indices: 47266519--47266563 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
47266509 AGATAAATAT
47266519 TATTTTATTAA
1 TATTTTATTAA
*
47266530 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
47266543 TATTTTATTAT
1 TATTTTATTAA
47266554 TATTTTATTA
1 TATTTTATTA
47266564 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:47268730 original size:21 final size:21
Alignment explanation
Indices: 47268706--47268777 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
47268696 CTCTCTGATA
47268706 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
47268727 TGAAA-GATGCTATGGCAACC-TGAT
1 TGAAATG-TG-TA-AG--ACCATGGT
47268751 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
47268773 TGAAA
1 TGAAA
47268778 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 5 0.13
23 2 0.05
24 5 0.13
25 10 0.26
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:47269019 original size:46 final size:46
Alignment explanation
Indices: 47268700--47269009 Score: 451
Period size: 46 Copynumber: 6.7 Consensus size: 46
47268690 AGTGTGCTCT
* *
47268700 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATGCTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
47268746 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
47268792 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
47268838 CTAATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGCCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
47268884 GTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
47268930 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
47268976 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
47269010 CATTATGGCA
Statistics
Matches: 244, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 243 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:47271197 original size:20 final size:21
Alignment explanation
Indices: 47271163--47271217 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
47271153 AATTCTTTTG
47271163 ATTTTTGGGTAAAAATGGTGA
1 ATTTTTGGGTAAAAATGGTGA
*
47271184 ATTTTTGGGTAAAAATTGTGA
1 ATTTTTGGGTAAAAATGGTGA
47271205 ATTTTT-GGTAAAA
1 ATTTTTGGGTAAAA
47271218 GGAGCAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.42
Consensus pattern (21 bp):
ATTTTTGGGTAAAAATGGTGA
Found at i:47271340 original size:11 final size:11
Alignment explanation
Indices: 47271324--47271371 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
47271314 CTTTATATAC
47271324 TAATAAAATAA
1 TAATAAAATAA
*
47271335 TAATAAAATATCT
1 TAATAAAATA--A
* *
47271348 TATTAAAATAT
1 TAATAAAATAA
47271359 TAATAAAATAA
1 TAATAAAATAA
47271370 TA
1 TA
47271372 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:47282115 original size:27 final size:27
Alignment explanation
Indices: 47282084--47282261 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
47282074 TAAATTGTAC
47282084 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47282111 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47282137 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* * *
47282165 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47282193 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47282220 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47282247 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47282262 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 104 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47282201 original size:82 final size:81
Alignment explanation
Indices: 47282085--47282240 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
47282075 AAATTGTACA
* * * *
47282085 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47282149 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47282166 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47282231 TGCGAGTTGA
65 TGCGAATTGA
47282241 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47282252 original size:82 final size:81
Alignment explanation
Indices: 47282081--47282261 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
