Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 189 of 199
Found at i:54856667 original size:56 final size:56
Alignment explanation
Indices: 54856562--54856674 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
54856552 TTCCAAGGAA
**
54856562 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
** *
54856618 AATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 AATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
54856674 A
1 A
54856675 GTTTATGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 50 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (56 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT
Found at i:54856866 original size:74 final size:72
Alignment explanation
Indices: 54856618--54857313 Score: 808
Period size: 74 Copynumber: 9.4 Consensus size: 72
54856608 AGGTATTTTT
* * * * * * * *
54856618 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
54856683 TTT---A
66 TTTCAAA
** ** * * *
54856687 AATTGACTCATATTGCGAGAAATGAGTTGAGCCTCTGGACACGCTGAGGTAATTTCAATTTTTTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
54856752 TTTC-AA
66 TTTCAAA
*
54856758 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
54856823 TGTCAAAAA
66 TTTC--AAA
** *
54856832 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
54856897 TTTTC-AA
65 TTTTCAAA
*
54856904 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
54856969 TGTCAAAAAA
66 TTTC---AAA
* ** *
54856979 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
54857044 TTTTCAAGAA
65 TTTTC-A-AA
* *
54857054 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-AA----T-T
*
54857119 TCAATTTATGTTTTTCAAA
55 TCAATTTCTG-TTTTCAAA
*
54857138 AATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
54857203 TTTTTCAAA
65 -TTTTCAAA
* * * * * **
54857212 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTAC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
54857277 TTTCAAA
66 TTTCAAA
*
54857284 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
54857314 ACCTTTTAAT
Statistics
Matches: 550, Mismatches: 53, Indels: 45
0.85 0.08 0.07
Matches are distributed among these distances:
69 57 0.10
71 65 0.12
72 98 0.18
73 10 0.02
74 131 0.24
75 115 0.21
76 4 0.01
78 2 0.00
79 1 0.00
80 1 0.00
81 1 0.00
84 48 0.09
85 2 0.00
86 15 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (72 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TTTCAAA
Found at i:54857179 original size:84 final size:79
Alignment explanation
Indices: 54856618--54857313 Score: 587
Period size: 75 Copynumber: 9.4 Consensus size: 79
54856608 AGGTATTTTT
* * * * *
54856618 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTA--TT---TTT-AGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
54856677 TTATG-TTTT---A
66 TTATGTTTTTCAAA
** ** *
54856687 AATTGACTCATATTGCGAGAAATGAGTTGAGCCTCTGGACACGCTGAGG-----T-AATTTCAAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
*
54856746 TT-TTTTTTTC-AA
66 TTATGTTTTTCAAA
* *
54856758 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC--T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
* ***
54856821 GT-TG--TCAAAAA
66 TTATGTTTTTCAAA
**
54856832 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG-----T-AATTTCAAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
*
54856891 TTTTGTTTTTC-AA
66 TTATGTTTTTCAAA
* *
54856904 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC--T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
* ****
54856967 GT-TG-TCAAAAAA
66 TTATGTTTTTCAAA
* **
54856979 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC---
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
*
54857041 ---TGCTTTTCAAGAA
66 TTATGTTTTTC-A-AA
* *
54857054 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA----T-T
54857119 TCAATTTATGTTTTTCAAA
61 TCAATTTATGTTTTTCAAA
* *
54857138 AATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC---
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
*
54857200 -TGT-TTTTTCAAA
66 TTATGTTTTTCAAA
* * * *
54857212 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTC---
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
*
54857274 -TA---CTTTCAAA
66 TTATGTTTTTCAAA
*
54857284 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
54857314 ACCTTTTAAT
Statistics
Matches: 529, Mismatches: 59, Indels: 75
0.80 0.09 0.11
Matches are distributed among these distances:
66 1 0.00
68 10 0.02
69 52 0.10
70 2 0.00
71 46 0.09
72 86 0.16
73 3 0.01
74 116 0.22
75 125 0.24
76 3 0.01
77 7 0.01
78 6 0.01
79 4 0.01
80 4 0.01
84 56 0.11
85 1 0.00
86 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (79 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCAAT
TTATGTTTTTCAAA
Found at i:54857273 original size:159 final size:159
Alignment explanation
Indices: 54856976--54857269 Score: 466
Period size: 159 Copynumber: 1.9 Consensus size: 159
54856966 TGTTGTCAAA
* * *
54856976 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
**
54857041 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
54857106 TTTCAATTCCTGTTCAATTTATGTTTTTC
131 TTTCAATTCCTGTTCAATTTATGTTTTTC
* *
54857135 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
* ** *
54857200 TGTTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTA
66 TG-CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTA
54857263 TTTTCAA
130 TTTTCAA
54857270 ATTCTACTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
158 55 0.45
159 63 0.51
160 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (159 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
TGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTAT
TTTCAATTCCTGTTCAATTTATGTTTTTC
Found at i:54858544 original size:18 final size:17
Alignment explanation
Indices: 54858523--54858568 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
54858513 TATTAATATA
54858523 TATAAAAATACAAAAAAG
1 TATAAAAATA-AAAAAAG
*
54858541 TATAAACAT-AAAAAA-
1 TATAAAAATAAAAAAAG
54858556 -ATAAAAATAAAAA
1 TATAAAAATAAAAA
54858569 TATTTTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.28
15 4 0.16
16 6 0.24
18 8 0.32
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
TATAAAAATAAAAAAAG
Found at i:54858559 original size:14 final size:14
Alignment explanation
Indices: 54858524--54858568 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 14
54858514 ATTAATATAT
54858524 ATAAAAATACAAAAA
1 ATAAAAATA-AAAAA
54858539 AGTATAAACATAAAAAA
1 A-TA-AAA-ATAAAAAA
54858556 ATAAAAATAAAAA
1 ATAAAAATAAAAA
54858569 TATTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 4 0.15
17 9 0.33
18 3 0.11
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:54858696 original size:11 final size:12
Alignment explanation
Indices: 54858664--54858696 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
54858654 ATTCCCCTCT
54858664 CTTCTCT-TTCC
1 CTTCTCTCTTCC
54858675 CTTCTCTCTTCC
1 CTTCTCTCTTCC
54858687 C-TCTCTCTTC
1 CTTCTCTCTTC
54858697 TTTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:54859195 original size:3 final size:3
Alignment explanation
Indices: 54859161--54859226 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
54859151 AATATCCTTG
* * * *
54859161 TTA TTT TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
54859207 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
54859227 GTACGTGTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:54859223 original size:23 final size:22
Alignment explanation
Indices: 54859168--54859229 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
54859158 TTGTTATTTT
*
54859168 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
54859189 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
54859211 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
54859230 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:54859236 original size:23 final size:23
Alignment explanation
Indices: 54859168--54859237 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
54859158 TTGTTATTTT
* *
54859168 TATTAGTATTAT-TAGTATTACTA
1 TATTATTATTATGTAGTAGTA-TA
*
54859191 TTATTATTATTATGTATTAGTATA
1 -TATTATTATTATGTAGTAGTATA
*
54859215 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
54859238 CATATATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 19 0.49
24 14 0.36
25 6 0.15
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:54859343 original size:3 final size:3
Alignment explanation
Indices: 54859324--54859359 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
54859314 TATTCCAATG
* *
54859324 TTA TCA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
54859360 GTTTATGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:54860969 original size:23 final size:20
Alignment explanation
Indices: 54860923--54860964 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
54860913 ACTCGTTAGC
54860923 TTTTCTAAAAATAAACTAAA
1 TTTTCTAAAAATAAACTAAA
54860943 TTTTCTACTAAAATAAA-TAAA
1 TTTTCTA--AAAATAAACTAAA
54860964 T
1 T
54860965 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTCTAAAAATAAACTAAA
Found at i:54866009 original size:14 final size:14
Alignment explanation
Indices: 54865990--54866017 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
54865980 GAAATTAATG
54865990 TAAATATAAGTGAT
