Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 164 of 311
Found at i:55948748 original size:21 final size:20
Alignment explanation
Indices: 55948618--55948780 Score: 70
Period size: 19 Copynumber: 7.8 Consensus size: 20
55948608 TTTAATCTTA
55948618 TTTTTATATTATATTATATAATT
1 TTTTTATA-T-TATTATAT-ATT
*
55948641 ATTTTATTATTTATTAT-TCATAT
1 TTTTTA-TA-TTATTATAT-AT-T
*
55948664 TATTTATA-TATTATATATT
1 TTTTTATATTATTATATATT
*
55948683 ATTTTTACA-TA-TATACT-TT
1 -TTTTTATATTATTATA-TATT
* *
55948702 CGTATTATA-TATTATAT-TT
1 -TTTTTATATTATTATATATT
* *
55948721 ATTTTATATTATTATGTCATT
1 TTTTTATATTATTATAT-ATT
*
55948742 TTTTTATACTACTATATATATT
1 TTTTTATATTA-T-TATATATT
55948764 TTTATCTATATTATTAT
1 TTT-T-TATATTATTAT
55948781 TATCAAAAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
18 6 0.05
19 24 0.22
20 21 0.19
21 12 0.11
22 15 0.14
23 22 0.20
24 10 0.09
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTTATATTATTATATATT
Found at i:55949109 original size:36 final size:37
Alignment explanation
Indices: 55949030--55949109 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
55949020 TTCAAAACCA
* *
55949030 ATAAATTTTTTATTTTATATATAATTATTAGTCTTTT
1 ATAAATTTTTTATGTTATATATAATTATTAGTATTTT
*
55949067 ATAAATTTTTT-TGTTAT-TATATATTATATATTATTTT
1 ATAAATTTTTTATGTTATATATA-ATTAT-TAGTATTTT
55949104 A-AAATT
1 ATAAATT
55949110 ATTATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 4 0.11
36 15 0.39
37 19 0.50
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (37 bp):
ATAAATTTTTTATGTTATATATAATTATTAGTATTTT
Found at i:55952305 original size:26 final size:26
Alignment explanation
Indices: 55952269--55952322 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
55952259 GGAGAGTGAG
55952269 AGTATGAGGATCTTCAGATCAGTTGC
1 AGTATGAGGATCTTCAGATCAGTTGC
55952295 AGTATGAGGATCTTCAGATCAGTTGC
1 AGTATGAGGATCTTCAGATCAGTTGC
55952321 AG
1 AG
55952323 AAAGAGGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
AGTATGAGGATCTTCAGATCAGTTGC
Found at i:55952329 original size:26 final size:26
Alignment explanation
Indices: 55952274--55952329 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
55952264 GTGAGAGTAT
* *
55952274 GAGGATCTTCAGATCAGTTGCAGTAT
1 GAGGATCTTCAGATCAGTTGCAGAAA
55952300 GAGGATCTTCAGATCAGTTGCAGAAA
1 GAGGATCTTCAGATCAGTTGCAGAAA
55952326 GAGG
1 GAGG
55952330 TCCAAGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (26 bp):
GAGGATCTTCAGATCAGTTGCAGAAA
Found at i:55957893 original size:40 final size:40
Alignment explanation
Indices: 55957833--55957973 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
55957823 TATTCGGATG
*
55957833 ATATACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
55957873 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
55957913 ATATCTGGGCTAAGACTCGAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
* *
55957953 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
55957974 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
39 14 0.16
40 72 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:55965997 original size:40 final size:40
Alignment explanation
Indices: 55965942--55966124 Score: 244
Period size: 40 Copynumber: 4.5 Consensus size: 40
55965932 TATTCGGATG
55965942 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
55965982 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-CA--AGTTACT
* * *
55966025 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
55966065 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
55966105 ATATCC-GGCTAAAT-CCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
55966125 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
38 6 0.05
39 6 0.05
40 77 0.61
41 1 0.01
43 36 0.29
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:55966085 original size:83 final size:83
Alignment explanation
Indices: 55965946--55966100 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 83
55965936 CGGATGATAT
* *
55965946 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
*
55966011 TGTGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTATAC
*
55966029 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
55966094 TGCGAGT
66 TGCGAGT
55966101 TGCTATATCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTAGTTGCTATAC
Found at i:55970870 original size:30 final size:30
Alignment explanation
Indices: 55970829--55970898 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
55970819 TTCTTGAAGA
55970829 AGAAGATCATTTGTCAGTATGGAATGCCTG
1 AGAAGATCATTTGTCAGTATGGAATGCCTG
*
55970859 AGAATATCATTTGTCAGTATGGAATGCCTG
1 AGAAGATCATTTGTCAGTATGGAATGCCTG
55970889 AGAAGATCAT
1 AGAAGATCAT
55970899 ATCCGACAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (30 bp):
AGAAGATCATTTGTCAGTATGGAATGCCTG
Found at i:55972871 original size:205 final size:205
Alignment explanation
Indices: 55972511--55973264 Score: 1165
Period size: 205 Copynumber: 3.7 Consensus size: 205
55972501 GCAGATCTAG
* * * * *
55972511 CTGAAGCAAGATCCAAGATGGTTTGACATTCTTGTGCTTGCAAGGAACAAACCAAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGACATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
55972576 GATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTATCAG
66 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
55972641 AGAACAAATCGAAGTCTGGCATCTCCACTTCAACAGGGAGTAGATACATAGCAGAACTCACCTTC
131 AGAACAAATCGAAGTCTGGCATCTCCACTTCAAC-GGGAGCAGATACATAGCAGATCTCACCTTC
55972706 AGATGTTTATA
195 AGATGTTTATA
* * *
55972717 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGACATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
55972781 AATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAG
66 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
55972846 AGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGAGGAGCAGATACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTCTGGCATCTCCACTTCAACG-GGAGCAGATACATAGCAGATCTCACCTTC
55972911 AGATGTTTATA
195 AGATGTTTATA
* * *
55972922 CTGAAG-TAGATCCAAGATGATTT-AGCATCCTTGTGCTTACAAGGAGCAAATCGAAGGCATAGC
1 CTGAAGCAAGATCCAAGATGATTTGA-CATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
55972985 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
* *
55973050 GAGAACAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGTAGATCTCACCTT
130 GAGAACAAATCGAAGTCTGGCATCTCCACTTCAAC-GGGAGCAGATACATAGCAGATCTCACCTT
* *
55973115 CAGATAATTT-CA
194 CAGAT-GTTTATA
* * *
55973127 CTAAAGCAAGATCCAAGATGATTTGACATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGTT
1 CTGAAGCAAGATCCAAGATGATTTGACATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* * *
55973192 GATTTGGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAG
66 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
55973257 AGAACAAA
131 AGAACAAA
55973265 CCAAAGAAGT
Statistics
Matches: 506, Mismatches: 35, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
204 1 0.00
205 372 0.74
206 132 0.26
207 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
CTGAAGCAAGATCCAAGATGATTTGACATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCGAAGTCTGGCATCTCCACTTCAACGGGAGCAGATACATAGCAGATCTCACCTTCA
GATGTTTATA
Found at i:55974947 original size:13 final size:14
Alignment explanation
Indices: 55974931--55974994 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 14
55974921 TTTTTAATCT
55974931 TATT-TTTATATTA
1 TATTATTTATATTA
* *
55974944 TATTATATAATTATTT
1 TATTAT-TTA-TATTA
55974960 TATTATTTATTATTCA
1 TATTATTTA-TATT-A
55974976 TATTATTTATA-TA
1 TATTATTTATATTA
55974989 TATTAT
1 TATTAT
55974995 AAATTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 11 0.26
14 2 0.05
15 11 0.26
16 19 0.44
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTTATATTA
Found at i:55974949 original size:16 final size:15
Alignment explanation
Indices: 55974930--55975050 Score: 57
Period size: 16 Copynumber: 7.3 Consensus size: 15
55974920 ATTTTTAATC
55974930 TTATTTTTATATTATA
1 TTATTTTTAT-TTATA
*
55974946 TTATATAATTATTT-TA
1 TTAT-T-TTTATTTATA
*
55974962 TTATTTATTATTCATA
1 TTATTT-TTATTTATA
55974978 TTATTTATATATATTATAAA
1 TTATTT-T-TAT-TTAT--A
**
55974998 TTATTTTTACATATA
1 TTATTTTTATTTATA
*
55975013 -TACTTTCGTATTATATA
1 TTA-TTT-TTATT-TATA
*
55975030 TTATATTTATTTTATA
1 TTATTTTTA-TTTATA
55975046 TTATT
1 TTATT
55975051 ATGTCATTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
14 2 0.03
15 10 0.12
16 32 0.40
17 17 0.21
18 11 0.14
19 1 0.01
20 7 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATTTTTATTTATA
Found at i:55975025 original size:45 final size:45
Alignment explanation
Indices: 55974931--55975036 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 45
55974921 TTTTTAATCT
* * *
55974931 TATT-TTTATATTATATTATATAATTATTTTATTATTTATTATTCA
1 TATTATTTATA-TATATTATATAATTATTTTAATATATACTATTCA
*
55974976 TATTATTTATATATATTATA-AATTATTTTTACATATATACT-TTCG
1 TATTATTTATATATATTATATAATTA-TTTTA-ATATATACTATTCA
*
55975021 TATTATATAT-TATATT
1 TATTATTTATATATATT
55975037 TATTTTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
44 11 0.21
45 30 0.57
46 12 0.23
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (45 bp):
TATTATTTATATATATTATATAATTATTTTAATATATACTATTCA
Found at i:55975099 original size:21 final size:20
Alignment explanation
Indices: 55975026--55975095 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
55975016 TTTCGTATTA
* *
55975026 TATATTATATTTATTTTATA
1 TATATTATATTTTTTTTATC
*
55975046 T-TATTATGTCATTTTTTTATAC
1 TATATTATAT--TTTTTTTAT-C
55975068 TACTA-TATATTTTTTTTATC
1 TA-TATTATATTTTTTTTATC
55975088 TATATTAT
1 TATATTAT
55975096 TATTATCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
19 9 0.22
20 7 0.17
21 17 0.43
22 1 0.03
23 4 0.10
24 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (20 bp):
TATATTATATTTTTTTTATC
Found at i:55975409 original size:7 final size:7
Alignment explanation
Indices: 55975397--55975430 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
55975387 ATTTTTTTGT
55975397 TATTATA
1 TATTATA
55975404 TATTATA
1 TATTATA
55975411 TATTATA
1 TATTATA
*
55975418 TATTAAA
1 TATTATA
55975425 TATTAT
1 TATTAT
55975431 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:55975414 original size:14 final size:14
Alignment explanation
Indices: 55975397--55975456 Score: 74
Period size: 14 Copynumber: 4.6 Consensus size: 14
55975387 ATTTTTTTGT
*
55975397 TATTATATATTATA
1 TATTATATATTAAA
55975411 TATTATATATTAAA
1 TATTATATATTAAA
55975425 TATTAT-T-TTAAA
1 TATTATATATTAAA
55975437 -ATTAT-TATTAAA
1 TATTATATATTAAA
*
55975449 TATCATAT
1 TATTATAT
55975457 TTTTTTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
11 6 0.15
12 10 0.24
13 5 0.12
14 20 0.49
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATATATTAAA
Found at i:55975431 original size:24 final size:24
Alignment explanation
Indices: 55975404--55975451 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55975394 TGTTATTATA
*
55975404 TATTAT-ATATTATATATTAAATAT
1 TATTATAAAATTAT-TATTAAATAT
*
55975428 TATTTTAAAATTATTATTAAATAT
1 TATTATAAAATTATTATTAAATAT
55975452 CATATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTATAAAATTATTATTAAATAT
Found at i:55975457 original size:12 final size:12
Alignment explanation
Indices: 55975402--55975457 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
55975392 TTTGTTATTA
*
55975402 TATATTATATATT
1 TATATTAAATA-T
55975415 ATATATTAAATAT
1 -TATATTAAATAT
*
55975428 TATTTTAAA-AT
1 TATATTAAATAT
55975439 TATTATTAAATAT
1 TA-TATTAAATAT
*
55975452 CATATT
1 TATATT
55975458 TTTTTATAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 4 0.11
12 18 0.50
13 4 0.11
14 10 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATTAAATAT
Found at i:55977943 original size:33 final size:33
Alignment explanation
Indices: 55977881--55977944 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
55977871 ACCTTTATGC
* *
55977881 CTTAAATTGAAAATGATTTTTATATAGGGGGAG
1 CTTAAATTGAAAATGACTTTGATATAGGGGGAG
*
55977914 CTTAAATTGAAAGTGACTTTGACTA-AGGGGG
1 CTTAAATTGAAAATGACTTTGA-TATAGGGGG
55977945 TGTAATCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAATGACTTTGATATAGGGGGAG
Found at i:55981863 original size:39 final size:39
Alignment explanation
Indices: 55981809--55982003 Score: 214