47282071 GATTAAATTG
* * * *
47282081 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47282146 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47282162 TGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47282226 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47282244 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47282262 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47282272 original size:27 final size:27
Alignment explanation
Indices: 47282166--47282272 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
47282156 TGACCATGCG
*
47282166 GCACTAAGTGTGCGAG-TCTAACTATGTA
1 GCACTAAGTGTGCGAGCTC-AA-TATATA
** * * **
47282194 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
47282221 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
47282248 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
47282273 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 49 0.74
28 16 0.24
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:47290224 original size:27 final size:27
Alignment explanation
Indices: 47290193--47290370 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
47290183 TAAATTGTAC
47290193 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47290220 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47290246 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* * *
47290274 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47290302 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47290329 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47290356 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47290371 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 104 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47290310 original size:82 final size:81
Alignment explanation
Indices: 47290194--47290349 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
47290184 AAATTGTACA
* * * *
47290194 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47290258 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47290275 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47290340 TGCGAGTTGA
65 TGCGAATTGA
47290350 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47290361 original size:82 final size:81
Alignment explanation
Indices: 47290190--47290370 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
47290180 GATTAAATTG
* * * *
47290190 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47290255 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47290271 TGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47290335 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47290353 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47290371 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47290381 original size:27 final size:27
Alignment explanation
Indices: 47290275--47290381 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
47290265 TGACCATGCG
*
47290275 GCACTAAGTGTGCGAG-TCTAACTATGTA
1 GCACTAAGTGTGCGAGCTC-AA-TATATA
** * * **
47290303 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
47290330 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
47290357 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
47290382 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 49 0.74
28 16 0.24
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:47292701 original size:17 final size:17
Alignment explanation
Indices: 47292679--47292711 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47292669 ATAGGTTCGA
*
47292679 AAGTATAAGTAACTAAT
1 AAGTATAACTAACTAAT
47292696 AAGTATAACTAACTAA
1 AAGTATAACTAACTAA
47292712 AATCTTACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (17 bp):
AAGTATAACTAACTAAT
Found at i:47293545 original size:19 final size:21
Alignment explanation
Indices: 47293507--47293546 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47293497 TGTTTATAAC
*
47293507 ATAAAAAAATTATTTCAAATT
1 ATAAAAAAATTAATTCAAATT
47293528 ATAAAAAAA-TAATT-AAATT
1 ATAAAAAAATTAATTCAAATT