1 TAAATATAAGTGAT
54866004 TAAATATAAGTGAT
1 TAAATATAAGTGAT
54866018 CAATATCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TAAATATAAGTGAT
Found at i:54870368 original size:10 final size:10
Alignment explanation
Indices: 54870324--54870372 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
54870314 GTAATATTTT
54870324 TTAAGTTATAA
1 TTAA-TTATAA
54870335 TTAATTAT-A
1 TTAATTATAA
*
54870344 TTAA-TAGT-T
1 TTAATTA-TAA
54870353 TTAATTATAA
1 TTAATTATAA
54870363 TTAATTATAA
1 TTAATTATAA
54870373 CAAGCTTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 2 0.06
9 11 0.33
10 16 0.48
11 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (10 bp):
TTAATTATAA
Found at i:54875826 original size:29 final size:30
Alignment explanation
Indices: 54875789--54875848 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
54875779 CCGAATATAA
54875789 TAAATATATATTTTTA-TTTTAAAATACTTT
1 TAAATATAT-TTTTTATTTTTAAAATACTTT
*
54875819 TAAA-ATATTTTTTATTTTTAAAATATTTT
1 TAAATATATTTTTTATTTTTAAAATACTTT
54875848 T
1 T
54875849 TAATGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 18 0.64
30 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
TAAATATATTTTTTATTTTTAAAATACTTT
Found at i:54875839 original size:18 final size:18
Alignment explanation
Indices: 54875816--54875850 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
54875806 TTTAAAATAC
54875816 TTTTAAAATATTTTTTAT
1 TTTTAAAATATTTTTTAT
54875834 TTTTAAAATATTTTTTA
1 TTTTAAAATATTTTTTA
54875851 ATGTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAAAATATTTTTTAT
Found at i:54875848 original size:11 final size:11
Alignment explanation
Indices: 54875805--54875848 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
54875795 TATATTTTTA
*
54875805 TTTTAAAATAC
1 TTTTAAAATAT
54875816 TTTTAAAATAT
1 TTTTAAAATAT
54875827 TTTT----TAT
1 TTTTAAAATAT
54875834 TTTTAAAATAT
1 TTTTAAAATAT
54875845 TTTT
1 TTTT
54875849 TAATGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
7 7 0.25
11 21 0.75
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:54875857 original size:19 final size:18
Alignment explanation
Indices: 54875817--54875857 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
54875807 TTAAAATACT
*
54875817 TTTAAAATATTTTTTATT
1 TTTAAAATATTTTTTATG
54875835 TTTAAAATATTTTTTAATG
1 TTTAAAATATTTTTT-ATG
54875854 TTTA
1 TTTA
54875858 TTAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTAAAATATTTTTTATG
Found at i:54880362 original size:12 final size:12
Alignment explanation
Indices: 54880345--54880378 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
54880335 TCACTAGTTT
*
54880345 GGACACGGGCTA
1 GGACACGGGCAA
54880357 GGACACGGGCAA
1 GGACACGGGCAA
54880369 GGACACGGGC
1 GGACACGGGC
54880379 GTTTGTCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.44, T:0.03
Consensus pattern (12 bp):
GGACACGGGCAA
Found at i:54880364 original size:66 final size:67
Alignment explanation
Indices: 54880148--54880364 Score: 221
Period size: 66 Copynumber: 3.3 Consensus size: 67
54880138 GTCAGTAGCC
* * * * * *
54880148 TCACACGGCCTAACACAC--AGTTGTGTGG-TTGGCCATGTGACACAAGTCAGTATACCCTCCAG
1 TCACACGGCCTAGCACACGGAG-CGTGTGGCTTGGCCATGTGACACAAGTCAGTAAACTCACTAG
54880210 TTT
65 TTT
* * * * *
54880213 TCACACGACCTAGCACAC-GAGCGTGTGGCTTGGCCATGTGTCACAAGTCAG-AATGCTCATTAT
1 TCACACGGCCTAGCACACGGAGCGTGTGGCTTGGCCATGTGACACAAGTCAGTAA-ACTCACTAG
54880276 TTT
65 TTT
* *
54880279 TCACACGGCCTAGCACACGGA-CGTGTGGCTTGGCCGTGTGACCCAAGTCAGTAAACTCACTAGT
1 TCACACGGCCTAGCACACGGAGCGTGTGGCTTGGCCATGTGACACAAGTCAGTAAACTCACTAGT
54880343 TT
66 TT
** * *
54880345 GGACACGGGCTAGGACACGG
1 TCACACGGCCTAGCACACGG
54880365 GCAAGGACAC
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
65 23 0.18
66 98 0.78
67 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (67 bp):
TCACACGGCCTAGCACACGGAGCGTGTGGCTTGGCCATGTGACACAAGTCAGTAAACTCACTAGT
TT
Found at i:54882193 original size:14 final size:14
Alignment explanation
Indices: 54882174--54882200 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54882164 ACCCTTTTTA
54882174 TATATATTATCATG
1 TATATATTATCATG
54882188 TATATATTATCAT
1 TATATATTATCAT
54882201 TCATGTTGTT
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:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TATATATTATCATG
Found at i:54890875 original size:33 final size:33
Alignment explanation
Indices: 54890733--54890875 Score: 99
Period size: 33 Copynumber: 4.3 Consensus size: 33
54890723 AATTGATGGA
* *
54890733 TAAGACCATAACTAGGTTATGGCATTATGAACG
1 TAAGACCATAACTGGGCTATGGCATTATGAACG
*** * * * * *
54890766 TAAGACCATGGTTGGACCATGGCATTGTTTATATG
1 TAAGACCATAACTGGGCTATGGCATT-ATGA-ACG
* * * *
54890801 TAAGATCATAGCTGGGCTATGGCATTCT-AATG
1 TAAGACCATAACTGGGCTATGGCATTATGAACG
* * *
54890833 ATAATACCATAACTGGGTTATGGCACTATGAACG
1 -TAAGACCATAACTGGGCTATGGCATTATGAACG
54890867 TAAGACCAT
1 TAAGACCAT
54890876 GGTTGGACCA
Statistics
Matches: 82, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
32 3 0.04
33 50 0.61
34 6 0.07
35 23 0.28
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGGCATTATGAACG
Found at i:54890906 original size:101 final size:102
Alignment explanation
Indices: 54890731--54890971 Score: 376
Period size: 101 Copynumber: 2.4 Consensus size: 102
54890721 TGAATTGATG
* * * ** *
54890731 GATAAGACCATAACTAGGTTATGGCATTATGAACGTAAGACCATGGTTGGACCATGGCATTGTTT
1 GATAAAACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATAACAATGTTT
54890796 ATATGTAAGATCATAGC-TGGGCTATGGCATTCTAAT
66 ATATGTAAGATCATAGCTTGGGCTATGGCATTCTAAT
*
54890832 GATAATACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATAACAATGTTT
1 GATAAAACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATAACAATGTTT
*
54890897 ATATGTAAGATCATAGCTTGGGCTATGGCATTCTGAT
66 ATATGTAAGATCATAGCTTGGGCTATGGCATTCTAAT
* * *
54890934 GATAAAATCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAAACCATAACTGGGTTATGGCACTATGAACGTAA
54890972 AGGATGAATT
Statistics
Matches: 128, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 76 0.59
102 52 0.41
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (102 bp):
GATAAAACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATAACAATGTTT
ATATGTAAGATCATAGCTTGGGCTATGGCATTCTAAT
Found at i:54895383 original size:202 final size:199
Alignment explanation
Indices: 54895033--54895634 Score: 826
Period size: 202 Copynumber: 3.0 Consensus size: 199
54895023 ATGTGGTTGA
*
54895033 GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATAGCTTCGGTAATATGTAAACTGGA
1 GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATGGCTTCGGTAATATGTAAAC-GGA
* *
54895098 CTAGTAGATCACGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTA
65 CTAGCAGATCACGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTG
54895163 AAAGTTCACTGGAACAGTAAACACGTGATTTTGTATGATGGCCTATGTGGCGTAATCTACTAAGC
130 AAAGTTC-C-GGAACAGTAAACACGTGATTTTGTATGATGGCCTATGTGGCGTAATCTACTAAGC
* *
54895228 TTTTTGG
193 CTTCTGG
* * *
54895235 GACTCATGACAAGATATGACTGTATGAATATTCATGGTGATGGTTTCGGTAATATGTAAATCGGA
1 GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATGGCTTCGGTAATATGTAAA-CGGA
* *
54895300 CTAGCAGATTATGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTG
65 CTAGCAGATCACGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTG
* * * * * * *
54895365 AAAGTCTGCCGGAACAGTAAACATGTGATTTTGTATGATGGCATCTATGGCGTTATCTATTAAAC
130 AAAGT-T-CCGGAACAGTAAACACGTGATTTTGTATGATGGCCTATGTGGCGTAATCTACTAAGC
54895430 CTTCTGG
193 CTTCTGG
** **
54895437 GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATGGCTTCGGTAGCATGTAAACCAAA
1 GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATGGCTTCGGTAATATGTAAA-CGGA
* * * * *
54895502 TTGGCAGATCACAACATGAAAATATGTATAAGTCTATGAGGGAGATACCCATAGCGCCTTTTATG
65 CTAGCAGATCACGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTG
* ** * * * *
54895567 AAAGTTTACTAAGACAATAAACACGTGATTTTGTATGATGGTCTGTGTGGCGTAATCTGCTAAGC
130 AAAG-TTCCGGA-ACAGTAAACACGTGATTTTGTATGATGGCCTATGTGGCGTAATCTACTAAGC
54895632 CTT
193 CTT
54895635 TGTGGTGTAT
Statistics
Matches: 350, Mismatches: 45, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
201 2 0.01
202 343 0.98
203 4 0.01
204 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (199 bp):
GACCCATGACAAGATATGATTGTATGAATATTCATGGTGATGGCTTCGGTAATATGTAAACGGAC
TAGCAGATCACGACATGAAAATATGTATAAGTCCATGAGGGAGATACCCATAGCGCCTTTTGTGA
AAGTTCCGGAACAGTAAACACGTGATTTTGTATGATGGCCTATGTGGCGTAATCTACTAAGCCTT
CTGG
Found at i:54908698 original size:29 final size:29
Alignment explanation
Indices: 54908656--54908715 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
54908646 ATTCATCTTG
54908656 TTTACCAAAATTACATTTTGCAACCCTTA
1 TTTACCAAAATTACATTTTGCAACCCTTA
54908685 TTTACCAAAATTACATTTTGCAACCCTTA
1 TTTACCAAAATTACATTTTGCAACCCTTA
54908714 TT
1 TT
54908716 AATCTAACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTACCAAAATTACATTTTGCAACCCTTA
Found at i:54915104 original size:3 final size:3
Alignment explanation
Indices: 54915089--54915140 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
54915079 TGTTTATTGT
* * * *
54915089 TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG CTG CTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
54915137 TTG T
1 TTG T