Period size: 40 Copynumber: 4.9 Consensus size: 39
55981799 AAACCAAGTA
** *
55981809 CCTTCGGGGTTTAGCCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTAGCACAAATG
* * *
55981848 CCTTCGGGACTTAGCCCGATTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCGGA-TATAGTAACTAGCACAAATG
*
55981888 CCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATG
* * *
55981928 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATG
* * *
55981968 CCTTCGGG-CTTAGCCCGAAATTAGTCACTAGCACAA
1 CCTTCGGGACTTAGCCGGATA-TAGTAACTAGCACAA
55982004 CAGAGTTGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 5 0.04
39 34 0.26
40 91 0.68
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATG
Found at i:55981886 original size:40 final size:40
Alignment explanation
Indices: 55981842--55981985 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
55981832 GCTACTAGCT
*
55981842 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
55981882 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
55981922 CAAATGCCTTCGGGACTTAGCCCGGA-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
*
55981962 CAATTGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCCCGA
55981986 AATTAGTCAC
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
38 2 0.02
39 8 0.08
40 85 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:55981941 original size:80 final size:79
Alignment explanation
Indices: 55981809--55981984 Score: 241
Period size: 80 Copynumber: 2.2 Consensus size: 79
55981799 AAACCAAGTA
* *
55981809 CCTTCGGGGTTTAG-CCGGATATAGCTACTAGCTCAAATGCCTTCGGGACTTAGCCC-GATTATA
1 CCTTC-GGGCTTAGCCCGGATATAGCTACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATA
* *
55981872 GTAACTCGTACAAATG
64 ATAACTCGCACAAATG
*
55981888 CCTTCGGGACTTAGCCCGGTTATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGG-CTTAGCCCGGATATAGCT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
55981952 ATAACTCGCACAATTG
64 ATAACTCGCACAAATG
55981968 CCTTCGGGCTTAGCCCG
1 CCTTCGGGCTTAGCCCG
55981985 AAATTAGTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
78 3 0.03
79 19 0.22
80 63 0.72
81 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCTTCGGGCTTAGCCCGGATATAGCTACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCGCACAAATG
Found at i:55985698 original size:46 final size:46
Alignment explanation
Indices: 55985644--55985816 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
55985634 TGGTTGAGCA
55985644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55985690 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55985735 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55985783 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55985817 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
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:55985800 original size:93 final size:93
Alignment explanation
Indices: 55985641--55985811 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55985631 GGATGGTTGA
* *
55985641 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
55985706 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55985734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
55985799 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
55985812 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55989267 original size:32 final size:32
Alignment explanation
Indices: 55989226--55989290 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55989216 TCATGTAAAT
55989226 AATGAAATAACTACAAATTACCATAAGGGATC
1 AATGAAATAACTACAAATTACCATAAGGGATC
55989258 AATGAAATAACTACAAATTACCATAAGGGATC
1 AATGAAATAACTACAAATTACCATAAGGGATC
55989290 A
1 A
55989291 TACTCCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (32 bp):
AATGAAATAACTACAAATTACCATAAGGGATC
Found at i:55989803 original size:49 final size:49
Alignment explanation
Indices: 55989676--55989805 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 49
55989666 ACGTCAAAGT
* * *
55989676 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
55989725 TGATGTCGTGTCCCA-AAAGGTCTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAG-GC
*
55989773 CGATGCCATGTCCCAGAGAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGAAAGGTCTTACACTGAC
55989806 ACACAACAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
47 1 0.02
48 38 0.58
49 27 0.41
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGAAAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:55989889 original size:141 final size:138
Alignment explanation
Indices: 55989680--55989941 Score: 341
Period size: 141 Copynumber: 1.9 Consensus size: 138
55989670 CAAAGTCGAT
* * *
55989680 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATGTCGAGGCTGATGTCGTGTCCCAAAAGG
1 GCCATGTCCCAAACAGGTCTTACACTGACTTTCATATCTCGAGGCTGATGTCATGTCCCAAAAGG
* * *
55989745 TCTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCAGAGAGGTCTTACACTGACACAC
66 TCTTACACTAGCTCTCATCT-T-GATGCCGATG-CATGTCCCAGACAGGTCTTACACTGACACAC
55989810 AACAAGCTGAC
128 AACAAGCTGAC
* *
55989821 GCCATGTCCCAAACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCTGATG-CATGTCCTAGAC
1 GCCATGTCCCAAACAGGTCTTACACTGA-CTT-TCATATCTCGAGGCTGATGTCATGTCCCA-AA
* * * *
55989883 ATGTCTTACACTAGCTCTCATCTTGATGCTGATGTATGTCCCAGACATGTCTTACACTG
63 AGGTCTTACACTAGCTCTCATCTTGATGCCGATGCATGTCCCAGACAGGTCTTACACTG
55989942 GCTTGTATAT
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
138 22 0.21
139 8 0.08
140 9 0.08
141 66 0.62
142 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (138 bp):
GCCATGTCCCAAACAGGTCTTACACTGACTTTCATATCTCGAGGCTGATGTCATGTCCCAAAAGG
TCTTACACTAGCTCTCATCTTGATGCCGATGCATGTCCCAGACAGGTCTTACACTGACACACAAC
AAGCTGAC
Found at i:55989929 original size:46 final size:48
Alignment explanation
Indices: 55989823--55989990 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 48
55989813 AAGCTGACGC
* *
55989823 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * * * *
55989871 CATGTCCTAGACATGTCTTACACTAGC-TCT-CATCTTGATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* *
55989917 TATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
*
55989965 CATGTCCCA-ACATGTCTTTCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
55989991 ACACATATCA
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
46 37 0.37
47 19 0.19
48 45 0.45
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:55991761 original size:23 final size:23
Alignment explanation
Indices: 55991735--55991778 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
55991725 TACAAAATGT
*
55991735 GCCATAAAGGCTATATAGAATAC
1 GCCACAAAGGCTATATAGAATAC
55991758 GCCACAAAGGCTATATAGAAT
1 GCCACAAAGGCTATATAGAAT
55991779 GCACCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (23 bp):
GCCACAAAGGCTATATAGAATAC
Found at i:55991789 original size:23 final size:23
Alignment explanation
Indices: 55991740--55991803 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
55991730 AATGTGCCAT
* * *
55991740 AAAGGCTATATAGAATACGCCAC
1 AAAGGCTATATAGAATGCACCAA
55991763 AAAGGCTATATAGAATGCACCAA
1 AAAGGCTATATAGAATGCACCAA
* * *
55991786 AAAGACAATACAGAATGC
1 AAAGGCTATATAGAATGC
55991804 CACAAAGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (23 bp):
AAAGGCTATATAGAATGCACCAA
Found at i:55993559 original size:22 final size:22
Alignment explanation
Indices: 55993534--55993577 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
55993524 TGTATGAAAA
*
55993534 AGCAGGCCTTGAGTAGGTGTTT
1 AGCAGGCCTTGAGCAGGTGTTT
*
55993556 AGCAGGCCTTGAGCCGGTGTTT
1 AGCAGGCCTTGAGCAGGTGTTT
55993578 TTTTAGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (22 bp):
AGCAGGCCTTGAGCAGGTGTTT
Found at i:56013964 original size:27 final size:27
Alignment explanation
Indices: 56013934--56014138 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
56013924 ATATTAAGTC
* *
56013934 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
56013961 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
56013989 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
56014016 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
56014043 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
56014070 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
56014097 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
56014124 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56014139 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56014073 original size:54 final size:54
Alignment explanation
Indices: 56013934--56014137 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
56013924 ATATTAAGTC
* * * **
56013934 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
56013989 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
56014043 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
56014097 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
56014138 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:56014103 original size:81 final size:81
Alignment explanation
Indices: 56013988--56014137 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
56013978 ATAATCAAAC
* * * * * *
56013988 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
56014053 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
56014069 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
56014134 GTGC
66 GTGC
56014138 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:56022092 original size:27 final size:27
Alignment explanation
Indices: 56022062--56022266 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
56022052 ATATTAAGTC
* *
56022062 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
56022089 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
56022117 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
56022144 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
56022171 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
56022198 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
56022225 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
56022252 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56022267 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56022201 original size:54 final size:54
Alignment explanation
Indices: 56022062--56022265 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
56022052 ATATTAAGTC
* * * **
56022062 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
56022117 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
56022171 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
56022225 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
56022266 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:56022231 original size:81 final size:81
Alignment explanation
Indices: 56022116--56022265 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
56022106 ATAATCAAAC
* * * * * *
56022116 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
56022181 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
56022197 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
56022262 GTGC
66 GTGC
56022266 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:56025052 original size:36 final size:36
Alignment explanation
Indices: 56024981--56025057 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
56024971 TTATTACGAA
* * *
56024981 GTCTTACCCAGAATAATCTCCACTCGAAGTTATCGG
1 GTCTTACCCAGAAAAATCTCCACACGAAGTCATCGG
* *
56025017 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCAGA-AAAATCTCCACACGAAGTCATCGG
56025053 GTCTT
1 GTCTT
56025058 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 30 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCAGAAAAATCTCCACACGAAGTCATCGG
Found at i:56025327 original size:47 final size:47
Alignment explanation
Indices: 56025173--56025804 Score: 901
Period size: 47 Copynumber: 13.1 Consensus size: 47
56025163 CCCTTCGGGA
* * * * * *
56025173 CTTATCAC-TTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56025219 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG-CCATTAGGC
*
56025267 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56025314 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56025361 CTTATCACATATATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025412 CTTATCACATATATACACTTTCACATTCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATT-CATCACATCGGCCATTAGGC