47293547 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAAAAATTAATTCAAATT
Found at i:47294174 original size:23 final size:23
Alignment explanation
Indices: 47294122--47294175 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
47294112 TATCAACATC
* * *
47294122 ATTATTTACATAAAATTAAAAAT
1 ATTATTAAAATAAAATTAAAAAA
47294145 ATATATTAAAATAAAA-TAAAATAA
1 AT-TATTAAAATAAAATTAAAA-AA
47294169 ATTATTA
1 ATTATTA
47294176 TTTTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTATTAAAATAAAATTAAAAAA
Found at i:47294272 original size:24 final size:23
Alignment explanation
Indices: 47294228--47294278 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
47294218 ATCACTCATG
*
47294228 TTTTTTTCTTTCCTTTTTTCTTC
1 TTTTTTTCTTTCCTTTCTTCTTC
*
47294251 ATTTTTTTCTATT-GTTTCTTCTTC
1 -TTTTTTTCT-TTCCTTTCTTCTTC
47294275 TTTT
1 TTTT
47294279 CTCCTCTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.75
25 2 0.08
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTTTCTTTCCTTTCTTCTTC
Found at i:47299307 original size:82 final size:82
Alignment explanation
Indices: 47299170--47299333 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
47299160 AGGGATGTGG
47299170 AAGGAAACTTTGACTCAATAAAAAGAAGGAGAATCTCCACCTTTTATGGAAAGACTTAGACGACA
1 AAGGAAACTTTGACTCAATAAAAAGAAGGAGAATCTCCACCTTTTATGGAAAGACTTAGACGACA
47299235 AGTGGGAGTTTTGACCT
66 AGTGGGAGTTTTGACCT
*
47299252 AAGGAAACTTTGACTTAATAAAAAGAAGGAGAATCTCCACCTTTTATGGAAAGACTTAGACGACA
1 AAGGAAACTTTGACTCAATAAAAAGAAGGAGAATCTCCACCTTTTATGGAAAGACTTAGACGACA
47299317 AGTGGGAGTTTTGACCT
66 AGTGGGAGTTTTGACCT
47299334 TCTAGAATGG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (82 bp):
AAGGAAACTTTGACTCAATAAAAAGAAGGAGAATCTCCACCTTTTATGGAAAGACTTAGACGACA
AGTGGGAGTTTTGACCT
Found at i:47304016 original size:12 final size:11
Alignment explanation
Indices: 47303999--47304047 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
47303989 GATGATGATG
47303999 ATTTTAAAAATT
1 ATTTT-AAAATT
*
47304011 ATTTTAATTATT
1 ATTTTAA-AATT
*
47304023 -TTTTAAAATA
1 ATTTTAAAATT
47304033 ATTTTAAAATT
1 ATTTTAAAATT
47304044 ATTT
1 ATTT
47304048 ACTGATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 2 0.06
11 21 0.68
12 8 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:47308104 original size:40 final size:40
Alignment explanation
Indices: 47308000--47308107 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
47307990 TTATGTTTCT
*
47308000 AAGAACATAGAAAATGAAACAAAGGAAAAATGAAATAAAA
1 AAGAAAATAGAAAATGAAACAAAGGAAAAATGAAATAAAA
* * *
47308040 AGGAAAATAGAAACA-GAAATAAAGGGAAAATGAAATAAATA
1 AAGAAAATAGAAA-ATGAAACAAAGGAAAAATGAAATAAA-A
*
47308081 AATAAAAT-GAAAATGAAACAAAGGAAA
1 AAGAAAATAGAAAATGAAACAAAGGAAA
47308108 CTCAAAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 1 0.02
40 48 0.84
41 8 0.14
ACGTcount: A:0.69, C:0.04, G:0.17, T:0.11
Consensus pattern (40 bp):
AAGAAAATAGAAAATGAAACAAAGGAAAAATGAAATAAAA
Found at i:47308649 original size:22 final size:22
Alignment explanation
Indices: 47308624--47308667 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
47308614 TAGTCATATA
47308624 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
47308646 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
47308668 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:47308702 original size:13 final size:13
Alignment explanation
Indices: 47308674--47308732 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
47308664 AAATTATTTA
47308674 ATATTTTAAT--T
1 ATATTTTAATAAT
*
47308685 TTATTTTAATAAT
1 ATATTTTAATAAT
*
47308698 ATATTTTAAAAAT
1 ATATTTTAATAAT
47308711 AATAATTTTAAATAAT
1 -AT-ATTTT-AATAAT
47308727 AGTATT
1 A-TATT
47308733 CACATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 9 0.24
13 12 0.32
14 2 0.05
15 9 0.24
16 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATATTTTAATAAT
Found at i:47308713 original size:16 final size:16
Alignment explanation
Indices: 47308691--47308727 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
47308681 AATTTTATTT
47308691 TAATAATATATTTTAAA
1 TAATAATA-ATTTTAAA