54915141 GTGTGTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.02, C:0.06, G:0.31, T:0.62
Consensus pattern (3 bp):
TTG
Found at i:54916254 original size:24 final size:24
Alignment explanation
Indices: 54916227--54916276 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
54916217 AAATATAAAG
54916227 AAAACTAACAATTTAATGGTTACC
1 AAAACTAACAATTTAATGGTTACC
54916251 AAAACTAACAATTTAATGGTTACC
1 AAAACTAACAATTTAATGGTTACC
54916275 AA
1 AA
54916277 CCATGGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (24 bp):
AAAACTAACAATTTAATGGTTACC
Found at i:54928473 original size:22 final size:22
Alignment explanation
Indices: 54928448--54928492 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
54928438 TCACTAAATG
54928448 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
54928470 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
54928492 T
1 T
54928493 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:54933491 original size:85 final size:85
Alignment explanation
Indices: 54933348--54933510 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
54933338 TAAACCATAT
*
54933348 AAGAGAAGCAACATAATACCAAAGAGAAAAGCACAATTGCCATCATAAATAACCTTTTGAATCTC
1 AAGAGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTC
54933413 AGGAGTTATATGTACAGTAC
66 AGGAGTTATATGTACAGTAC
*
54933433 AAGAGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATCACCTTTTGAATCTC
1 AAGAGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTC
54933498 AGGAGTTATATGT
66 AGGAGTTATATGT
54933511 CCAATCCTAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.23
Consensus pattern (85 bp):
AAGAGAAGCAACATAATACCAAAGAGAAAAACACAATTGCCATCATAAATAACCTTTTGAATCTC
AGGAGTTATATGTACAGTAC
Found at i:54942924 original size:2 final size:2
Alignment explanation
Indices: 54942917--54942954 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
54942907 CGGAGAAGAA
54942917 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
54942955 GTGAAAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:54943760 original size:24 final size:24
Alignment explanation
Indices: 54943733--54943796 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
54943723 ATCTTATTTG
* * *
54943733 TCTTCGCCTCGACCCTTGTATTCA
1 TCTTCACCTCCACCATTGTATTCA
* *
54943757 TCTTCATCTCCACCATTGTCTTCA
1 TCTTCACCTCCACCATTGTATTCA
* *
54943781 TCTTCATCACCACCAT
1 TCTTCACCTCCACCAT
54943797 CGGTTTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.17, C:0.39, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTTCACCTCCACCATTGTATTCA
Found at i:54947739 original size:7 final size:7
Alignment explanation
Indices: 54947727--54947779 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
54947717 AAAGAAAGGG
54947727 AGAAAAT
1 AGAAAAT
54947734 AGAAAAT
1 AGAAAAT
54947741 AGAAAAT
1 AGAAAAT
54947748 AGAAAA-
1 AGAAAAT
*
54947754 GGAAAA-
1 AGAAAAT
54947760 AGAAAAT
1 AGAAAAT
54947767 AGAGAAAT
1 AGA-AAAT
54947775 A-AAAA
1 AGAAAA
54947780 GGAAAAATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 13 0.31
7 24 0.57
8 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (7 bp):
AGAAAAT
Found at i:54947763 original size:26 final size:26
Alignment explanation
Indices: 54947728--54947786 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 26
54947718 AAGAAAGGGA
54947728 GAAAATAGAAAATAGA-AAATAGAAAAG
1 GAAAA-AGAAAATAGAGAAATA-AAAAG
54947755 GAAAAAGAAAATAGAGAAATAAAAAG
1 GAAAAAGAAAATAGAGAAATAAAAAG
54947781 GAAAAA
1 GAAAAA
54947787 TCTCCCAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (26 bp):
GAAAAAGAAAATAGAGAAATAAAAAG
Found at i:54949906 original size:13 final size:13
Alignment explanation
Indices: 54949888--54949912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54949878 AGGTAGAGAT
54949888 TTTTCTTTCTTTA
1 TTTTCTTTCTTTA
54949901 TTTTCTTTCTTT
1 TTTTCTTTCTTT
54949913 CTTTATTATT
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:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTA
Found at i:54966390 original size:15 final size:17
Alignment explanation
Indices: 54966352--54966391 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
54966342 CACTCATGTT
*
54966352 AGTATTTTTTTATTTTA
1 AGTATTTTTTTATATTA
54966369 AGT-TTTTTTTA-ATTA
1 AGTATTTTTTTATATTA
54966384 A-TATTTTT
1 AGTATTTTT
54966392 AATATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 9 0.43
16 8 0.38
17 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
AGTATTTTTTTATATTA
Found at i:54969992 original size:36 final size:38
Alignment explanation
Indices: 54969949--54970031 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
54969939 TACAAAAGAA
* *
54969949 TCCCTAAAAT-TCAAATTTTACA-A-TTTTACAATTTAG
1 TCCCTAAAATCCCAAA-TTTACACACTTTTACAATTCAG
*
54969985 TCTCTAAAATCCCAAATTTACACACTTTTACAATTCAG
1 TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
54970023 TCCCTAAAA
1 TCCCTAAAA
54970032 ATAAGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 15 0.38
37 5 0.12
38 20 0.50
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (38 bp):
TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
Found at i:54972462 original size:36 final size:38
Alignment explanation
Indices: 54972419--54972501 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
54972409 TACAAAAGAA
* *
54972419 TCCCTAAAAT-TCAAATTTTACA-A-TTTTACAATTTAG
1 TCCCTAAAATCCCAAA-TTTACACACTTTTACAATTCAG
*
54972455 TCTCTAAAATCCCAAATTTACACACTTTTACAATTCAG
1 TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
54972493 TCCCTAAAA
1 TCCCTAAAA
54972502 ATAAGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 15 0.38
37 5 0.12
38 20 0.50
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (38 bp):
TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
Found at i:54974931 original size:36 final size:38
Alignment explanation
Indices: 54974888--54974970 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
54974878 TACAAAAGAA
* *
54974888 TCCCTAAAAT-TCAAATTTTACA-A-TTTTACAATTTAG
1 TCCCTAAAATCCCAAA-TTTACACACTTTTACAATTCAG
*
54974924 TCTCTAAAATCCCAAATTTACACACTTTTACAATTCAG
1 TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
54974962 TCCCTAAAA
1 TCCCTAAAA
54974971 ATAAGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 15 0.38
37 5 0.12
38 20 0.50
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (38 bp):
TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
Found at i:54977400 original size:36 final size:38
Alignment explanation
Indices: 54977357--54977439 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
54977347 TACAAAAGAA
* *
54977357 TCCCTAAAAT-TCAAATTTTACA-A-TTTTACAATTTAG
1 TCCCTAAAATCCCAAA-TTTACACACTTTTACAATTCAG
*
54977393 TCTCTAAAATCCCAAATTTACACACTTTTACAATTCAG
1 TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
54977431 TCCCTAAAA
1 TCCCTAAAA
54977440 ATAAGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 15 0.38
37 5 0.12
38 20 0.50
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (38 bp):
TCCCTAAAATCCCAAATTTACACACTTTTACAATTCAG
Found at i:54985889 original size:6 final size:6
Alignment explanation
Indices: 54985878--54985902 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
54985868 TTAAGACTTT
54985878 CTCTCA CTCTCA CTCTCA CTCTCA C
1 CTCTCA CTCTCA CTCTCA CTCTCA C
54985903 ACACGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.00, T:0.32
Consensus pattern (6 bp):
CTCTCA
Found at i:54986823 original size:4 final size:4
Alignment explanation
Indices: 54986807--54986846 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
54986797 TCTATGCATA
*
54986807 TATG TACG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
54986847 CTATCTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:54988575 original size:26 final size:24
Alignment explanation
Indices: 54988538--54988585 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
54988528 GAAAATCAAA
54988538 ATATTTATAAAAATTCTAAAATTT
1 ATATTTATAAAAATTCTAAAATTT
*
54988562 ATATTTATTAAAAAATTTTAAAAT
1 ATATTTA-T-AAAAATTCTAAAAT
54988586 CTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
26 13 0.62
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATTTATAAAAATTCTAAAATTT
Found at i:54992004 original size:14 final size:15
Alignment explanation
Indices: 54991982--54992058 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
54991972 CAATCAAACA
54991982 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
54991996 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
54992011 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
54992031 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
54992045 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
54992059 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:54992023 original size:20 final size:20
Alignment explanation
Indices: 54991998--54992037 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
54991988 AATATTTTCC
*
54991998 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
54992018 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
54992038 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:54992043 original size:34 final size:35
Alignment explanation
Indices: 54991986--54992052 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
54991976 CAAACACCAG
*
54991986 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