* *
56025460 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025507 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56025558 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025605 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56025655 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025702 CTTATCACATATATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025752 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56025801 CTTA
1 CTTA
56025805 CTATCATTTC
Statistics
Matches: 535, Mismatches: 30, Indels: 39
0.89 0.05 0.06
Matches are distributed among these distances:
46 41 0.08
47 184 0.34
48 119 0.22
49 12 0.02
50 25 0.05
51 154 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56025445 original size:146 final size:146
Alignment explanation
Indices: 56025227--56025804 Score: 920
Period size: 146 Copynumber: 3.9 Consensus size: 146
56025217 GCCCTGTCAC
*
56025227 ATATATACACTTTCACATTCATCACATCGGCCCATTAGGCCTTACCACATATATACACTTTCACA
1 ATATATACACTTTCACATTCATCACATCGG-CCATTAGGCCTTATCACATATATACACTTTCACA
*
56025292 TTCATCACATCGGCCATTAGGCCCTATCAC-GTATATACACTTTCACATTCATCACATCGGCCAT
65 TTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCACATCGGCCAT
56025356 TAGGCCTTATCACATAT
130 TAGGCCTTATCACATAT
*
56025373 ATATATACACTTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
56025438 TCCATCACATCGGCCATTAGGCCCTATCAC-GTATATACACTTTCACATTCATCACATCGGCCAT
66 T-CATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCACATCGGCCAT
56025502 TAGGCCTTATCACATAT
130 TAGGCCTTATCACATAT
* *
56025519 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
*
56025584 TCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCC
66 TCATCACATCGGCCATTAGGCCCTATCAC--A-ATATATACACTTTCACATTCATCACATCGGCC
*
56025649 ATTA-GCCCTATCAC----
128 ATTAGGCCTTATCACATAT
*
56025663 GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTTTC
*
56025728 ACATTCATCACATCGG-CATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
62 ACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATACACTTTCACATTCATCACATCGG
56025792 CCATTAGGCCTTA
126 CCATTAGGCCTTA
56025805 CTATCATTTC
Statistics
Matches: 410, Mismatches: 12, Indels: 20
0.93 0.03 0.05
Matches are distributed among these distances:
144 45 0.11
145 100 0.24
146 176 0.43
147 16 0.04
148 38 0.09
149 35 0.09
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (146 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCTTATCACATAT
Found at i:56025573 original size:193 final size:193
Alignment explanation
Indices: 56025183--56025804 Score: 970
Period size: 193 Copynumber: 3.2 Consensus size: 193
56025173 CTTATCACTT
* * * * * * *
56025183 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
* * *
56025248 TCACATCGGCCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 TCACATCGG-CCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG
* *
56025313 CCCTATCAC----GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
130 CCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-A
56025374 TA
192 TA
*
56025376 TATACACTTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT-C
56025441 ATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG
65 ATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGG
* *
56025506 CCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-GTA
130 CCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATA
56025569 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTTTCACA
56025634 TTCATCACATCGGCCATTA-GCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATT
62 TTCATCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATT
56025698 AGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACAT
127 AGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-
56025762 ATA
191 ATA
56025765 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
56025805 CTATCATTTC
Statistics
Matches: 400, Mismatches: 18, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
193 160 0.40
194 26 0.06
195 91 0.23
196 59 0.15
197 64 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (193 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATA
Found at i:56064354 original size:40 final size:43
Alignment explanation
Indices: 56064242--56064384 Score: 265
Period size: 43 Copynumber: 3.4 Consensus size: 43
56064232 TTGGTTTTCA
56064242 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56064285 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGA-TG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56064327 GCACTAAG-GTGC-GGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
56064368 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
56064385 TTGAAATGCA
Statistics
Matches: 97, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
40 26 0.27
41 14 0.14
42 14 0.14
43 43 0.44
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:56064401 original size:29 final size:29
Alignment explanation
Indices: 56064366--56064439 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56064356 GTTGTGAGAT
* *
56064366 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56064395 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56064424 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56064440 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56064859 original size:39 final size:39
Alignment explanation
Indices: 56064748--56064895 Score: 147
Period size: 39 Copynumber: 3.7 Consensus size: 39
56064738 TTGAATGATG
* * * * *
56064748 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
56064788 TCCGGACTAAGAT-CCGAAGGCATTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTGTGCGAGTTACTAAA
*
56064827 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56064866 TCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TCCGGGCTAAGTCCCGAAG-GCATT-GTGC
56064896 TAGTGAGGTA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 11 0.12
39 38 0.43
40 29 0.33
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56064977 original size:40 final size:40
Alignment explanation
Indices: 56064865--56064981 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 40
56064855 GAGTTACTAA
* *
56064865 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAGGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGAGAT
* **
56064905 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGAGAT
* * * *
56064945 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGA
56064982 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGAGAT
Found at i:56067879 original size:46 final size:47
Alignment explanation
Indices: 56067720--56068341 Score: 984
Period size: 46 Copynumber: 13.1 Consensus size: 47
56067710 GAAATGATAG
56067720 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
56067769 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
56067820 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56067867 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
56067915 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56067962 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
56068010 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56068057 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56068103 TAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
56068151 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56068198 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56068244 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
56068291 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56068338 TAAG
1 TAAG
56068342 TCCCGAAGGG
Statistics
Matches: 540, Mismatches: 20, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
46 165 0.31
47 154 0.29
48 60 0.11
49 112 0.21
51 49 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56067944 original size:95 final size:93
Alignment explanation
Indices: 56067720--56068339 Score: 974
Period size: 95 Copynumber: 6.5 Consensus size: 93
56067710 GAAATGATAG
56067720 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGCCTAATGGCCG
56067785 ATGTGATGAATGTGAAAGTGTATATATATATGTGA
63 ATGTGATGAATGTGAAAGTG----TATATATGTGA
*
56067820 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
56067885 TGATGAATGTGAAAGTGTATATATATGTGA
66 TGATGAATGTGAAAGTG--TATATATGTGA
*
56067915 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
56067980 TGATGAATGTGAAAGTGTATATATATGTGA
66 TGATGAATGTGAAAGTG--TATATATGTGA
*
56068010 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
56068075 TGATGAATGTGAAAGTGTATATATGTGA
66 TGATGAATGTGAAAGTGTATATATGTGA
56068103 TAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGCCTAATGGCCG
*
56068167 ATGTGATGAATGTGAAAGTGTATATACGTGA
63 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
56068198 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
56068262 GTGATGAATGTGAAAGTGTATATATGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
56068291 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56068340 AGTCCCGAAG
Statistics
Matches: 501, Mismatches: 14, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
92 8 0.02
93 95 0.19
94 74 0.15
95 243 0.49
97 34 0.07
98 11 0.02
100 36 0.07
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (93 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGA
Found at i:56068076 original size:141 final size:140
Alignment explanation
Indices: 56067720--56068339 Score: 976
Period size: 141 Copynumber: 4.3 Consensus size: 140
56067710 GAAATGATAG
56067720 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGCCTAATGGCCG
56067785 ATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
63 ATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
56067850 AAAGTGTATATACGTGA
124 AAAGTGTATATATGTGA
56067867 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGCCTAATGGCCG
*
56067931 ATGTGATGAATGTGAAAGTGTATATACGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAG
63 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56067995 TGTATATATATGTGA
128 TG--TATATATGTGA
*
56068010 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
56068075 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
56068139 ATATATATGTGA
130 -TATATATGTGA
*
56068151 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
*
56068216 TGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
66 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
56068281 ATATATGTGA
131 ATATATGTGA
* * * * * * * *
56068291 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
56068340 AGTCCCGAAG
Statistics
Matches: 454, Mismatches: 14, Indels: 17
0.94 0.03 0.04
Matches are distributed among these distances:
140 51 0.11
141 219 0.48
142 55 0.12
143 11 0.02
144 34 0.07
146 83 0.18
147 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (140 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGA
Found at i:56070956 original size:27 final size:27
Alignment explanation
Indices: 56070831--56070966 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
56070821 GTAAACACGC
* **
56070831 CATGAAAGAAATGTCTTTGTGGCGAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
56070858 CATGAAAGAAATGCCTTTTGTGGAAAAT
1 CATGAAAGAAATGCC-TTTGTGGAAAAT
* * * * **
56070886 CACGAAAGAAGTGCTTTTATGGCGAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
*
56070913 CATGAAAGAAATTCCTTTGTGGAAAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
* * *
56070940 CATGAAAGAAAAGCCTTGGTGGTAAAT
1 CATGAAAGAAATGCCTTTGTGGAAAAT
56070967 TTTGAAGGGA
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 66 0.75
28 22 0.25
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (27 bp):
CATGAAAGAAATGCCTTTGTGGAAAAT
Found at i:56072964 original size:42 final size:44
Alignment explanation
Indices: 56072837--56072966 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 44
56072827 ACATAGGATT
* * *
56072837 TCGATATGTG-TTTTCGTGCAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCA
* * * * * *
56072880 TCGATCTGTGATTTACGTGTAAGACGATGTCTAGGACATTGGCA
1 TCGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCA
* *
56072924 TC-ATATTTGATTT-CATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCA
56072966 T
1 T