47308708 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
47308723 TAATA
1 TAATA
47308728 GTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:47309724 original size:19 final size:20
Alignment explanation
Indices: 47309684--47309725 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
47309674 TTGGTCAATC
47309684 ATTCAAGATTGGTTATTGAA
1 ATTCAAGATTGGTTATTGAA
47309704 ATTCAAGATTGGTTA-TGAA
1 ATTCAAGATTGGTTATTGAA
47309723 ATT
1 ATT
47309726 ATGTAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCAAGATTGGTTATTGAA
Found at i:47310569 original size:18 final size:18
Alignment explanation
Indices: 47310550--47310583 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47310540 TATTTATTAT
47310550 TTTTATTAT-TTCCCTTA
1 TTTTATTATATTCCCTTA
*
47310567 TTTTATTTTATTCCCTT
1 TTTTATTATATTCCCTT
47310584 CCATCATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTATATTCCCTTA
Found at i:47312462 original size:5 final size:5
Alignment explanation
Indices: 47312452--47312491 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
47312442 GGGGTAGGAC
*
47312452 ATGAT ATGAT ATGAT ATGCT ATGAT -TCGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT AT-GAT ATGAT ATGAT
47312492 TCATATACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:47312476 original size:15 final size:15
Alignment explanation
Indices: 47312452--47312497 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
47312442 GGGGTAGGAC
47312452 ATGATATGATAT-GAT
1 ATGATATGAT-TCGAT
*
47312467 ATGCTATGATTCGAT
1 ATGATATGATTCGAT
47312482 ATGATATGATTC-AT
1 ATGATATGATTCGAT
47312496 AT
1 AT
47312498 ACAATCTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (15 bp):
ATGATATGATTCGAT
Found at i:47319987 original size:23 final size:26
Alignment explanation
Indices: 47319961--47320019 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
47319951 CAACTTGATA
* *
47319961 GAGCTTACCG-TT-TCAGCTTAA-TG
1 GAGCTTACCGTTTATCAGCTCAAGAG
*
47319984 GAGCTTACTGTTTATCAGCTCAAGAG
1 GAGCTTACCGTTTATCAGCTCAAGAG
47320010 GAGCTTACCG
1 GAGCTTACCG
47320020 ACCATGACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 9 0.31
24 2 0.07
25 8 0.28
26 10 0.34
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (26 bp):
GAGCTTACCGTTTATCAGCTCAAGAG
Found at i:47320186 original size:20 final size:20
Alignment explanation
Indices: 47320161--47320206 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
47320151 GAATAAGCTA
*
47320161 TGTTGAAATGAATGAATTAC
1 TGTTGAAACGAATGAATTAC
* *
47320181 TGTTGATACGGATGAATTAC
1 TGTTGAAACGAATGAATTAC
47320201 TGTTGA
1 TGTTGA
47320207 TATAGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTTGAAACGAATGAATTAC
Found at i:47320207 original size:20 final size:19
Alignment explanation
Indices: 47320172--47320280 Score: 92
Period size: 20 Copynumber: 5.5 Consensus size: 19
47320162 GTTGAAATGA
47320172 ATGAATTACTGTTGATACGG
1 ATGAATTACTGTT-ATACGG
**
47320192 ATGAATTACTGTTGATATAG
1 ATGAATTACTGTT-ATACGG
* * *
47320212 ATAAATTATTGTTATTACGA
1 ATGAATTACTGTTA-TACGG
*
47320232 ATGAATTACTGGTTATACAG
1 ATGAATTACT-GTTATACGG
* * *
47320252 ATGAACTACTAGTTATATGA
1 ATGAATTACT-GTTATACGG
47320272 ATGAATTAC
1 ATGAATTAC
47320281 AGTTTATAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
19 1 0.01
20 65 0.93
21 4 0.06
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
ATGAATTACTGTTATACGG
Found at i:47320287 original size:20 final size:20
Alignment explanation
Indices: 47320168--47320293 Score: 80
Period size: 20 Copynumber: 6.3 Consensus size: 20
47320158 CTATGTTGAA
*
47320168 ATGAATGAATTACTGTTGAT
1 ATGAATGAATTACTGTTTAT
* * *
47320188 ACGGATGAATTACTGTTGAT
1 ATGAATGAATTACTGTTTAT
* *
47320208 AT-AGATAAATTATTG-TTATT
1 ATGA-ATGAATTACTGTTTA-T
* *
47320228 ACGAATGAATTACTGGTTAT
1 ATGAATGAATTACTGTTTAT
* *
47320248 A-CAGATGAACTACTAG-TTAT
1 ATGA-ATGAATTACT-GTTTAT
*
47320268 ATGAATGAATTACAGTTTAT
1 ATGAATGAATTACTGTTTAT
*
47320288 AAGAAT
1 ATGAAT
47320294 AAAAATGAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
19 4 0.05
20 72 0.88
21 6 0.07