54992021 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
54992053 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:54992799 original size:18 final size:17
Alignment explanation
Indices: 54992766--54992804 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
54992756 TTGTATAAAT
54992766 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
54992784 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
54992801 TGTG
1 TGTG
54992805 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:54993061 original size:23 final size:23
Alignment explanation
Indices: 54993030--54993127 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
54993020 AGTGTTATTG
54993030 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
54993053 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
54993076 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
54993098 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
54993121 ATCAGTG
1 ATCAGTG
54993128 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:54993096 original size:45 final size:45
Alignment explanation
Indices: 54993032--54993120 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
54993022 TGTTATTGAT
* *
54993032 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
54993077 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
54993121 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:54996618 original size:40 final size:39
Alignment explanation
Indices: 54996526--54996620 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 39
54996516 TACAGTAGGC
* * **
54996526 ATGATTTTAACATGTGATCAAATTTATCAGAAACAATGAGC
1 ATGA-TTTAACATG-CATCAAATTTATCAGAAACAACGAAA
* *
54996567 AT-TTTTCAACATGCATTCAAATTTATCAGATACAACGAAA
1 ATGATTT-AACATGCA-TCAAATTTATCAGAAACAACGAAA
54996607 ATGATTTAACATGC
1 ATGATTTAACATGC
54996621 TATTAGTAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
39 4 0.09
40 35 0.80
41 5 0.11
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (39 bp):
ATGATTTAACATGCATCAAATTTATCAGAAACAACGAAA
Found at i:55002049 original size:4 final size:4
Alignment explanation
Indices: 55002040--55002065 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
55002030 CCACCGGGGG
55002040 TAGC TAGC TAGC TAGC TAGC TAGC TA
1 TAGC TAGC TAGC TAGC TAGC TAGC TA
55002066 ATTATGCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
TAGC
Found at i:55010462 original size:15 final size:16
Alignment explanation
Indices: 55010442--55010471 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55010432 TTTAACTTTA
55010442 ATAAAT-TTTTTATTT
1 ATAAATATTTTTATTT
55010457 ATAAATATTTTTATT
1 ATAAATATTTTTATT
55010472 AAATGTGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATAAATATTTTTATTT
Found at i:55012642 original size:96 final size:97
Alignment explanation
Indices: 55012477--55012760 Score: 385
Period size: 96 Copynumber: 2.9 Consensus size: 97
55012467 CCAGAATTAT
* * *
55012477 GTATGAATGACATG-GAAAAAAATTACTGAAATGTTGTTCAATAATTAGAAAGGGATCATGGATG
1 GTATGAATGACATGAG-AAAAAATTATTGAAATGTTATTAAATAATTAGAAAGGGATCATGGATG
* *
55012541 ATGTGGTGGGAAGGGTTCATAAAATAATTTCTC
65 ATGTGGTGGGAAGGGTCCATAAAATAATATCTC
* * *
55012574 GTATGAATGACA-GAGAAAAAATTGTTGAAATGTCATTAAATGATTAGAAAGGGATCATGGATGA
1 GTATGAATGACATGAGAAAAAATTATTGAAATGTTATTAAATAATTAGAAAGGGATCATGGATGA
*
55012638 TGTGGTGGGAATGGTCCATAAAATAATATCTC
66 TGTGGTGGGAAGGGTCCATAAAATAATATCTC
* * * * *
55012670 GTATAAAAGACATGA-AAAAAATTATTGAAATGTTATTAAATAATTGGAAAGAGAACATGGATGA
1 GTATGAATGACATGAGAAAAAATTATTGAAATGTTATTAAATAATTAGAAAGGGATCATGGATGA
* * *
55012734 TGTGGTGGGAAAGATCCAAAAAATAAT
66 TGTGGTGGGAAGGGTCCATAAAATAAT
55012761 TCCTCCCTGT
Statistics
Matches: 165, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
96 150 0.91
97 15 0.09
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (97 bp):
GTATGAATGACATGAGAAAAAATTATTGAAATGTTATTAAATAATTAGAAAGGGATCATGGATGA
TGTGGTGGGAAGGGTCCATAAAATAATATCTC
Found at i:55013103 original size:5 final size:5
Alignment explanation
Indices: 55013093--55013125 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
55013083 ACAACTCAAG
55013093 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
55013126 TCATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:55022759 original size:6 final size:6
Alignment explanation
Indices: 55022748--55022781 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
55022738 AAAAATGCAA
55022748 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
55022782 TTAAGCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:55025036 original size:20 final size:19
Alignment explanation
Indices: 55025008--55025048 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
55024998 AGATTAATTG
* *
55025008 TTATTCCTATAAAATAGAAT
1 TTATACCTAGAAAATA-AAT
55025028 TTATACCTAGAAAATAAAT
1 TTATACCTAGAAAATAAAT
55025047 TT
1 TT
55025049 CCCATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATACCTAGAAAATAAAT
Found at i:55025504 original size:4 final size:4
Alignment explanation
Indices: 55025495--55025525 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
55025485 TTTGAACTTA
55025495 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
55025526 CAAAGAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:55028623 original size:21 final size:21
Alignment explanation
Indices: 55028584--55028623 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55028574 AAAACAAAAC
*
55028584 AAAAAAAAAACATATAAGTCT
1 AAAAAAAAAACATAAAAGTCT
55028605 AAAAAAATAAA-ATAAAAGT
1 AAAAAAA-AAACATAAAAGT
55028624 ACAAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAAAAAACATAAAAGTCT
Found at i:55029352 original size:16 final size:16
Alignment explanation
Indices: 55029328--55029358 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55029318 ATTATTTAAA
*
55029328 TTAATTAATTTTTCAT
1 TTAAATAATTTTTCAT
55029344 TTAAATAATTTTTCA
1 TTAAATAATTTTTCA
55029359 CAACCCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAATAATTTTTCAT
Found at i:55035051 original size:50 final size:50
Alignment explanation
Indices: 55034976--55035077 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
55034966 GGGCACCAGA
55034976 TCCAAAGTCTCCCACTTGCCCTAGTGAAATAGATGAGTCATATTTTGCAT
1 TCCAAAGTCTCCCACTTGCCCTAGTGAAATAGATGAGTCATATTTTGCAT
55035026 TCCAAAGTCTCCCACTTGCCCTAGTGAAATAGATGAGTCATATTTTGCAT
1 TCCAAAGTCTCCCACTTGCCCTAGTGAAATAGATGAGTCATATTTTGCAT
55035076 TC
1 TC
55035078 TCATGCTCTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (50 bp):
TCCAAAGTCTCCCACTTGCCCTAGTGAAATAGATGAGTCATATTTTGCAT
Found at i:55036830 original size:72 final size:71
Alignment explanation
Indices: 55036704--55036849 Score: 213
Period size: 72 Copynumber: 2.0 Consensus size: 71
55036694 CTTAGACATG
* * *
55036704 TCATTAGCTCATTAGTTCATCGGATCAACACTTAGGCCTCTTCAATTATTGTCACCTTTATTGCA
1 TCATTAGCTCATTAGTTCATCGCATCAACACTTAAGCCTCTTCAATTATTGTCACCTTGATTGCA
55036769 AACCTT
66 AACCTT
* * *
55036775 TCATTAGCTCATTAAGATTCATTGCATCAACA-TTAAGCCTCTTGAATTGTTGTCACCTTGATTG
1 TCATTAGCTCATT-AG-TTCATCGCATCAACACTTAAGCCTCTTCAATTATTGTCACCTTGATTG
55036839 CAAACCTT
64 CAAACCTT
55036847 TCA
1 TCA
55036850 AGTAGGAACA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 13 0.19
72 41 0.61
73 13 0.19
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.38
Consensus pattern (71 bp):
TCATTAGCTCATTAGTTCATCGCATCAACACTTAAGCCTCTTCAATTATTGTCACCTTGATTGCA
AACCTT
Found at i:55040889 original size:30 final size:28
Alignment explanation
Indices: 55040853--55040912 Score: 102
Period size: 30 Copynumber: 2.1 Consensus size: 28
55040843 GGAACATAAC
55040853 GAAATAATAGAACCGATACAGGCCAATGGG
1 GAAATAATAGAACCGATACAGG--AATGGG
55040883 GAAATAATAGAACCGATACAGGAATGGG
1 GAAATAATAGAACCGATACAGGAATGGG
55040911 GA
1 GA
55040913 GCAATAGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.27
30 22 0.73
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.13
Consensus pattern (28 bp):
GAAATAATAGAACCGATACAGGAATGGG
Found at i:55043494 original size:26 final size:26
Alignment explanation
Indices: 55043459--55043514 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
55043449 GTGGTTATTG
*
55043459 AACTCTTAAGGGAGTTGCCTACCTTGA
1 AACTCTTAAGCGAGTTGCCTACCTT-A
55043486 AACTC-TAAGCGAGTTGCCTACCTTA
1 AACTCTTAAGCGAGTTGCCTACCTTA
55043511 AACT
1 AACT
55043515 TACTGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 5 0.18
26 18 0.64
27 5 0.18
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
AACTCTTAAGCGAGTTGCCTACCTTA
Found at i:55045843 original size:29 final size:29
Alignment explanation
Indices: 55045776--55045847 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
55045766 TTTAAATATA
*
55045776 AAATATTATGTATTTAAATTTAAATGTTTT
1 AAATATTA-ATATTTAAATTTAAATGTTTT
* *
55045806 ATATTTTAATATTTAAA-TTAAAT-TTTAT
1 AAATATTAATATTTAAATTTAAATGTTT-T
55045834 AAATAATTAATATT
1 AAAT-ATTAATATT
55045848 AATGGCTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 3 0.09
28 10 0.29
29 16 0.46
30 6 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
AAATATTAATATTTAAATTTAAATGTTTT
Found at i:55062123 original size:73 final size:73
Alignment explanation
Indices: 55062038--55062183 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
55062028 TATATATAAA