56072967 TGTACGAGCT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 24 0.34
43 18 0.25
44 29 0.41
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TCGATATGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:56081075 original size:42 final size:43
Alignment explanation
Indices: 56080952--56081075 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 43
56080942 GATTCCGATA
* * * *
56080952 TGTG-TTTTCATGTAAGACCACGTCTGGAACGATAGCATCGACC
1 TGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCATCGA-C
* * * *
56080995 TGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTA-
1 TGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCATCG-AC
*
56081038 TTTGATTTA-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCAT
56081076 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.38
43 12 0.18
44 28 0.42
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTGATTTACATGTAAGACCACGTCTGGGACGTTGGCATCGAC
Found at i:56089536 original size:14 final size:14
Alignment explanation
Indices: 56089517--56089543 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56089507 TATTAAGGCA
56089517 ATAATTAAGAACAC
1 ATAATTAAGAACAC
56089531 ATAATTAAGAACA
1 ATAATTAAGAACA
56089544 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:56092398 original size:93 final size:93
Alignment explanation
Indices: 56092273--56092443 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56092263 CCCATAAGTG
* * *
56092273 AACTCAGACTCAAGTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
56092338 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
56092366 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
56092431 GAGTTCGGATGCC
66 GAGCTCGGATGCC
56092444 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:56092439 original size:46 final size:46
Alignment explanation
Indices: 56092264--56092439 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
56092254 TGTAACCCGC
* * * *
56092264 CCATAAGTGAACTCAGACTCAAGTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
56092310 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
56092360 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56092403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56092440 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 60 0.56
47 26 0.24
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56105758 original size:49 final size:49
Alignment explanation
Indices: 56105694--56105885 Score: 210
Period size: 49 Copynumber: 3.9 Consensus size: 49
56105684 TAGCCAAAGC
* *
56105694 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* *
56105743 TATCTGGTACACATAGTAGCCTTCACTTAGTACTACACA--CATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCA--ACC-AAT
* * * * *
56105793 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
* *
56105844 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
56105886 GACCTCACAA
Statistics
Matches: 118, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
47 2 0.02
49 41 0.35
50 39 0.33
51 35 0.30
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:56105813 original size:50 final size:51
Alignment explanation
Indices: 56105690--56105882 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 51
56105680 CTTGTAGCCA
* * *
56105690 AAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACT--ACACATGCAACC-
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATG--ACCG
** * *
56105740 AA-TTATCTGGTACACATAGTAGCCTTCACTTAGTACTACACACATGACCT
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCG
* * * *
56105790 AA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCG
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCG
** * *
56105840 AAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
56105883 TGCGACCTCA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 34 0.28
50 46 0.38
51 41 0.34
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (51 bp):
AAGCCATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCG
Found at i:56109947 original size:49 final size:50
Alignment explanation
Indices: 56109886--56110001 Score: 146
Period size: 50 Copynumber: 2.3 Consensus size: 50
56109876 CTGGTACGCA
* * ** *
56109886 TAGTAGCTTGCACTTAGTACTACACATGCGA-CAAATTATCT-AGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAAACCATCTGA-TACACG
* *
56109935 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAAACCATCTGATACACG
56109985 TAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAG
56110002 CCTGCACTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
49 28 0.48
50 29 0.50
51 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAAACCATCTGATACACG
Found at i:56109999 original size:50 final size:49
Alignment explanation
Indices: 56109886--56110001 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 49
56109876 CTGGTACGCA
* * ** *
56109886 TAGTAGCTTGCACTTAGTACTACACATGCGACAAATTATCTAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAACCATCTAGTACACG
* *
56109935 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAACCATCTAG-TACACG
56109985 TAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAG
56110002 CCTGCACTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
49 29 0.50
50 29 0.50
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAACCATCTAGTACACG
Found at i:56110004 original size:11 final size:11
Alignment explanation
Indices: 56109988--56110012 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56109978 ATACACGTAG
56109988 TAGCCTGCACT
1 TAGCCTGCACT
56109999 TAGCCTGCACT
1 TAGCCTGCACT
56110010 TAG
1 TAG
56110013 TACTACACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (11 bp):
TAGCCTGCACT
Found at i:56112544 original size:39 final size:41
Alignment explanation
Indices: 56112405--56112544 Score: 225
Period size: 40 Copynumber: 3.5 Consensus size: 41
56112395 TTCGGATGAC
56112405 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACTAT
56112445 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACTAT
* *
56112485 ATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACTAT
*
56112525 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
56112545 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (41 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGACTAT
Found at i:56120258 original size:13 final size:13
Alignment explanation
Indices: 56120242--56120266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56120232 CAAAATCATG
56120242 TCGTGAAATTTTT
1 TCGTGAAATTTTT
56120255 TCGTGAAATTTT
1 TCGTGAAATTTT
56120267 CACAAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
TCGTGAAATTTTT
Found at i:56129061 original size:20 final size:20
Alignment explanation
Indices: 56129006--56129061 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
56128996 CGAAGTGTAG
*
56129006 ACAGAGGCA-CAAATGTGCAA
1 ACAGAGGCACCAAA-GTACAA
** **
56129026 TTAGAGGCACTGAAGTACAA
1 ACAGAGGCACCAAAGTACAA
56129046 ACAGAGGCACCAAAGT
1 ACAGAGGCACCAAAGT
56129062 GCACTCCCAT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTACAA
Found at i:56130500 original size:27 final size:27
Alignment explanation
Indices: 56130470--56130523 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
56130460 AATCATACTT
56130470 AACCTACTACTCAGAACAGTTCTAAAG
1 AACCTACTACTCAGAACAGTTCTAAAG
* *
56130497 AACCTACTGCTCAGAAGAGTTCTAAAG
1 AACCTACTACTCAGAACAGTTCTAAAG
56130524 TGGCCTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (27 bp):
AACCTACTACTCAGAACAGTTCTAAAG
Found at i:56131466 original size:31 final size:31
Alignment explanation
Indices: 56131431--56131489 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
56131421 TTACGAGCCT
* *
56131431 AGGGGCCAAAGTGAAAATATGTGAAAGTTTA
1 AGGGGCCAAAATGAAAATATGTAAAAGTTTA
* * *
56131462 AGGGGTCAAAATGCAAATTTGTAAAAGT
1 AGGGGCCAAAATGAAAATATGTAAAAGT
56131490 ATGATTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.27, T:0.24
Consensus pattern (31 bp):
AGGGGCCAAAATGAAAATATGTAAAAGTTTA
Found at i:56131972 original size:50 final size:50
Alignment explanation
Indices: 56131859--56132303 Score: 403
Period size: 50 Copynumber: 8.8 Consensus size: 50
56131849 GTTGCGAGAA
* * * *
56131859 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
* * *
56131911 CACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCAGATTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
56131961 CACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCA-ATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGT
* * *
56132012 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
56132062 CACGTGTGTAGTATTAATTGCAAGCTACTACGTGTACCGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * * *
56132112 CGCATGTGTAGTACTAATTCCAGGCTACTATGCGTACCCG-TTAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGT
* * * *
56132163 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
56132213 CACGTGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
56132263 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56132304 GACCTTTAGT
Statistics
Matches: 319, Mismatches: 66, Indels: 18
0.79 0.16 0.04
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 203 0.64
51 78 0.24
52 30 0.09
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:56132060 original size:101 final size:99
Alignment explanation
Indices: 56131909--56132300 Score: 365
Period size: 101 Copynumber: 3.9 Consensus size: 99
56131899 ACAGTTTTAG
* * *
56131909 GTCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCAGATTTTTAGGTCACATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
* * * *
56131974 CTAAATGCAGGCTACTATGCGTACCCAATAGTTTC
66 CTAAGTGCAAGCTACTACGCGTACCCAATAG-TTA
* * * *
56132009 GATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGT
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGT
* * * ** * *
56132074 ATTAATTGCAAGCTACTACGTGTACCGGATTGATA
65 ACTAAGTGCAAGCTACTACGCGTACCCAATAGTTA
* * * * * * * * *
56132109 GGTCGCATGTGTAGTACTAATTCCAGGCTACTATGCGTACCCG-TTAACTTTGATCACATGTGTA
1 -GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCACATGTGTA
* * * * *
56132173 GTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGATAA
63 GTACTAAGTGCAAGCTACTACGCGTACCCA-ATAG-TTA
* * * * *
56132211 GTCACGTGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
*
56132276 CTAAGTGCAAGCTACTATGCGTACC
66 CTAAGTGCAAGCTACTACGCGTACC
56132301 AGAGACCTTT
Statistics
Matches: 229, Mismatches: 55, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
99 1 0.00
100 70 0.31
101 155 0.68
102 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (99 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTA
CTAAGTGCAAGCTACTACGCGTACCCAATAGTTA
Found at i:56132136 original size:151 final size:151
Alignment explanation
Indices: 56131859--56132300 Score: 616
Period size: 151 Copynumber: 2.9 Consensus size: 151
56131849 GTTGCGAGAA
* * * * * * *
56131859 CACATGTGTAGTACTATGTGCAGGATACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TG-GTTAGGTCACGTGTGTAGTA
** *
56131924 CTAAGTGCAGGCTGCTACGTGTACCAGATTTTTAGGTCACATGTGTAGTACTAAATGCAGGCTAC
64 CTAAGTGCAGGCTGCTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAGGCTAC
*
56131989 TATGCGTACCCAAT-AGTTTCGAT
129 TATGCGTACCCAATAACTTT-GAT
* *
56132012 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTATT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* * * * * *
56132077 AATTGCAAGCTACTACGTGTACCGGATTGATAGGTCGCATGTGTAGTACTAATTCCAGGCTACTA
66 AAGTGCAGGCTGCTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
**
56132142 TGCGTACCCGTTAACTTTGAT
131 TGCGTACCCAATAACTTTGAT
* *
56132163 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* * *
56132228 AAGTGCAGGCTGCTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTA
66 AAGTGCAGGCTGCTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
56132293 TGCGTACC
131 TGCGTACC
56132301 AGAGACCTTT
Statistics
Matches: 255, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
151 215 0.84
152 5 0.02
153 35 0.14
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTGCTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
TGCGTACCCAATAACTTTGAT
Found at i:56133118 original size:180 final size:180
Alignment explanation
Indices: 56132862--56133220 Score: 524
Period size: 180 Copynumber: 2.0 Consensus size: 180