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
ATGAATGAATTACTGTTTAT
Found at i:47323445 original size:15 final size:16
Alignment explanation
Indices: 47323425--47323458 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
47323415 ATGTGTATCC
47323425 TTTTTTAATA-TTTAT
1 TTTTTTAATATTTTAT
47323440 TTTTTTAATATTTTAT
1 TTTTTTAATATTTTAT
47323456 TTT
1 TTT
47323459 ACCTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTAATATTTTAT
Found at i:47324624 original size:21 final size:21
Alignment explanation
Indices: 47324600--47324640 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47324590 ACCTTTATCT
* *
47324600 TTTTTTAATTATATATTTTTG
1 TTTTATAATTATATAATTTTG
*
47324621 TTTTATAATTTTATAATTTT
1 TTTTATAATTATATAATTTT
47324641 CATTTTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATAATTATATAATTTTG
Found at i:47324660 original size:15 final size:15
Alignment explanation
Indices: 47324629--47324664 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
47324619 TGTTTTATAA
47324629 TTTTATAATTTTCAT
1 TTTTATAATTTTCAT
47324644 TTTTCATAATTTT-AT
1 TTTT-ATAATTTTCAT
47324659 TTTTAT
1 TTTTAT
47324665 TTCATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 10 0.50
16 8 0.40
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATAATTTTCAT
Found at i:47324716 original size:24 final size:25
Alignment explanation
Indices: 47324685--47324736 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
47324675 ATGGTTGAAT
* *
47324685 TTTTATAATT-TTATTTTTTAAATA
1 TTTTATAATTATAAATTTTTAAATA
*
47324709 TTTTATAATTATAAATTTTTGAATA
1 TTTTATAATTATAAATTTTTAAATA
47324734 TTT
1 TTT
47324737 AGAAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTATAATTATAAATTTTTAAATA
Found at i:47324737 original size:24 final size:23
Alignment explanation
Indices: 47324679--47324737 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
47324669 TAAAACATGG
* * *
47324679 TTGAATTTTTATAATTTTATTTT
1 TTGAATATTTATAATTTAAATTT
*
47324702 TTAAATATTTTATAATTATAAATTT
1 TTGAATA-TTTATAATT-TAAATTT
47324727 TTGAATATTTA
1 TTGAATATTTA
47324738 GAAAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 5 0.17
24 13 0.45
25 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
TTGAATATTTATAATTTAAATTT
Found at i:47325124 original size:26 final size:25
Alignment explanation
Indices: 47325071--47325125 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 25
47325061 TCATTGTTGT
*
47325071 AAATATTAAAAAAATTATAATTTATA
1 AAATATTAAAAAAATTATAA-TAATA
47325097 AAATATTCAAAAAAATTATAA-AAGTA
1 AAATATT-AAAAAAATTATAATAA-TA
47325123 AAA
1 AAA
47325126 CAAATCAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 1 0.04
26 12 0.46
27 13 0.50
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATATTAAAAAAATTATAATAATA
Found at i:47326530 original size:19 final size:19
Alignment explanation
Indices: 47326508--47326552 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47326498 AGTTTATGTT
*
47326508 TTAAAA-ATAAAAATTATAA
1 TTAAAAGATAAAAATCA-AA
*
47326527 TTAAAAGTTAAAAATCAAA
1 TTAAAAGATAAAAATCAAA
47326546 TTAAAAG
1 TTAAAAG
47326553 CTATAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
TTAAAAGATAAAAATCAAA
Found at i:47326538 original size:20 final size:22
Alignment explanation
Indices: 47326514--47326566 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
47326504 TGTTTTAAAA
47326514 ATAAAAATTATAATTAAAAG-T
1 ATAAAAATTATAATTAAAAGCT
*
47326535 -TAAAAATCA-AATTAAAAGCT
1 ATAAAAATTATAATTAAAAGCT
*
47326555 ATAAAACTTATA
1 ATAAAAATTATA
47326567 CTAAAATCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.35
20 9 0.35
21 7 0.27
22 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAAAAATTATAATTAAAAGCT
Found at i:47327308 original size:13 final size:13
Alignment explanation
Indices: 47327290--47327316 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47327280 AGTTTACCCA
47327290 AAAATTTTCTTTT
1 AAAATTTTCTTTT
47327303 AAAATTTTCTTTT
1 AAAATTTTCTTTT
47327316 A
1 A
47327317 CACTATTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
AAAATTTTCTTTT
Done.