55062038 AAAAACATTTAATTTATTTTTCTTAAGATATAAACCCGATTTGTATTAAATTATTTAATTGTAAT
1 AAAAACATTTAATTTATTTTTCTTAAGATATAAACCCGATTTGTATTAAATTATTTAATTGTAAT
55062103 AGATATTT
66 AGATATTT
55062111 AAAAACATTTAATTTATTTTTCTTAAGATATAAACCCGATTTGTATTAAATTATTTAATTGTAAT
1 AAAAACATTTAATTTATTTTTCTTAAGATATAAACCCGATTTGTATTAAATTATTTAATTGTAAT
55062176 AGATATTT
66 AGATATTT
55062184 TTACTTTTTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (73 bp):
AAAAACATTTAATTTATTTTTCTTAAGATATAAACCCGATTTGTATTAAATTATTTAATTGTAAT
AGATATTT
Found at i:55062166 original size:37 final size:37
Alignment explanation
Indices: 55062046--55062166 Score: 101
Period size: 37 Copynumber: 3.3 Consensus size: 37
55062036 AAAAAAACAT
*
55062046 TTAATTTATTTTTCTTAAGATATAAACCCGATTTGTA
1 TTAAATTATTTTTCTTAAGATATAAACCCGATTTGTA
* * **
55062083 TTAAATTATTTAATTGTAATAGATATTTAAAAAC-A----T-
1 TTAAATTATTT--TTCTTA-AGATA--TAAACCCGATTTGTA
*
55062119 TTAATTTATTTTTCTTAAGATATAAACCCGATTTGTA
1 TTAAATTATTTTTCTTAAGATATAAACCCGATTTGTA
55062156 TTAAATTATTT
1 TTAAATTATTT
55062167 AATTGTAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
31 5 0.08
32 1 0.02
33 5 0.08
34 4 0.06
36 11 0.18
37 21 0.34
39 4 0.06
40 5 0.08
41 1 0.02
42 5 0.08
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (37 bp):
TTAAATTATTTTTCTTAAGATATAAACCCGATTTGTA
Found at i:55063686 original size:25 final size:25
Alignment explanation
Indices: 55063658--55063771 Score: 72
Period size: 25 Copynumber: 4.5 Consensus size: 25
55063648 AAAAATAGAA
*
55063658 AAAAATTATAAAAATTAAAATCAAT
1 AAAAATTATAAAAATTAAAATTAAT
** ** *
55063683 AAAAGCTATAATTATTAAATTTAAT
1 AAAAATTATAAAAATTAAAATTAAT
* * *
55063708 AAAAATTCA-AATATTTAAAATTAGAA
1 AAAAATT-ATAAAAATTAAAATTA-AT
*
55063734 AAAAAATATAAAAATCATAAAA--AAT
1 AAAAATTATAAAAAT--TAAAATTAAT
*
55063759 AAAAATTGTAAAA
1 AAAAATTATAAAA
55063772 TTTTATAAAA
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
25 48 0.73
26 13 0.20
28 5 0.08
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (25 bp):
AAAAATTATAAAAATTAAAATTAAT
Found at i:55063816 original size:20 final size:20
Alignment explanation
Indices: 55063776--55063822 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
55063766 GTAAAATTTT
*
55063776 ATAAAATATTTAAAAAAATA
1 ATAAAATATGTAAAAAAATA
* *
55063796 ATAAAATATGTAGAAATATA
1 ATAAAATATGTAAAAAAATA
*
55063816 AAAAAAT
1 ATAAAAT
55063823 TATAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAATATGTAAAAAAATA
Found at i:55064148 original size:20 final size:20
Alignment explanation
Indices: 55064115--55064152 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55064105 AATAAATTCT
55064115 AATTTTTATATTTTTATTAA
1 AATTTTTATATTTTTATTAA
55064135 AATTTATTAT-TTTTTATT
1 AATTT-TTATATTTTTATT
55064153 TTTTATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTATATTTTTATTAA
Found at i:55064387 original size:89 final size:82
Alignment explanation
Indices: 55064210--55064388 Score: 189
Period size: 90 Copynumber: 2.1 Consensus size: 82
55064200 TTTTAAGGGT
*
55064210 CTTTTTTATACATTTTAAAGTTCAAGTACCAATTGAGTGAAAAAAATTAGGGGCTTAAGTGTTTT
1 CTTTTTTATACATTTTAAAGTTCAAGTACCAATTGAGTGAAAAAAATGAGGGGCTTAAGTGTTTT
*
55064275 TTTTGAAGAAGTTTGAGGG
66 TTTT--AGAAGTTTGAGGA
* * ** *
55064294 CTTTTTTGATGCATTTTGAAAGTTTAAGTGTTCAATTGAGTGCAAAAAAAAATGAGGGGCTTAAT
1 CTTTTTT-ATACATTTT-AAAGTTCAAGT-ACCAATTGAGTG---AAAAAAATGAGGGGCTTAAG
*
55064359 TGCCTTTTTTTT-TAAGTTTGAGGA
60 TG--TTTTTTTTAGAAGTTTGAGGA
55064383 CTTTTT
1 CTTTTT
55064389 ACACTTTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
84 7 0.09
85 8 0.10
86 10 0.13
87 10 0.13
89 16 0.20
90 20 0.25
92 8 0.10
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (82 bp):
CTTTTTTATACATTTTAAAGTTCAAGTACCAATTGAGTGAAAAAAATGAGGGGCTTAAGTGTTTT
TTTTAGAAGTTTGAGGA
Found at i:55064455 original size:19 final size:20
Alignment explanation
Indices: 55064428--55064468 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
55064418 TCAAATCTTC
*
55064428 AAATATAT-AAATTAATAAA
1 AAATATATAAAAATAATAAA
*
55064447 AAATTTATAAAAATAATAAA
1 AAATATATAAAAATAATAAA
55064467 AA
1 AA
55064469 TTCAAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATATATAAAAATAATAAA
Found at i:55065124 original size:30 final size:32
Alignment explanation
Indices: 55065070--55065130 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
55065060 ATGTTCGGAT
* *
55065070 AATTTTTTTAATATTATAAATAAATATTAATA
1 AATTTATTTAATATTATAAATAAATAATAATA
*
55065102 AATTTATTTAA-A-TATAATTAAATAATAAT
1 AATTTATTTAATATTATAAATAAATAATAAT
55065131 TAATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 15 0.58
31 1 0.04
32 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTATTTAATATTATAAATAAATAATAATA
Found at i:55067685 original size:19 final size:20
Alignment explanation
Indices: 55067661--55067699 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55067651 ATGGTTCTAT
*
55067661 AAATAAT-TTTTTTTATATA
1 AAATAATATTTTTTAATATA
55067680 AAATAATATTTTTTAATATA
1 AAATAATATTTTTTAATATA
55067700 TTTTTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATAATATTTTTTAATATA
Found at i:55067762 original size:59 final size:59
Alignment explanation
Indices: 55067687--55067815 Score: 213
Period size: 59 Copynumber: 2.2 Consensus size: 59
55067677 ATAAAATAAT
* * *
55067687 ATTTTTTAATATATTTTTATATAATAAATATTAACTTTGATAGAATTTAAACTTATTTA
1 ATTTTTTAAAACATTTTTATATAATAAATATTAACTTTAATAGAATTTAAACTTATTTA
* *
55067746 ATTTTTTAAAACATTTTTATATAATAAATGTTAACTTTAATAGAATTTAGACTTATTTA
1 ATTTTTTAAAACATTTTTATATAATAAATATTAACTTTAATAGAATTTAAACTTATTTA
55067805 ATTTTTTAAAA
1 ATTTTTTAAAA
55067816 TAATATAGGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 65 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
ATTTTTTAAAACATTTTTATATAATAAATATTAACTTTAATAGAATTTAAACTTATTTA
Found at i:55067813 original size:28 final size:30
Alignment explanation
Indices: 55067781--55067845 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
55067771 AAATGTTAAC
* * *
55067781 TTTAATAGAATTTA-GACTTATTTAAT-TT
1 TTTAATAGAATATAGGACTTAATTAATCTA
* *
55067809 TTTAAAATAATATAGGACTTAATTAATCTA
1 TTTAATAGAATATAGGACTTAATTAATCTA
55067839 TTTAATA
1 TTTAATA
55067846 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 11 0.38
29 11 0.38
30 7 0.24
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (30 bp):
TTTAATAGAATATAGGACTTAATTAATCTA
Found at i:55068586 original size:17 final size:18
Alignment explanation
Indices: 55068559--55068595 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
55068549 TTTAACCATT
*
55068559 TAAATAATAAATTATATA
1 TAAATAATAAATAATATA
55068577 TAAA-AATAAATAATATA
1 TAAATAATAAATAATATA
55068594 TA
1 TA
55068596 TTAAGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATAATAAATAATATA
Found at i:55098115 original size:32 final size:32
Alignment explanation
Indices: 55098079--55098140 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
55098069 TACAAAGTTT
55098079 AAAAAAATCAAACAAATAACCTAGATAAACTA
1 AAAAAAATCAAACAAATAACCTAGATAAACTA
55098111 AAAAAAATCAAACAAATAACCTAGATAAAC
1 AAAAAAATCAAACAAATAACCTAGATAAAC
55098141 CAACATGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.66, C:0.16, G:0.03, T:0.15
Consensus pattern (32 bp):
AAAAAAATCAAACAAATAACCTAGATAAACTA
Found at i:55105775 original size:21 final size:19
Alignment explanation
Indices: 55105744--55105786 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
55105734 TTTATTTTTC
* *
55105744 ATATAATATAAATTATAAA
1 ATATAATATAAAATAAAAA
55105763 ATATACATAATAAAATAAAAA
1 ATATA-AT-ATAAAATAAAAA
55105784 ATA
1 ATA
55105787 CTAAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 2 0.10
21 13 0.65
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATAATATAAAATAAAAA
Found at i:55106901 original size:18 final size:18
Alignment explanation
Indices: 55106874--55106912 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
55106864 CTATGCTCAA
* * *
55106874 TTATTTATTTTTAAATTC
1 TTATTAATTTTAAAAATC
55106892 TTATTAATTTTAAAAATC
1 TTATTAATTTTAAAAATC
55106910 TTA
1 TTA
55106913 AATGAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTAATTTTAAAAATC
Found at i:55116537 original size:27 final size:27
Alignment explanation
Indices: 55116499--55116554 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55116489 AAGATAACAA
55116499 TGTGCATGGTGCAACTGAAAATTCTTT
1 TGTGCATGGTGCAACTGAAAATTCTTT
55116526 TGTGCATGGTGCAACTGAAAATTCTTT
1 TGTGCATGGTGCAACTGAAAATTCTTT
55116553 TG
1 TG
55116555 GTGCTTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (27 bp):
TGTGCATGGTGCAACTGAAAATTCTTT
Found at i:55118458 original size:34 final size:33
Alignment explanation
Indices: 55118415--55118491 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 33
55118405 CAGGCTTATC
**
55118415 ATATTATTTTTAA-ATTTTTTAAAAAAATTATATT
1 ATATTATTTTTAATATTTAATAAAAAAA-TA-ATT
55118449 ATATTA-TTTTAATATTTAATAAAAAAATAATT
1 ATATTATTTTTAATATTTAATAAAAAAATAATT
*
55118481 AAATT-TTTTTA
1 ATATTATTTTTA
55118492 TATAATATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 12 0.32
33 8 0.21
34 18 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
ATATTATTTTTAATATTTAATAAAAAAATAATT
Found at i:55118546 original size:17 final size:17
Alignment explanation
Indices: 55118524--55118564 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