56132852 CCCGAGATCT
*
56132862 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTGTTAGACAGTGAAACAAGGGTA
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTGTTAGACAGTAAAACAAGGGTA
* * * * *
56132927 TCTTCAATGAATAAACTGTACTAATTAGCTAAATC-AAAAATTTTTAAAATTTTATGGTAAGAAT
66 ACTTCAATGAATAAACTGTACTAATTAGATAAA-CAAAAAATTCTGAAAATTTTATGGAAAGAAT
* *
56132991 ATATGTGAGTCTAGTTTCAGGGAAAATTAGCGGTTCTTAATTTGGAGTTCC
130 ATATGTGAGTCTAGTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTCC
* * * * *
56133042 GTACCATGAGATATATAATTTTTAGTGAAGAGAG-TTAGGAACTGTTAGATAGTAAAATAGGGGT
1 GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATT-GGAACTGTTAGACAGTAAAACAAGGGT
* *
56133106 AACTTTAATGAATAAACTGTACTAATTGGATAAACAAAAAATTCTGAAAATTTTATGGAAAGAAT
65 AACTTCAATGAATAAACTGTACTAATTAGATAAACAAAAAATTCTGAAAATTTTATGGAAAGAAT
* * *
56133171 ATATTTGAGTCTAGTTTCTGTGAAAATTAACGGATCTTAATTTGGAGTTC
130 ATATGTGAGTCTAGTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTC
56133221 TGTAGATCCA
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 3 0.02
180 156 0.98
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (180 bp):
GTACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTGTTAGACAGTAAAACAAGGGTA
ACTTCAATGAATAAACTGTACTAATTAGATAAACAAAAAATTCTGAAAATTTTATGGAAAGAATA
TATGTGAGTCTAGTTTCAGGGAAAATTAACGGATCTTAATTTGGAGTTCC
Found at i:56138682 original size:15 final size:15
Alignment explanation
Indices: 56138643--56138684 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
56138633 AATGTGTTTT
56138643 ATTATATTTTTATGG
1 ATTATATTTTTATGG
56138658 -TCTATATTTTTATGG
1 AT-TATATTTTTATGG
56138673 AATTAT-TTTTTA
1 -ATTATATTTTTA
56138685 AAGATTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
15 19 0.79
16 3 0.12
17 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.62
Consensus pattern (15 bp):
ATTATATTTTTATGG
Found at i:56140133 original size:50 final size:50
Alignment explanation
Indices: 56140060--56140507 Score: 407
Period size: 50 Copynumber: 8.9 Consensus size: 50
56140050 TAAGACAATT
56140060 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
56140110 TTAGGTCGCATGTCTAGTACTAAGTACAGGCTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * *
56140160 TTTTGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCA-AATG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * *
56140210 TTTAGGTCATGTGTGTAGTACTAAGTGTAGGCAACTACGTGTACCGGATTG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * *
56140261 ATAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--G
* * * * * * *
56140312 TTCGATCACGTGTGTAGTACTAAGTACAGGCTACTATGCGTACCCG-TTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--G
* * * * * *
56140363 TTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
56140413 ATAAGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
56140463 ATAGGTCGCATGTGTAGTACTAAGTGAAGGCTACTATGCGTACCA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
56140508 TAGAGCTTCG
Statistics
Matches: 322, Mismatches: 71, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
49 2 0.01
50 198 0.61
51 121 0.38
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:56140194 original size:101 final size:100
Alignment explanation
Indices: 56140060--56140507 Score: 407
Period size: 101 Copynumber: 4.5 Consensus size: 100
56140050 TAAGACAATT
* * * * * *
56140060 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTCT
1 TTAGATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCACGTGTGT
56140125 AGTACTAAGTACAGGCTACTATGCGTACCCGATAG
66 AGTACTAAGTACAGGCTACTATGCGTACCCGATAG
* * * * *
56140160 TTTTGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCA-AATGTTTAGGTCATGTGT
1 -TTAGATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTG-TTAGGTCACGTGT
** * * * * *
56140224 GTAGTACTAAGTGTAGGCAACTACGTGTACCGGATTG
64 GTAGTACTAAGTACAGGCTACTATGCGTACCCGATAG
* * * * * * * *
56140261 ATAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCGATCACGTGT
1 TTAGATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATT--GTTAGGTCACGTGT
* *
56140325 GTAGTACTAAGTACAGGCTACTATGCGTACCCGTTAAC
64 GTAGTACTAAGTACAGGCTACTATGCGTACCCGAT-AG
* * * * * * *
56140363 TTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACGTGTGT
1 TTAGATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCACGTGTGT
* * * * * *
56140428 AGTACTAAGTGCATGCTACTACGTGTACCAGATTG
66 AGTACTAAGTACAGGCTACTATGCGTACCCGATAG
* * * * *
56140463 ATAGGTCGCATGTGTAGTACTAAGTG-AAGGCTACTATGCGTACCA
1 TTAGATCACATGTGTAGTACTAAGTGCAA-GCTACTACGTGTACCA
56140508 TAGAGCTTCG
Statistics
Matches: 270, Mismatches: 70, Indels: 15
0.76 0.20 0.04
Matches are distributed among these distances:
99 1 0.00
100 75 0.28
101 156 0.58
102 37 0.14
103 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TTAGATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGTCACGTGTGT
AGTACTAAGTACAGGCTACTATGCGTACCCGATAG
Found at i:56140333 original size:151 final size:152
Alignment explanation
Indices: 56140059--56140448 Score: 485
Period size: 151 Copynumber: 2.6 Consensus size: 152
56140049 TTAAGACAAT
* * *
56140059 TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTC
1 TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTG
* * ** * *
56140124 TAGTACTAAGTACAGGCTACTATGCGTACCCGATAGTTTTGATCACGTGTGTAGTACTAAGTGCA
66 TAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACA
* * *
56140189 AGCTACTACGTGTATCAAAT-G
131 AGCTACTACGCGTACCAAATAA
* * * *
56140210 TTTAGGTCATGTGTGTAGTACTAAGTGTAGGCAACTACGTGTACCGGATTGATAGGTCACATGTG
1 TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTG
*
56140275 TAGTACTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTACA
66 TAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACA
* * ***
56140340 GGCTACTATGCGTACCCGTTAA
131 AGCTACTACGCGTACCAAATAA
* * * * * * * * *
56140362 CTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGATAAGTCACGTGTG
1 TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTG
*
56140427 TAGTACTAAGTGCATGCTACTA
66 TAGTACTAAGTGCAAGCTACTA
56140449 CGTGTACCAG
Statistics
Matches: 202, Mismatches: 36, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
151 129 0.64
152 73 0.36
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (152 bp):
TTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTG
TAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTACA
AGCTACTACGCGTACCAAATAA
Found at i:56140380 original size:202 final size:201
Alignment explanation
Indices: 56140061--56140507 Score: 601
Period size: 202 Copynumber: 2.2 Consensus size: 201
56140051 AAGACAATTT
* * * * * * *
56140061 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTCTA
1 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATTCTTAGATCACATGTCTA
** * *
56140126 GTACTAAGTACAGGCTACTATGCGTACCCGATAGTTTTGATCACGTGTGTAGTACTAAGTGCAAG
66 GTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAAG
* ** * * * *
56140191 CTACTACGTGTATCAAATGTTTAGGTCATGTGTGTAGTACTAAGTGTAGGCAACTACGTGTACCG
131 CTACTACATGTATCAAATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGCAACTACGTGTACCA
56140256 GATTGA
196 GATTGA
* * * *
56140262 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTG
1 TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATT--CTTAGATCACATGTC
*
56140326 TAGTACTAAGTACAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCA
64 TAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCA
* * * *
56140391 GGCTACTACATGTATCAGATGGATAAGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTAC
129 AGCTACTACATGTATCAAATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGCAACTACGTGTAC
56140456 CAGATTGA
194 CAGATTGA
*
56140464 TAGGTCGCATGTGTAGTACTAAGTG-AAGGCTACTATGCGTACCA
1 TAGGTCACATGTGTAGTACTAAGTGCAA-GCTACTATGCGTACCA
56140508 TAGAGCTTCG
Statistics
Matches: 214, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
200 2 0.01
201 42 0.20
202 170 0.79
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (201 bp):
TAGGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATTCTTAGATCACATGTCTA
GTACTAAGTACAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAAG
CTACTACATGTATCAAATGGATAAGTCACGTGTGTAGTACTAAGTGCAGGCAACTACGTGTACCA
GATTGA
Found at i:56141327 original size:180 final size:180
Alignment explanation
Indices: 56141068--56141418 Score: 567
Period size: 180 Copynumber: 1.9 Consensus size: 180
56141058 CCAAGATCTG
* * *
56141068 TACCATGAGATAAATAATTTTTAGTGAAGAAATATTGGAACTGTCAGACAGTGAAATAGGGGTAT
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTATCAGACAGTGAAATAGGGGTAA
*
56141133 TTTTAACCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
66 CTTTAACCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
* * * *
56141198 ATGTGAGTCTAGTTTCTGGGAAAATTAGCAGTTCTTAATTTCAATTTCCT
131 ATGTGAGTATAGTTTCTGAGAAAATTAACAGATCTTAATTTCAATTTCCT
* * **
56141248 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTATTGGACAGTGAAATAGGGGTAA
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTATCAGACAGTGAAATAGGGGTAA
** *
56141313 CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGCAAATTTTATGGTAAGAATAT
66 CTTTAACCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
56141378 ATGTGAGTATAGTTTCTGAGAAAATTAACAGATCTTAATTT
131 ATGTGAGTATAGTTTCTGAGAAAATTAACAGATCTTAATTT
56141419 GGAGTTCCGT
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 156 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (180 bp):
TACCATGAGATAAATAATTTTTAGTGAAGAAAGATTGGAACTATCAGACAGTGAAATAGGGGTAA
CTTTAACCAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAATAT
ATGTGAGTATAGTTTCTGAGAAAATTAACAGATCTTAATTTCAATTTCCT
Found at i:56144313 original size:27 final size:29
Alignment explanation
Indices: 56144273--56144348 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 29
56144263 CATACATGCT
* *
56144273 TATGGCCCACTAGGCCCAATTTA-TTC-A
1 TATGGCCCACTAGGCCCAATTCACATCTA
* *
56144300 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCCAATTCACATCTA
56144329 TATGGCCCACTAGGCCCAAT
1 TATGGCCCACTAGGCCCAAT
56144349 CACTTTTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 20 0.49
28 2 0.05
29 19 0.46
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAATTCACATCTA
Found at i:56144592 original size:16 final size:16
Alignment explanation
Indices: 56144571--56144621 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
56144561 GTAGCCAAAC
56144571 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
*
56144587 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
* *
56144603 TTTCGGCTTTTCGGGA
1 TTTCAGCTTTTCGGCA
56144619 TTT
1 TTT
56144622 GCCAATCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:56147586 original size:40 final size:40
Alignment explanation
Indices: 56147492--56147636 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
56147482 TACTCGAATG
* *
56147492 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
56147533 ACATTCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56147573 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
56147613 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56147637 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56147680 original size:16 final size:16
Alignment explanation
Indices: 56147659--56147693 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
56147649 GTTATATCCG
56147659 GCTAAACCCCGAAGAT
1 GCTAAACCCCGAAGAT
*
56147675 GCTAAACCTCGAAGAT
1 GCTAAACCCCGAAGAT
56147691 GCT
1 GCT
56147694 TGATTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (16 bp):
GCTAAACCCCGAAGAT
Found at i:56152012 original size:40 final size:40
Alignment explanation
Indices: 56151918--56152062 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
56151908 TACTCGAATG
*
56151918 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56151959 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56151999 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
56152039 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56152063 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56156991 original size:140 final size:140
Alignment explanation
Indices: 56156736--56157009 Score: 422
Period size: 140 Copynumber: 2.0 Consensus size: 140
56156726 CATCATACCC
* *
56156736 TATATATGGTTCATCCTTAAATAAGAATCCCTGCTCAAAACAAAAGGGATGCTTTAGAATATCAT