55118514 AATGTGTTTT
55118524 AAATT-ACATAATATATA
1 AAATTAACAT-ATATATA
55118541 AAATTAACATATATATA
1 AAATTAACATATATATA
*
55118558 AACTTAA
1 AAATTAA
55118565 AAACGGGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTAACATATATATA
Found at i:55123270 original size:16 final size:16
Alignment explanation
Indices: 55123249--55123279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55123239 GTGTCATGAA
*
55123249 TCAATTGAATATTAAT
1 TCAATTGAAAATTAAT
55123265 TCAATTGAAAATTAA
1 TCAATTGAAAATTAA
55123280 CTAAAAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TCAATTGAAAATTAAT
Found at i:55130760 original size:18 final size:17
Alignment explanation
Indices: 55130739--55131258 Score: 223
Period size: 17 Copynumber: 29.9 Consensus size: 17
55130729 AATGAAAGTT
55130739 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
55130757 -TTTTT-AAACACGAAA
1 TTTTTTAAAACACGAAA
* **
55130772 ATTTCAAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
55130789 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGAAA
*
55130806 TTTTTTGAAACACGAGAA
1 TTTTTTAAAACACGA-AA
* *
55130824 -TTTTTAAAACAAGACA
1 TTTTTTAAAACACGAAA
* *
55130840 TTTTTTGAAACAC-AATT
1 TTTTTTAAAACACGAA-A
*
55130857 TTTTTCTTAAA-A--AAA
1 TTTTT-TAAAACACGAAA
*
55130872 ---TTTAAAATACGAGAA
1 TTTTTTAAAACACGA-AA
55130887 -TTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
55130903 ATTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
** *
55130920 AATTTTGAAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
55130938 TTTTTTAGAAA-ACGATT
1 TTTTTTA-AAACACGAAA
* *
55130955 TTTTTTAAAATCACCGGAG
1 TTTTTTAAAA-CA-CGAAA
*
55130974 TTTTTGAAAACACGAAA
1 TTTTTTAAAACACGAAA
* * *
55130991 ATCTTTGAAACACCGAAA
1 TTTTTTAAAACA-CGAAA
*
55131009 TTTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
*
55131027 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACG-AAA
*
55131044 TTTTTTGAAAATACGAAGA
1 TTTTTT-AAAACACGAA-A
**
55131063 TTTTTTTTAACACGGAAA
1 TTTTTTAAAACAC-GAAA
* * **
55131081 -TTTTTGAAACAGGGTCATT
1 TTTTTTAAAACA-CG--AAA
55131100 TTTTTTGAAAACACGAAAA
1 TTTTTT-AAAACACG-AAA
* * *
55131119 TTTTTGAAAGACATG-AT
1 TTTTTTAAA-ACACGAAA
*
55131136 TTTTTTGAAAATACGGAAA
1 TTTTTT-AAAACAC-GAAA
*
55131155 -TTTATAAAACACGAAAAA
1 TTTTTTAAAACACG--AAA
*
55131173 TTTTTCTGAAAACAAGAAA
1 TTTTT-T-AAAACACGAAA
* * *
55131192 ATTTTTGAAACACTAGAA
1 TTTTTTAAAACACGA-AA
*
55131210 -TTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
* *
55131227 -TTTTTGAAACATGAGAA
1 TTTTTTAAAACACGA-AA
55131244 -TTTTTAAAAGCACGA
1 TTTTTTAAAA-CACGA
55131259 GGATTATTGA
Statistics
Matches: 379, Mismatches: 80, Indels: 86
0.70 0.15 0.16
Matches are distributed among these distances:
11 4 0.01
12 3 0.01
14 1 0.00
15 4 0.01
16 22 0.06
17 206 0.54
18 68 0.18
19 52 0.14
20 7 0.02
21 12 0.03
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:55130760 original size:20 final size:19
Alignment explanation
Indices: 55130710--55130828 Score: 69
Period size: 17 Copynumber: 6.6 Consensus size: 19
55130700 AATTTTGAAG
55130710 CACGAAATTTTTTTTAAAA
1 CACGAAATTTTTTTTAAAA
* *
55130729 AATGAAAGTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTAAAA
55130749 CACGAGAA---TTTTT-AAA
1 CACGA-AATTTTTTTTAAAA
* **
55130765 CACGAAA--ATTTCAAAAA
1 CACGAAATTTTTTTTAAAA
*
55130782 CACGAAA--ATTTTTAAAA
1 CACGAAATTTTTTTTAAAA
* *
55130799 CACGACA--TTTTTTGAAA
1 CACGAAATTTTTTTTAAAA
55130816 CACGAGAATTTTT
1 CACGA-AATTTTT
55130829 AAAACAAGAC
Statistics
Matches: 81, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
15 2 0.02
16 11 0.14
17 42 0.52
18 1 0.01
19 5 0.06
20 18 0.22
21 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (19 bp):
CACGAAATTTTTTTTAAAA
Found at i:55131101 original size:54 final size:55
Alignment explanation
Indices: 55130887--55131123 Score: 151
Period size: 54 Copynumber: 4.4 Consensus size: 55
55130877 AATACGAGAA
** * * *
55130887 TTTTT-AAAACACGAAAA-TTTTTAAAACACGAAAAATTTTGAAACACGGAAATT
1 TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGAAAATT
* *
55130940 TTTTAG-AAA-ACG---ATTTTTTTTAAAATCACCGGAG-TTTTTGAAAACACGAAAA--
1 TTTTTGAAAACACGAAAATTTTTTTT--AA-CA-CGAAGATTTTTG-AAACACGAAAATT
* ***
55130992 TCTTTG-AAACACCG-AAATTTTTGAAAACACGAAGATTTTTGAAACACGAAAA-T
1 TTTTTGAAAACA-CGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGAAAATT
* * * ** *
55131045 TTTTTGAAAATACGAAGATTTTTTTTAACACGGAA-ATTTTTGAAACAGGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTTTTAACAC-GAAGATTTTTGAAACA-CGAAAATT
55131101 TTTTTGAAAACACGAAAATTTTT
1 TTTTTGAAAACACGAAAATTTTT
55131124 GAAAGACATG
Statistics
Matches: 141, Mismatches: 25, Indels: 33
0.71 0.13 0.17
Matches are distributed among these distances:
49 1 0.01
50 5 0.04
52 27 0.19
53 30 0.21
54 45 0.32
55 5 0.04
56 28 0.20
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (55 bp):
TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGAAAATT
Found at i:55131152 original size:74 final size:73
Alignment explanation
Indices: 55130998--55131201 Score: 184
Period size: 74 Copynumber: 2.8 Consensus size: 73
55130988 AAAATCTTTG
* * * *
55130998 AAACACCGAAATTTTTGAAAACACG-AAGA--TTTTTG-AAACACGAAAATTTTTTGAAAATACG
1 AAACACGGAAATTTAT-AAAACACGAAAAATTTTTTTGAAAACACGAAAA-TTTTTG-AAAGACG
55131059 AAGATTTTTTT
63 AAGATTTTTTT
* * * * *** * *
55131070 TAACACGGAAATTTTTGAAACAGGGTCATTTTTTTTGAAAACACGAAAATTTTTGAAAGAC-ATG
1 AAACACGGAAATTTATAAAACACGAAAAATTTTTTTGAAAACACGAAAATTTTTGAAAGACGAAG
55131134 ATTTTTTT
66 ATTTTTTT
* * *
55131142 GAAAATACGGAAATTTATAAAACACGAAAAATTTTTCTGAAAACAAGAAAATTTTTGAAA
1 --AAACACGGAAATTTATAAAACACGAAAAATTTTTTTGAAAACACGAAAATTTTTGAAA
55131202 CACTAGAATT
Statistics
Matches: 105, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
71 6 0.06
72 24 0.23
73 5 0.05
74 59 0.56
75 11 0.10
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (73 bp):
AAACACGGAAATTTATAAAACACGAAAAATTTTTTTGAAAACACGAAAATTTTTGAAAGACGAAG
ATTTTTTT
Found at i:55131174 original size:92 final size:92
Alignment explanation
Indices: 55131009--55131177 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 92
55130999 AACACCGAAA
* * **
55131009 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTTAAC
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTATAAAAC
*
55131074 ACGGAAATTTTTGAAACAGGGTCATTT
66 ACGAAAATTTTTGAAACAGGGTCATTT
* * *
55131101 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAA-A-TTTATAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AAATTTTTTGAAAATAC-GAAGATTTTATAAA
55131163 ACACGAAAAATTTTT
64 ACACG-AAAATTTTT
55131178 CTGAAAACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
91 11 0.17
92 52 0.79
93 3 0.05
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (92 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAATACGAAGATTTTATAAAAC
ACGAAAATTTTTGAAACAGGGTCATTT
Found at i:55131215 original size:16 final size:16
Alignment explanation
Indices: 55131194--55131247 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
55131184 ACAAGAAAAT
55131194 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
55131210 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
55131228 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
55131244 TTTT
1 TTTT
55131248 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:55131445 original size:17 final size:16
Alignment explanation
Indices: 55131411--55131461 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
55131401 AAAATTATTT
55131411 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
55131427 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
55131444 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
55131462 TGCATAAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:55131627 original size:14 final size:14
Alignment explanation
Indices: 55131587--55131645 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 14
55131577 GAATTGAACC
55131587 TCTTTTT-TCT-TT
1 TCTTTTTCTCTCTT
* *
55131599 TTTTTTTCT-TTTT
1 TCTTTTTCTCTCTT
55131612 TCTTTTTCTCTCTT
1 TCTTTTTCTCTCTT
*
55131626 TCTTTTTTTCTCTT
1 TCTTTTTCTCTCTT
55131640 T-TTTTT
1 TCTTTTT
55131646 TTGCTGGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 7 0.17
13 16 0.40
14 17 0.43
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TCTTTTTCTCTCTT
Found at i:55131646 original size:14 final size:14
Alignment explanation
Indices: 55131596--55131647 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
55131586 CTCTTTTTTC
55131596 TTTTTTTTTTCT-T
1 TTTTTTTTTTCTCT
55131609 TTTTCTTTTTCTCTCT
1 TTTT-TTTTT-TCTCT
*
55131625 TTCTTTTTTTCTCT
1 TTTTTTTTTTCTCT
55131639 TTTTTTTTT
1 TTTTTTTTT
55131648 GCTGGGCTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 4 0.12
14 18 0.53
15 8 0.24
16 4 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTCTCT
Found at i:55131797 original size:24 final size:24
Alignment explanation
Indices: 55131764--55131818 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
55131754 CTGCATTTGG
55131764 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
*
55131788 TCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
55131812 GCTGCTT
1 GCTGCTT
55131819 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.00, C:0.25, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:55131827 original size:10 final size:11
Alignment explanation
Indices: 55131765--55131829 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
55131755 TGCATTTGGG
55131765 CTGCTTCTTTCTT
1 CTGCTT-TTT-TT
*
55131778 CTTCTTTTTTT
1 CTGCTTTTTTT
55131789 CTGCTTCTTTCTT
1 CTGCTT-TTT-TT
* *
55131802 CTTCTTTTTTG
1 CTGCTTTTTTT
55131813 CTGCTTTTTTT
1 CTGCTTTTTTT
55131824 -TGCTTT
1 CTGCTTT
55131830 GGTTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 6 0.14
11 17 0.39
12 9 0.20
13 12 0.27
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (11 bp):
CTGCTTTTTTT
Found at i:55131957 original size:7 final size:7
Alignment explanation
Indices: 55131940--55131981 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
55131930 TTATTATTTC
55131940 TTTTC-T
1 TTTTCTT
55131946 TTTTCTT
1 TTTTCTT
55131953 TTTTCTT
1 TTTTCTT
55131960 TCTTTCTT
1 T-TTTCTT
* *
55131968 CTTTCTC
1 TTTTCTT
55131975 TTTTCTT
1 TTTTCTT
55131982 CTTCCTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:55131963 original size:22 final size:22
Alignment explanation
Indices: 55131936--55131991 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
55131926 TTTTTTATTA
*
55131936 TTTCTTTTCTT-TTTCTTTTTTC
1 TTTC-TTTCTTCTTTCTCTTTTC
55131958 TTTCTTTCTTCTTTCTCTTTTC
1 TTTCTTTCTTCTTTCTCTTTTC
*
55131980 -TTCTTCCTTCTT
1 TTTCTTTCTTCTT
55131992 CTTCCTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTCTTCTTTCTCTTTTC
Found at i:55131969 original size:24 final size:24
Alignment explanation
Indices: 55131942--55132008 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
55131932 ATTATTTCTT
* *
55131942 TTCTTTTTCTTTT-TTCTTTCTTTC
1 TTCTTTCTCTTTTCTTC-TTCCTTC
55131966 TTCTTTCTCTTTTCTTCTTCCTTC
1 TTCTTTCTCTTTTCTTCTTCCTTC
55131990 TTC-TTC-CTTCTTCTTCTTC
1 TTCTTTCTCTT-TTCTTCTTC
55132009 AAAGTCTAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.08
23 12 0.31
24 21 0.54
25 3 0.08
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TTCTTTCTCTTTTCTTCTTCCTTC
Found at i:55131976 original size:17 final size:16
Alignment explanation
Indices: 55131936--55132004 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 16
55131926 TTTTTTATTA
55131936 TTTCTTTTCTTT-TTC
1 TTTCTTTTCTTTCTTC
*
55131951 TTTTTTCTTTCTTTCTTC
1 -TTTCT-TTTCTTTCTTC
55131969 TTTCTCTTT-TCTTCTTC
1 TTTCT-TTTCT-TTCTTC
* *
55131986 CTTCTTCTTCCTTCTTC
1 TTTCTT-TTCTTTCTTC
55132003 TT
1 TT
55132005 CTTCAAAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.14
17 34 0.79
18 3 0.07
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTC
Found at i:55131990 original size:10 final size:10
Alignment explanation
Indices: 55131977--55132005 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
55131967 TCTTTCTCTT
55131977 TTCTTCTTCC
1 TTCTTCTTCC
55131987 TTCTTCTTCC
1 TTCTTCTTCC
55131997 TTCTTCTTC
1 TTCTTCTTC
55132006 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:55132104 original size:18 final size:19
Alignment explanation
Indices: 55132068--55132108 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
55132058 CGGTACTCTT
*
55132068 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
55132087 TCTTTTCCT-TCCT-TTT-
1 TCTTTTCCTCTCCTCTTTC
55132103 TCTTTT
1 TCTTTT
55132109 TTTCGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 4 0.19
19 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:55132110 original size:18 final size:16
Alignment explanation
Indices: 55132063--55132110 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
55132053 GACGCCGGTA
55132063 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTT-TTCTC
*
55132080 CTCTTTCTCTTTTCCTTC
1 CTCTTTCT-TTTTTC-TC
*
55132098 CTTTTTCTTTTTT
1 CTCTTTCTTTTTT
55132111 TCGAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTCTTTTTTCTC
Found at i:55132394 original size:30 final size:30
Alignment explanation
Indices: 55132339--55132455 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
55132329 TGTAATTTTT
* *
55132339 AGAAAATTTA-GGGTTAAAATGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
55132368 TGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
55132398 AGAAAGTTTAAGGGTCAAAATAAAATTT-A
1 AGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
55132427 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTAGGGGTCAAAATGAAATTT
55132456 TTATTTTTTN
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
29 10 0.14
30 62 0.86
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:55132455 original size:60 final size:59
Alignment explanation
Indices: 55132339--55132455 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
55132329 TGTAATTTTT
* * * * *
55132339 AGAAAATTTAGGGTTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATAAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* *
55132398 AGAAAGTTTAAGGGTCAAAATAAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATAAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
55132456 TTATTTTTTN
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 10 0.20
60 39 0.80
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATAAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:55142940 original size:54 final size:54
Alignment explanation
Indices: 55142707--55143445 Score: 1176
Period size: 54 Copynumber: 14.0 Consensus size: 54
55142697 CACGTGAGCC
* *
55142707 AAGGCTCAACTCACTTCTCGCAATAT-AGGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTGAAAAACAGAAATT--AA
*
55142762 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAA
* *
55142814 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-AAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
55142867 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
55142921 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
55142974 AAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
55143027 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
55143077 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
55143131 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-A
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
55143184 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
55143237 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
55143291 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
55143340 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
55143394 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
55143446 GAAATACCTC
Statistics
Matches: 643, Mismatches: 19, Indels: 45
0.91 0.03 0.06
Matches are distributed among these distances:
49 47 0.07
50 60 0.09
51 2 0.00
52 66 0.10
53 195 0.30
54 230 0.36
55 30 0.05
56 1 0.00
57 6 0.01
58 6 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:55143229 original size:263 final size:265
Alignment explanation
Indices: 55142707--55143445 Score: 1355
Period size: 263 Copynumber: 2.8 Consensus size: 265
55142697 CACGTGAGCC
* *
55142707 AAGGCTCAACTCACTTCTCGCAATAT-AGGTTGATTTTTGAAAA-CAGAATTTACAAAAGGCTCA
1 AAGGCTCAACTCACCTCTCGCAATATGA-GTTGATTTTTGAAAATCAGAAATT--AAAAGGCTCA
55142770 ACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGC
63 ACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGC
55142835 AATATGAGTTGGTTTTTG-AAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTG
126 AATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTG
55142899 ATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
191 ATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
55142964 CAGAAATTAA
256 CAGAAATTAA
55142974 AAGGCTCAACTCACCTCTCGC-ATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
55143038 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATAT
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATAT
55143103 GAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
131 GAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
55143168 TGAAAAACAGAAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA
196 TGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA
55143232 ATTAA
261 ATTAA
55143237 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
*
55143302 CACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAAAAGGCTCAACTCACCTCTCGCAATAT
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATAT
*
55143366 GAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTT
131 GAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
55143431 TGAAAAACAGAAATT
196 TGAAAAACAGAAATT
55143446 GAAATACCTC
Statistics
Matches: 464, Mismatches: 4, Indels: 12
0.97 0.01 0.03
Matches are distributed among these distances:
263 245 0.53
264 137 0.30
265 35 0.08
266 19 0.04
267 28 0.06
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (265 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAA
ATTAA
Found at i:55143489 original size:72 final size:73
Alignment explanation
Indices: 55143398--55143943 Score: 895
Period size: 72 Copynumber: 7.5 Consensus size: 73
55143388 AATTAAAAGT
** *
55143398 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA-TACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143462 TCTTGAGG
66 TCTTGAGG
*
55143470 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAA-TACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143534 TCTTGAGG
66 TCTTGAGG