1 TATATAGGGTTCATCCTTAAATAAGAATCCCTACTCAAAACAAAAGGGATGCTTTAGAATATCAT
* ** * *
56156801 TTGAGTACTTTGTATTCACAACAGAGTTGAAGAATGTCTTTCGTTGAGAAACATCAGTGCATGAT
66 TTGAGTACCTTGTAGCCACAACAGAGTTGAAGAATGTATTTCGTTAAGAAACATCAGTGCATGAT
56156866 GACTTCATGA
131 GACTTCATGA
*
56156876 TATATAGGGTTCATCCTTAAATAAGAATCCCTACTCAAAACAAAAGGGATGCTTTAGAATATTAT
1 TATATAGGGTTCATCCTTAAATAAGAATCCCTACTCAAAACAAAAGGGATGCTTTAGAATATCAT
** * ** *
56156941 TTGAGTACCTTGTAGCCACAGTAGAGTTGAAGAATGTATTTGGTTAAGAAATGTCTGTGCATGAT
66 TTGAGTACCTTGTAGCCACAACAGAGTTGAAGAATGTATTTCGTTAAGAAACATCAGTGCATGAT
56157006 GACT
131 GACT
56157010 CTGCAATTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
140 120 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (140 bp):
TATATAGGGTTCATCCTTAAATAAGAATCCCTACTCAAAACAAAAGGGATGCTTTAGAATATCAT
TTGAGTACCTTGTAGCCACAACAGAGTTGAAGAATGTATTTCGTTAAGAAACATCAGTGCATGAT
GACTTCATGA
Found at i:56160764 original size:46 final size:46
Alignment explanation
Indices: 56160697--56160874 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
56160687 TGTAACCCGC
*
56160697 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* **
56160743 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* **
56160793 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
56160836 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
56160875 CTCAATCATC
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 5 0.05
46 62 0.57
47 29 0.27
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:56160816 original size:93 final size:93
Alignment explanation
Indices: 56160704--56160875 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
56160694 CGCCCATAAG
** *
56160704 CGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
56160768 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
56160797 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
56160862 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56160876 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56165416 original size:25 final size:25
Alignment explanation
Indices: 56165388--56165482 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
56165378 CTCTTTTAAT
* * *
56165388 AACTGGGGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
**
56165413 AACTGGGGCAATTCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
56165438 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
56165463 ACCTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56165483 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:56166481 original size:27 final size:27
Alignment explanation
Indices: 56166443--56166881 Score: 354
Period size: 27 Copynumber: 16.2 Consensus size: 27
56166433 TTAGTTTATC
* * *
56166443 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
56166470 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
56166497 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** *
56166524 AAATTACCAAAATA-CCTTTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
56166551 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
56166578 AAATTACCAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
56166605 AAATTACCAAAATACCACT-GATTTGTG
1 AAATTACCAAAATACC-CTCGATTTGTA
** *
56166632 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
56166659 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
56166686 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
56166713 AAATTACCAAAATACCC-CTGATTTATG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
56166740 AAATTACCGAAATACCCTC-AGTTTGAA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** * *
56166767 AAATTACTGAAATACCGTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
56166794 AAATTATTGAAATACCCTCGACTTGTAA
1 AAATTACCAAAATACCCTCGATTTGT-A
* * **
56166822 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
56166849 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
56166876 AAATTA
1 AAATTA
56166882 TTGAAATACC
Statistics
Matches: 341, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.02
27 308 0.90
28 27 0.08
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:56166806 original size:54 final size:53
Alignment explanation
Indices: 56166463--56166845 Score: 390
Period size: 54 Copynumber: 7.1 Consensus size: 53
56166453 AATGCCCTCA
* *
56166463 ATTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-
1 ATTTGTAAAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCCTG
* * * *
56166516 AGTTTGTAAAATTACCAAAATACCTTTAGTTTGTGAAATTACCAAAATACCCCTA
1 A-TTTGTAAAATTACCAAAATACC-CTCGTTTGTAAAATTACCAAAATACCCCTG
* * *
56166571 ATTTGTGAAATTACCAAAATACCCTCGACTTGTAAAATTACCAAAATACCACTG
1 ATTTGTAAAATTACCAAAATACCCTCG-TTTGTAAAATTACCAAAATACCCCTG
* ** * *
56166625 ATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCTCG-TTTGTAAAATTACCAAAATACCCCTG
* ** *
56166679 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACCAAAATA-CCCTCGTTTGTAAAATTACCAAAATACCCCTG
* * * * ** **
56166733 ATTTATGAAATTACCGAAATACCCTCAGTTTGAAAAATTACTGAAATACCGTTG
1 ATTTGTAAAATTACCAAAATACCCTC-GTTTGTAAAATTACCAAAATACCCCTG
*** * * *
56166787 ATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAAATTACCAAAGTACCCCCG
1 ATTTGTAAAATTACCAAAATACCCTCG-TTTGT-AAAATTACCAAAATACCCCTG
56166842 ATTT
1 ATTT
56166846 ACAGAATTAC
Statistics
Matches: 276, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
53 10 0.04
54 241 0.87
55 25 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
ATTTGTAAAATTACCAAAATACCCTCGTTTGTAAAATTACCAAAATACCCCTG
Found at i:56166907 original size:27 final size:27
Alignment explanation
Indices: 56166877--56166950 Score: 114
Period size: 27 Copynumber: 2.7 Consensus size: 27
56166867 CGATTTACAA
*
56166877 AATTATTGAAATACCCCTGT-AGTGTAG
1 AATTATCGAAATACCCCTGTAAG-GTAG
56166904 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAAGGTAG
*
56166931 AATTATCGAAATACCTCTGT
1 AATTATCGAAATACCCCTGT
56166951 TATATGATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAAGGTAG
Found at i:56167909 original size:27 final size:27
Alignment explanation
Indices: 56167879--56168060 Score: 274
Period size: 27 Copynumber: 6.7 Consensus size: 27
56167869 AATGGTATTT
* * *
56167879 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
56167906 TACCCTATAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
56167933 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
56167960 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
56167987 TACCCTACAGGGGTATTTCGGTAATTT
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
56168014 TACCCTATAGGGGTATTTTGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
56168041 TACCCTACAGTGGTATTTCG
1 TACCCTACAGGGGTATTTCG
56168061 ATATTTTACA
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:56168109 original size:27 final size:26
Alignment explanation
Indices: 56168047--56168219 Score: 93
Period size: 27 Copynumber: 6.5 Consensus size: 26
56168037 ATTCTACCCT
* *
56168047 ACAGTGGTATTTCGAT-ATTTTACAA
1 ACAGGGGTATTTCGATAATTTTATAA
** * *
56168072 ATTGAGAGTATTTCGATAATTTCATAA
1 ACAG-GGGTATTTCGATAATTTTATAA
* * *
56168099 ATCAGGGGTATTTTGGTAATTTTACAA
1 A-CAGGGGTATTTCGATAATTTTATAA
* *
56168126 ACCAGGAGTATTT-TAGTAATTTTATAA
1 A-CAGGGGTATTTCGA-TAATTTTATAA
56168153 ACAAGGGGTATTTTC-ATAATTTTACTAA
1 AC-AGGGGTA-TTTCGATAATTTTA-TAA
* * * *
56168181 TC-GAGGGTATTTTGGTAATGTTATAA
1 ACAG-GGGTATTTCGATAATTTTATAA
*
56168207 ACCAAGGGTATTT
1 A-CAGGGGTATTT
56168220 TAGTAATTTT
Statistics
Matches: 111, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
25 2 0.02
26 18 0.16
27 82 0.74
28 9 0.08
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
ACAGGGGTATTTCGATAATTTTATAA
Found at i:56168220 original size:27 final size:27
Alignment explanation
Indices: 56168088--56168558 Score: 193
Period size: 27 Copynumber: 17.4 Consensus size: 27
56168078 AGTATTTCGA
* * *
56168088 TAATTTCATAAATCAGGGGTATTTTGG
1 TAATTTTATAAATCAAGGGTATTTTAG
* *
56168115 TAATTTTACAAA-CCAGGAGTATTTTAG
1 TAATTTTATAAATCAAGG-GTATTTTAG
56168142 TAATTTTATAAA-CAAGGGGTATTTTCA-
1 TAATTTTATAAATCAA-GGGTATTTT-AG
* *
56168169 TAATTTTACT-AATCGAGGGTATTTTGG
1 TAATTTTA-TAAATCAAGGGTATTTTAG
* *
56168196 TAATGTTATAAACCAAGGGTATTTTAG
1 TAATTTTATAAATCAAGGGTATTTTAG
* *** *
56168223 TAATTTTGTAAATCAAGGGTAAAATCG
1 TAATTTTATAAATCAAGGGTATTTTAG
* * * * ***
56168250 CAATTCTGTAAATCGAGGGTAAAAT-G
1 TAATTTTATAAATCAAGGGTATTTTAG
* * * *****
56168276 ATAATTCTGTAAATTAAGGGTAAAACGG
1 -TAATTTTATAAATCAAGGGTATTTTAG
* * *** *
56168304 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCAAGGGTATTTTAG
* * * *** *
56168331 TAATTCTATAAATCGAGGCTAAAATGG
1 TAATTTTATAAATCAAGGGTATTTTAG
* * * * *
56168358 TAATTATGTAAATCGAGGGTACTTTGG
1 TAATTTTATAAATCAAGGGTATTTTAG
* ** *
56168385 TAATTTTACAAATTGAGGGCATTTTAG
1 TAATTTTATAAATCAAGGGTATTTTAG
* * * * *
56168412 TAATTTTA-CAATCGACGATATTTCAG
1 TAATTTTATAAATCAAGGGTATTTTAG
* ** * *
56168438 TAATTTTATAAACCGGGGGTACTTTGG
1 TAATTTTATAAATCAAGGGTATTTTAG
* *
56168465 TAATTTTACAAGTCGAA-GGTATTTTAG
1 TAATTTTATAAATC-AAGGGTATTTTAG
* * *
56168492 TAATTTTACAAATCGAGGGTATTTCAG
1 TAATTTTATAAATCAAGGGTATTTTAG
* **
56168519 TAATTTTACAAA-CTAAGGGTATTTCGG
1 TAATTTTATAAATC-AAGGGTATTTTAG
56168546 TAATTTTAGTAAA
1 TAATTTTA-TAAA
56168559 CTAAAGTATT
Statistics
Matches: 358, Mismatches: 72, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
26 27 0.08
27 321 0.90
28 10 0.03
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
TAATTTTATAAATCAAGGGTATTTTAG
Found at i:56168389 original size:54 final size:54
Alignment explanation
Indices: 56168222--56168378 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
56168212 GGGTATTTTA
* * *
56168222 GTAATTTTGTAAATCAAGGGTAAAATCGCAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
* * * *
56168276 ATAATTCTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
* * * *
56168330 GTAATTCTATAAATCGAGGCTAAAATGGTAATTATGTAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
56168379 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:56168403 original size:81 final size:81
Alignment explanation
Indices: 56168204--56168403 Score: 220
Period size: 81 Copynumber: 2.5 Consensus size: 81
56168194 GGTAATGTTA
* * * * * * *
56168204 TAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATCGCAATTCTGTAAATCGAGGG
1 TAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATCGCAATTCTATAAATCGAGGC
*
56168269 TAAAATGATAATTCTG
66 TAAAATGATAATTATG
* *** * * *
56168285 TAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGC
1 TAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATCGCAATTCTATAAATCGAGGC
*
56168350 TAAAATGGTAATTATG
66 TAAAATGATAATTATG
* * * *
56168366 TAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 TAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGG
56168404 CATTTTAGTA
Statistics
Matches: 94, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (81 bp):
TAAATCAAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATCGCAATTCTATAAATCGAGGC
TAAAATGATAATTATG
Found at i:56168459 original size:80 final size:81
Alignment explanation
Indices: 56168373--56168553 Score: 249
Period size: 80 Copynumber: 2.2 Consensus size: 81
56168363 ATGTAAATCG
* *
56168373 AGGGTACTTTGGTAATTTTACAAATTGAGGGCATTTTAGTAATTTTAC-AATCGACGATATTTCA
1 AGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGACGATATTTCA
* *
56168437 GTAATTTTATAAACCG
66 GTAATTTTACAAACCA
* * * * *
56168453 GGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCA
1 AGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGACGATATTTCA
*
56168518 GTAATTTTACAAACTA
66 GTAATTTTACAAACCA
56168534 AGGGTA-TTTCGGTAATTTTA
1 AGGGTACTTT-GGTAATTTTA
56168554 GTAAACTAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 46 0.52
81 42 0.48
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
AGGGTACTTTGGTAATTTTACAAATCGAAGGCATTTTAGTAATTTTACAAATCGACGATATTTCA
GTAATTTTACAAACCA
Found at i:56170556 original size:40 final size:40
Alignment explanation
Indices: 56170461--56170687 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
56170451 TGAAAATCGT
* * * * **
56170461 GCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
56170501 GC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
56170540 GCTAAGTCCCAAAGGCAATTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
*
56170580 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
56170620 GCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCGG
* *
56170660 GCTATGTCCCGAAGGCATTTGAGCGAGT
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT
56170688 AGCTATATCC
Statistics
Matches: 168, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.20
40 133 0.79
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:56173002 original size:46 final size:45
Alignment explanation
Indices: 56172809--56173202 Score: 409
Period size: 45 Copynumber: 8.7 Consensus size: 45
56172799 TTCAATCGAG
** ** * *
56172809 TAAGACCATAGTTGAAAGATGCTATGGCATCATGAT-TTAGATGAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCAT-ATCAAAAATGAA
* ** *
56172854 TAATACCATAGTTGAAAGACACTATGGCATCATATTGGAAAGTGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATA-TCAAAAATGAA
* * * *
56172900 TAAGACAATAGTT-AAAGACACTATGGAATCCTATCAAAAATGGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGAA
*
56172944 TAAGGCCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATC-AAAAATGAA
* * *
56172990 TAAGACCATAGTTGAAAGACACTATTGCATCTTATCAAAAATGGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGAA
* * * * *
56173035 TAAGACTATATTTAAAAGACACTATGGCATTATATCAAAAACTGCA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAA-TGAA
* *
56173081 TAAGACTATGGTTGAAAGACACTATGGCATCATATCAAAAAGTGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAA-TGAA
* * * * *
56173127 TAAGACCAT-GATTGAAAGATATTATGGCATCA-AGTCGAGAATAAA
1 TAAGACCATAG-TTGAAAGACACTATGGCATCATA-TCAAAAATGAA
* *
56173172 TAAGACCATGGTTGAAAGACACTGTGGCATC
1 TAAGACCATAGTTGAAAGACACTATGGCATC
56173203 CTTCAATCAT
Statistics
Matches: 294, Mismatches: 47, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
44 19 0.06
45 143 0.49
46 132 0.45
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGAA
Found at i:56173070 original size:91 final size:90
Alignment explanation
Indices: 56172809--56173202 Score: 402
Period size: 91 Copynumber: 4.3 Consensus size: 90
56172799 TTCAATCGAG
** ** * *
56172809 TAAGACCATAGTTGAAAGATGCTATGGCATCATGAT-TTAGAT-GAGTAATACCATAGTTGAAAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCAT-ATCAAAAATGGA-TAAGACCATA-TTGAAAG
*** *
56172872 ACACTATGGCATCATATTGGAAAGTGAA
63 ACACTATGGCATCATATCAAAAAATGAA
* * * *
56172900 TAAGACAATAGTT-AAAGACACTATGGAATCCTATCAAAAATGGATAAGGCCATAGTTGAAAGAC
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGGATAAGACCATA-TTGAAAGAC
56172964 ACTATGGCATCATATCAAAAAATGAA
65 ACTATGGCATCATATCAAAAAATGAA
* * * *
56172990 TAAGACCATAGTTGAAAGACACTATTGCATCTTATCAAAAATGGATAAGACTATATTTAAAAGAC
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGGATAAGACCATA-TTGAAAGAC
* * *
56173055 ACTATGGCATTATATCAAAAACTGCA
65 ACTATGGCATCATATCAAAAAATGAA
* * *
56173081 TAAGACTATGGTTGAAAGACACTATGGCATCATATCAAAAAGTGAATAAGACCATGATTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAA-TGGATAAGACCAT-ATTGAAAGA
* * * * *
56173146 TATTATGGCATCA-AGTC-GAGAATAAA
64 CACTATGGCATCATA-TCAAAAAATGAA
* *
56173172 TAAGACCATGGTTGAAAGACACTGTGGCATC
1 TAAGACCATAGTTGAAAGACACTATGGCATC
56173203 CTTCAATCAT
Statistics
Matches: 255, Mismatches: 42, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
89 2 0.01
90 70 0.27
91 152 0.60
92 30 0.12
93 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (90 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAATGGATAAGACCATATTGAAAGACA
CTATGGCATCATATCAAAAAATGAA
Found at i:56173175 original size:137 final size:135
Alignment explanation
Indices: 56172809--56173202 Score: 400
Period size: 137 Copynumber: 2.9 Consensus size: 135
56172799 TTCAATCGAG
** ** * * *
56172809 TAAGACCATAGTTGAAAGATGCTATGGCATCATGAT--TTAGATGAGTAATACCATAGTTGAAAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCAT-ATCAAAAAATGAATAAGACCATAGTTGAAAG
* ** * * * *
56172872 ACACTATGGCATCATATTGGAAAGTGAATAAGACAATAGTTAAAGACACTATGGAATCCTATCAA
65 ACACTATGGCATC-TAATCAAAAATAAATAAGACAATAGTTAAAGACACTATGGCATCATATCAA
*
56172937 AAATGGA
129 AAATGCA
*
56172944 TAAGGCCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAATAAGACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAATAAGACCATAGTTGAAAGA
* * ** * * *
56173009 CACTATTGCATCTTATCAAAAATGGATAAGACTATATTTAAAAGACACTATGGCATTATATCAAA
66 CACTATGGCATCTAATCAAAAATAAATAAGACAATAGTT-AAAGACACTATGGCATCATATCAAA
56173074 AACTGCA
130 AA-TGCA
* * *
56173081 TAAGACTATGGTTGAAAGACACTATGGCATCATATCAAAAAGTGAATAAGACCAT-GATTGAAAG
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAATAAGACCATAG-TTGAAAG
* * * * * * *
56173145 ATATTATGGCATC-AAGTCGAGAATAAATAAGACCATGGTTGAAAGACACTGTGGCATC
65 ACACTATGGCATCTAA-TCAAAAATAAATAAGACAATAGTT-AAAGACACTATGGCATC
56173203 CTTCAATCAT
Statistics
Matches: 214, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
134 2 0.01
135 49 0.23
136 60 0.28
137 103 0.48
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (135 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAATAAGACCATAGTTGAAAGA
CACTATGGCATCTAATCAAAAATAAATAAGACAATAGTTAAAGACACTATGGCATCATATCAAAA
ATGCA
Found at i:56173188 original size:45 final size:46
Alignment explanation
Indices: 56172858--56173202 Score: 322
Period size: 46 Copynumber: 7.6 Consensus size: 46
56172848 GATGAGTAAT
* *** *
56172858 ACCATAGTTGAAAGACACTATGGCATCATATTGGAAAGTGAATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* * * * **
56172904 ACAATAGTT-AAAGACACTATGGAATCCTATCAAAAA-TGGATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* * * *
56172948 GCCATAGTTGAAAGACACTATGGCATCATATCAAAAAATGAATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* * * **
56172994 ACCATAGTTGAAAGACACTATTGCATCTTATCAAAAA-TGGATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* ** * * * **
56173039 ACTATATTTAAAAGACACTATGGCATTATATCAAAAACTGCATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* *
56173085 ACTATGGTTGAAAGACACTATGGCATCATATCAAAAAGTGAATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
* * * * *
56173131 ACCATGATTGAAAGATATTATGGCATCA-AGTCGAGAA-TAAATAAG
1 ACCATGGTTGAAAGACACTATGGCATCATA-TCAAAAAGTAAATAAG
*
56173176 ACCATGGTTGAAAGACACTGTGGCATC
1 ACCATGGTTGAAAGACACTATGGCATC
56173203 CTTCAATCAT
Statistics
Matches: 255, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
44 14 0.05
45 116 0.45
46 125 0.49
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (46 bp):
ACCATGGTTGAAAGACACTATGGCATCATATCAAAAAGTAAATAAG
Found at i:56183610 original size:21 final size:21
Alignment explanation
Indices: 56183585--56183637 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
56183575 GTTGTTGAGA
*
56183585 AGGAAGTTGCTGCTGCAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
* * *
56183606 AGGAAGTTGTTGTTGAAGTAG
1 AGGAAGTTGCTGCTGAAGAAG
*
56183627 AAGAAGTTGCT
1 AGGAAGTTGCT
56183638 AAAAATGAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.36, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:56185742 original size:7 final size:7
Alignment explanation
Indices: 56185730--56185766 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
56185720 CACATTTCTA
56185730 CTCATCC
1 CTCATCC
56185737 CTCATCC
1 CTCATCC
56185744 CTCATCC
1 CTCATCC
*
56185751 CTCATCA
1 CTCATCC
56185758 CTCATCC
1 CTCATCC
56185765 CT
1 CT
56185767 TATCATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.16, C:0.54, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCC
Found at i:56185749 original size:14 final size:14
Alignment explanation
Indices: 56185729--56185776 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
56185719 TCACATTTCT
56185729 ACTCATCCCTCATC
1 ACTCATCCCTCATC
*
56185743 CCTCATCCCTCATC
1 ACTCATCCCTCATC
*
56185757 ACTCATCCCTTATC
1 ACTCATCCCTCATC
*
56185771 ATTCAT
1 ACTCAT
56185777 GACTCTCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.21, C:0.46, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTCATCCCTCATC
Found at i:56185776 original size:21 final size:21
Alignment explanation
Indices: 56185729--56185781 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
56185719 TCACATTTCT
*
56185729 ACTCATCCCTCATCCCTCATC
1 ACTCATCACTCATCCCTCATC
* *
56185750 CCTCATCACTCATCCCTTATC
1 ACTCATCACTCATCCCTCATC
* *
56185771 ATTCATGACTC
1 ACTCATCACTC
56185782 TCTCCTCTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.45, G:0.02, T:0.32
Consensus pattern (21 bp):
ACTCATCACTCATCCCTCATC
Found at i:56195574 original size:150 final size:150
Alignment explanation
Indices: 56195303--56195605 Score: 606
Period size: 150 Copynumber: 2.0 Consensus size: 150
56195293 GGGAGTCTAT
56195303 AGATCGATTTACTGCTTCCCTAGGGGTTTTAATTAAGAAAGAGATTTCGATTAATTCAACTGAGG
1 AGATCGATTTACTGCTTCCCTAGGGGTTTTAATTAAGAAAGAGATTTCGATTAATTCAACTGAGG
56195368 GTTAGACATTATTAGTCTCAAAAGAGATAATAATATAGGTTAGGGAGTCTCACGGATCAAGTCAA
66 GTTAGACATTATTAGTCTCAAAAGAGATAATAATATAGGTTAGGGAGTCTCACGGATCAAGTCAA
56195433 GTGAATAAATCGTCTGGTTC
131 GTGAATAAATCGTCTGGTTC
56195453 AGATCGATTTACTGCTTCCCTAGGGGTTTTAATTAAGAAAGAGATTTCGATTAATTCAACTGAGG
1 AGATCGATTTACTGCTTCCCTAGGGGTTTTAATTAAGAAAGAGATTTCGATTAATTCAACTGAGG
56195518 GTTAGACATTATTAGTCTCAAAAGAGATAATAATATAGGTTAGGGAGTCTCACGGATCAAGTCAA
66 GTTAGACATTATTAGTCTCAAAAGAGATAATAATATAGGTTAGGGAGTCTCACGGATCAAGTCAA
56195583 GTGAATAAATCGTCTGGTTC
131 GTGAATAAATCGTCTGGTTC
56195603 AGA
1 AGA
56195606 GTCAGATAAC
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 153 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (150 bp):
AGATCGATTTACTGCTTCCCTAGGGGTTTTAATTAAGAAAGAGATTTCGATTAATTCAACTGAGG
GTTAGACATTATTAGTCTCAAAAGAGATAATAATATAGGTTAGGGAGTCTCACGGATCAAGTCAA
GTGAATAAATCGTCTGGTTC
Found at i:56197581 original size:40 final size:40
Alignment explanation
Indices: 56197526--56197710 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
56197516 CGGATGATAA
* *
56197526 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
56197566 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * * *
56197606 CCGAGCTAAGTCTCAAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56197646 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAAAT
56197686 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56197711 AGCAAGTAGC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 127 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56197724 original size:80 final size:80
Alignment explanation
Indices: 56197522--56197742 Score: 281
Period size: 80 Copynumber: 2.8 Consensus size: 80
56197512 TATTCGGATG
* * *
56197522 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAAATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAG-CTATATCCGGGCTAAGTCCCGAAGGC
56197586 ATTTGTGCGAGTTATT
65 ATTTGTGCGAGTTATT
* * * * *
56197602 ATATCCGAGCTAAGTCTCAAAGGCATTTGTA-CGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG-AGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGG
56197665 CATTTGTGCGAGTTACTT
64 CATTTGTGCGAGTTA-TT
* *
56197683 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGGCTAAGTCCCGAAG
56197743 ATACTTGGTT
Statistics
Matches: 121, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
79 16 0.13
80 102 0.84
81 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTATT
Found at i:56209436 original size:17 final size:18
Alignment explanation
Indices: 56209410--56209443 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56209400 TTTTTGTTTA
56209410 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
56209427 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
56209444 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:56215226 original size:43 final size:43
Alignment explanation
Indices: 56215178--56215285 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
56215168 ATCGAGATGT
* *
56215178 GATTACATGTACGACCATGTCTGAGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTATTGA
* * *
56215221 GATTACGTATAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTATTGA
* *
56215264 GATTCCGTGTAAGACCTTGTCT
1 GATTACGTGTAAGACCATGTCT
56215286 AGGACAGTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTATTGA
Found at i:56218733 original size:45 final size:45
Alignment explanation
Indices: 56218668--56219079 Score: 203
Period size: 45 Copynumber: 9.1 Consensus size: 45
56218658 TAAGCAGGTT
** **
56218668 CATCATTATTCAAATGAGTAAGACCATAGCTGAAAGATGCTATGG
1 CATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACACTATGG
* * **
56218713 CATCATTATTCAAACAAGTAATATCATAGCTGAAAGATGCTATGG
1 CATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACACTATGG
* * ** *
56218758 CATCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATGG
1 CATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACACTATGG
* ** *
56218803 CATCCAATA-GAAAACGAA-TAAGACCATAGTTGAAAGACACTATGG
1 CAT-CATTATTCAAAC-AAGTAAGACCATAGCTGAAAGACACTATGG
* *
56218848 CATCA-TA-TCGGAAAGTATA-TAAGACCATAG-TTAAAGACACTATGG
1 CATCATTATTC--AAA-CA-AGTAAGACCATAGCTGAAAGACACTATGG
* * * * * * *
56218893 CAAC-CTA-CCGAAGATGGATAAGACCATAGTTGAAAGACAC-ATGG
1 CATCATTATTCAAACA-AG-TAAGACCATAGCTGAAAGACACTATGG
* * *
56218937 CATCA-TA-TCGGAAAGTGAA-TAAGACTATAGTTGAAAGACACTAT-G
1 CATCATTATTC--AAA--CAAGTAAGACCATAGCTGAAAGACACTATGG
* * *
56218982 -A-CATTCTATCGAATATGAA-TAAGACCATAGTTGAAAGACACTATGG
1 CATCATTAT-TC-AA-A-CAAGTAAGACCATAGCTGAAAGACACTATGG
* * * *
56219028 CATCA-TATTGGAAA-ATGAATAAGACCATGGTTGAAAGACACTATGG
1 CATCATTATT-CAAACA--AGTAAGACCATAGCTGAAAGACACTATGG
56219074 CATCAT
1 CATCAT
56219080 ATCGGGAAGT
Statistics
Matches: 299, Mismatches: 40, Indels: 54
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.01
43 7 0.02
44 25 0.08
45 200 0.67
46 58 0.19
47 3 0.01
48 4 0.01
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (45 bp):
CATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACACTATGG
Found at i:56218831 original size:90 final size:89
Alignment explanation
Indices: 56218668--56219169 Score: 419
Period size: 90 Copynumber: 5.6 Consensus size: 89
56218658 TAAGCAGGTT
* * ** * **
56218668 CATCATTATTCAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCAT-CATTATTCAAAC-AAG
1 CATCA-TATTCAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCCAATA-GAAAACGAA-
* * * **
56218731 TAATATCATAGCTGAAAGATGCTATGG
63 TAAGACCATAGTTGAAAGACACTATGG
* *
56218758 CATCATGATTCAGATGAGTAAGACCATAGTTGAAAGACACTATGGCATCCAATAGAAAACGAATA
1 CATCAT-ATTCAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCCAATAGAAAACGAATA
56218823 AGACCATAGTTGAAAGACACTATGG
65 AGACCATAGTTGAAAGACACTATGG
* * ** * * *
56218848 CATCATA-TCGGAAA-GTATATAAGACCATAGTT-AAAGACACTATGGCAACCTACCGAAGATGG
1 CATCATATTC--AAATG-A-ATAAGACCATAGTTGAAAGACACTATGGCATCCAATAGAAAACGA
56218910 ATAAGACCATAGTTGAAAGACAC-ATGG
62 ATAAGACCATAGTTGAAAGACACTATGG
* * * * * * *
56218937 CATCATA-TCGGAAAGTGAATAAGACTATAGTTGAAAGACACTATGACATTCTATCGAATATGAA
1 CATCATATTC--AAA-TGAATAAGACCATAGTTGAAAGACACTATGGCATCCAATAGAAAACGAA
56219001 TAAGACCATAGTTGAAAGACACTATGG
63 TAAGACCATAGTTGAAAGACACTATGG
* * * * **
56219028 CATCATATTGGAAAATGAATAAGACCATGGTTGAAAGACACTATGGCAT-CATATCGGGAAGTGA
1 CATCATATT--CAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCCA-AT-AGAAAACGA
* * *
56219092 ATAAGACCATGGTTGAAAGACATTATAG
62 ATAAGACCATAGTTGAAAGACACTATGG
* * * *
56219120 CATTA-AGTCGAGAATAAATAAGACCATGGTTGAAAGACACTATGGCATCC
1 CATCATATTC-A-AATGAATAAGACCATAGTTGAAAGACACTATGGCATCC
56219170 TTCAATCATT
Statistics
Matches: 349, Mismatches: 44, Indels: 36
0.81 0.10 0.08
Matches are distributed among these distances:
88 2 0.01
89 34 0.10
90 173 0.50
91 101 0.29
92 39 0.11
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (89 bp):
CATCATATTCAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCCAATAGAAAACGAATAA
GACCATAGTTGAAAGACACTATGG
Found at i:56218854 original size:24 final size:24
Alignment explanation
Indices: 56218782--56218854 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 24
56218772 TGAGTAAGAC
56218782 CATAGTTGAAAGACACTATGGCAT
1 CATAGTTGAAAGACACTATGGCAT
* * * *
56218806 CCA-A-TAGAAA-ACGAATA-AG-AC
1 -CATAGTTGAAAGAC-ACTATGGCAT
56218827 CATAGTTGAAAGACACTATGGCAT
1 CATAGTTGAAAGACACTATGGCAT
56218851 CATA
1 CATA
56218855 TCGGAAAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 13
0.62 0.15 0.24
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 11 0.32
23 11 0.32
24 6 0.18
25 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (24 bp):
CATAGTTGAAAGACACTATGGCAT
Found at i:56219061 original size:46 final size:46
Alignment explanation
Indices: 56218771--56219168 Score: 474
Period size: 45 Copynumber: 8.8 Consensus size: 46
56218761 CATGATTCAG
* *
56218771 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCCA-AT-AGAAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCAT-CATATCGGAAA
*
56218816 ACGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
* * * * *
56218862 GT-ATATAAGACCATAGTT-AAAGACACTATGGCAACCTA-CCGAAG
1 ATGA-ATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
*
56218906 ATGGATAAGACCATAGTTGAAAGACAC-ATGGCATCATATCGGAAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
* * * *
56218951 GTGAATAAGACTATAGTTGAAAGACACTATGACATTC-TATC-GAAT
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCA-TCATATCGGAAA
*
56218996 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATTGGAAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
* *
56219042 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGGAA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
* * * * * *
56219088 GTGAATAAGACCATGGTTGAAAGACATTATAGCATTA-AGTC-GAGA
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATA-TCGGAAA
* *
56219133 ATAAATAAGACCATGGTTGAAAGACACTATGGCATC
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATC
56219169 CTTCAATCAT
Statistics
Matches: 303, Mismatches: 39, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
44 32 0.11
45 161 0.53
46 108 0.36
47 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAA
Found at i:56219164 original size:91 final size:91
Alignment explanation
Indices: 56218776--56219168 Score: 471
Period size: 91 Copynumber: 4.3 Consensus size: 91
56218766 TTCAGATGAG
* * *
56218776 TAAGACCATAGTTGAAAGACACTATGGCATCCA-ATAGAAAACGAATAAGACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCAT-CATATCGGAAATGAATAAGACCATAGTTGAAAGA
*
56218840 CACTATGGCATCATATCGGAAAGTATA
65 CACTATGGCATCATATCGGAAAGTAAA
* * * *
56218867 TAAGACCATAGTT-AAAGACACTATGGCAACCTA-CCGAAGATGGATAAGACCATAGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAA-ATGAATAAGACCATAGTTGAAAGA
*
56218930 CAC-ATGGCATCATATCGGAAAGTGAA
65 CACTATGGCATCATATCGGAAAGTAAA
* *
56218956 TAAGACTATAGTTGAAAGACACTATGACATTC-TATC-GAATATGAATAAGACCATAGTTGAAAG
1 TAAGACCATAGTTGAAAGACACTATGGCA-TCATATCGGAA-ATGAATAAGACCATAGTTGAAAG
* * *
56219019 ACACTATGGCATCATATTGGAAAATGAA
64 ACACTATGGCATCATATCGGAAAGTAAA
* * *
56219047 TAAGACCATGGTTGAAAGACACTATGGCATCATATCGGGAAGTGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATC-GGAAATGAATAAGACCATAGTTGAAAGA
* * *
56219112 CATTATAGCATTA-AGTC-GAGAA-TAAA
65 CACTATGGCATCATA-TCGGA-AAGTAAA
*
56219138 TAAGACCATGGTTGAAAGACACTATGGCATC
1 TAAGACCATAGTTGAAAGACACTATGGCATC
56219169 CTTCAATCAT
Statistics
Matches: 265, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
89 36 0.14
90 88 0.33
91 103 0.39
92 35 0.13
93 3 0.01
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (91 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATATCGGAAATGAATAAGACCATAGTTGAAAGAC
ACTATGGCATCATATCGGAAAGTAAA
Found at i:56222479 original size:5 final size:5
Alignment explanation
Indices: 56222469--56222493 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56222459 TTTTTCATGG
56222469 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
56222494 TTTTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:56224719 original size:25 final size:25
Alignment explanation
Indices: 56224674--56224744 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
56224664 GAGGAAGTGC
*
56224674 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTACCA
* *
56224700 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56224725 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56224745 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56224757 original size:24 final size:24
Alignment explanation
Indices: 56224673--56224757 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 24
56224663 GGAGGAAGTG
*
56224673 CAAAAGGGCTTTTGCCCCAGTTTAC
1 CAAAAGGGC-TTTGCCCCAGTTTAT
*
56224698 CGAAAAGGGCTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
56224723 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
56224747 TAAAAGAGGCT
1 CAAAAG-GGCT
56224758 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 32 0.60
26 8 0.15
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:56225001 original size:30 final size:31
Alignment explanation
Indices: 56224965--56225047 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
56224955 CGTTTACAGT
*
56224965 AAAGGCTTCGGCCTAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
56224995 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
56225026 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
56225048 TTGAGATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:56225030 original size:31 final size:30
Alignment explanation
Indices: 56224965--56225042 Score: 111
Period size: 31 Copynumber: 2.6 Consensus size: 30
56224955 CGTTTACAGT
* *
56224965 AAAGGCTTCGGCCTAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
*
56224995 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
*
56225026 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
56225043 ATATGTTGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 21 0.49
31 22 0.51
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:56228680 original size:50 final size:49
Alignment explanation
Indices: 56228564--56228739 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
56228554 TTGGTACGCA
* * **
56228564 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* *
56228613 TAGTAGCCTGCACTTAGTATTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
56228663 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
56228714 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
56228740 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 28 0.26
50 40 0.37
51 36 0.34
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:56228738 original size:101 final size:99
Alignment explanation
Indices: 56228564--56228749 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 99
56228554 TTGGTACGCA
* * *
56228564 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
* *
56228629 GTATTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
56228663 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
56228727 TTAGTACTACACATGCGACCTCA
63 TTAGTACTACACACGCGACCTCA
56228750 AATAAATCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
98 4 0.05
99 30 0.40
101 41 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:56237237 original size:20 final size:20
Alignment explanation
Indices: 56237193--56237231 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56237183 AGGGACTAAA
* *
56237193 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
56237213 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
56237232 TTTGAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56238052 original size:53 final size:53
Alignment explanation
Indices: 56237970--56238129 Score: 275
Period size: 53 Copynumber: 3.0 Consensus size: 53
56237960 TGGTTAAGTG
* *
56237970 CCCTAATGGGTACCCTTGAAAAAGGAATTGACAGATTATTAAATCATACGCTT
1 CCCTAATGGGTACCCTTGAAAAAGGAATTGACGGATTATTAAATCATACACTT
*
56238023 CTCTAATGGGTACCCTTGAAAAAGGAATTGACGGATTATTAAATCATACACTT
1 CCCTAATGGGTACCCTTGAAAAAGGAATTGACGGATTATTAAATCATACACTT
* *
56238076 CCCTAATGGGTACGCTTGAAAAAGGAATTGACGGATTATTGAATCATACACTT
1 CCCTAATGGGTACCCTTGAAAAAGGAATTGACGGATTATTAAATCATACACTT
56238129 C
1 C
56238130 GAGTGTACTA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 101 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (53 bp):
CCCTAATGGGTACCCTTGAAAAAGGAATTGACGGATTATTAAATCATACACTT
Found at i:56241720 original size:27 final size:27
Alignment explanation
Indices: 56241690--56241748 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
56241680 AAATAGGAGG
**
56241690 ATTAACACCTTGAACATTTGGATTATC
1 ATTAACACCAAGAACATTTGGATTATC
*
56241717 ATTAACACCAAGACCATTTGGATTATC
1 ATTAACACCAAGAACATTTGGATTATC
56241744 ATTAA
1 ATTAA
56241749 GACTAGGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (27 bp):
ATTAACACCAAGAACATTTGGATTATC
Done.