55143542 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143606 TCTTGAGG
66 TCTTGAGG
* * * *
55143614 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAATGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143679 TCTTGAGG
66 TCTTGAGG
*
55143687 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTGAAATTACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143751 TCTTGAGG
66 TCTTGAGG
*
55143759 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTGAAATTACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
55143823 TCTTGAGG
66 TCTTGAGG
* *
55143831 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACCTCAACGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTG-AAATTACCTCAACGT
*
55143896 GCCTTGAGG
65 GTCTTGAGG
** * *
55143905 CTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAA
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
55143944 GCATAGATTG
Statistics
Matches: 449, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
71 15 0.03
72 299 0.67
73 78 0.17
74 57 0.13
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTG
TCTTGAGG
Found at i:55143772 original size:217 final size:217
Alignment explanation
Indices: 55143398--55143956 Score: 942
Period size: 217 Copynumber: 2.6 Consensus size: 217
55143388 AATTAAAAGT
** * *
55143398 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
*
55143462 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATACCT
66 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAATACCT
*
55143527 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAA
131 CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAA
55143592 ATTACCTCAACGTGTCTTGAGG
196 ATTACCTCAACGTGTCTTGAGG
* *
55143614 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAATGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
55143679 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAAAAATTGAAATTACC
66 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAA-TACC
55143743 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGA
130 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGA
55143808 AATTACCTCAACGTGTCTTGAGG
195 AATTACCTCAACGTGTCTTGAGG
*
55143831 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACCTCAACGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA-TACCTCAACGT
* ** * * * *
55143896 GCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAA
65 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAA
55143957 AAAAACATAA
Statistics
Matches: 321, Mismatches: 18, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
216 55 0.17
217 203 0.63
218 53 0.17
219 10 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (217 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAATACCT
CAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAA
ATTACCTCAACGTGTCTTGAGG
Found at i:55143960 original size:17 final size:17
Alignment explanation
Indices: 55143940--55143973 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55143930 TTGATTTTTG
* *
55143940 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
55143957 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
55143974 TACCTCAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:55144217 original size:117 final size:120
Alignment explanation
Indices: 55143993--55144262 Score: 464
Period size: 117 Copynumber: 2.3 Consensus size: 120
55143983 ATGTGAGCGA
*
55143993 GCTCAACT-AC-TCTTGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTCACC
55144056 TCTCGCAATATGAGTCAATTTAAAACATAACTAAAAATACCTCGGCGTGCCCTGAG
66 TCTCGCAATATGAGTCAATTTAAAACATAACTAAAAATACCTCGGCGTGCCC-GAG
55144112 GCTC-ACTCA-TTCTCGCAATATGAGTTGATTTTTGAAAAC-AAAATT-AAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTCACC
55144173 TCTCGCAATATGAGTCAATTTAAAACATACACTAAAAATA-CTCGGCGTGCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACATA-ACTAAAAATACCTCGGCGTGCCCGAG
55144228 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
55144263 TTTAAAAAAT
Statistics
Matches: 145, Mismatches: 1, Indels: 11
0.92 0.01 0.07
Matches are distributed among these distances:
116 7 0.05
117 62 0.43
118 43 0.30
119 33 0.23
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (120 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAACTAAAAATACCTCGGCGTGCCCGAG
Found at i:55150914 original size:37 final size:37
Alignment explanation
Indices: 55150850--55150959 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
55150840 TACGTATGAT
*
55150850 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
55150886 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
55150923 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
55150960 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:55151002 original size:52 final size:52
Alignment explanation
Indices: 55150923--55151237 Score: 393
Period size: 52 Copynumber: 6.2 Consensus size: 52
55150913 TAAGTGTAGC
* * **
55150923 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
55150976 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
55151028 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
55151080 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
55151126 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *** *
55151172 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGATAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
55151224 CACTTTATCACTTG
1 CACTTT-TCACTTG
55151238 ATCAGAAGTA
Statistics
Matches: 233, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 83 0.36
47 2 0.01
48 2 0.01
52 131 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:55151033 original size:98 final size:98
Alignment explanation
Indices: 55150923--55151243 Score: 429
Period size: 98 Copynumber: 3.3 Consensus size: 98
55150913 TAAGTGTAGC
* * *
55150923 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
55150988 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55151021 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
*
55151083 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * * *
55151119 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
*** *
55151184 GTCACTTGATCAGATAAGTGTAGATAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
55151217 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
55151244 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 15, Indels: 24
0.83 0.06 0.10
Matches are distributed among these distances:
92 39 0.20
96 1 0.01
98 115 0.59
101 1 0.01
104 40 0.20
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:55155521 original size:17 final size:17
Alignment explanation
Indices: 55155501--55156021 Score: 205
Period size: 17 Copynumber: 29.9 Consensus size: 17
55155491 ATGAAAGTTT
55155501 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
55155518 TTTTT-AAACACG-GAAA
1 TTTTTAAAACACGAG-AA
** *
55155534 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
55155551 TTTTTAAAACACGACAT
1 TTTTTAAAACACGAGAA
*
55155568 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
55155585 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * **
55155602 TTTTTGAAACACAATTA
1 TTTTTAAAACACGAGAA
*
55155619 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
55155633 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
55155648 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
55155665 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
55155682 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
***
55155699 TTTTTTAGAAA-ACGATTT
1 -TTTTTA-AAACACGAGAA
*
55155717 TTTTTAAAATCACCG-GAG
1 TTTTTAAAA-CA-CGAGAA
*
55155735 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* *
55155753 TCTTTGAAACACCGA-AA
1 TTTTTAAAACA-CGAGAA
55155770 TTTTTGAAAACACGA-AGA
1 TTTTT-AAAACACGAGA-A
* *
55155788 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
55155805 TTTTTTGAAAATACGAAGATT
1 -TTTTT-AAAACACG-AGA-A
**
55155826 TTTTTTTAACACG-GAAA
1 TTTTTAAAACACGAG-AA
* *
55155843 TTTTTGAAACACG-GTCATTT
1 TTTTTAAAACACGAG--A--A
*
55155863 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* **
55155881 TTTTTGAAAGACATGA-TT
1 TTTTT-AAA-ACACGAGAA
*
55155899 TTTTTGAAAATACG-GAAA
1 TTTTT-AAAACACGAG-AA
* *
55155917 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* * *
55155934 TTTTTTCTGAAAGCAAGAAAA
1 --TTTT-T-AAAACACGAGAA
* *
55155955 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
55155972 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
55155989 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
55156006 TTTTTAAAAGCACGAG
1 TTTTTAAAA-CACGAG
55156022 GATTATTGAA
Statistics
Matches: 378, Mismatches: 82, Indels: 87
0.69 0.15 0.16
Matches are distributed among these distances:
11 4 0.01
12 3 0.01
14 2 0.01
15 4 0.01
16 16 0.04
17 210 0.56
18 76 0.20
19 32 0.08
20 14 0.04
21 17 0.04
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:55155902 original size:38 final size:37
Alignment explanation
Indices: 55155648--55155997 Score: 141
Period size: 35 Copynumber: 9.7 Consensus size: 37
55155638 AATACGAGAA
* ***
55155648 TTTTT-AAAACACGAAAATTTTT-AAAAC-ACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACGATGATTT
*
55155682 TTTTTG-AAACACGGAAATTTTTTAGAAAAC---GATTT
1 TTTTTGAAAACAC-GAAAATTTTT-GAAAACGATGATTT
* * * ***
55155717 TTTTT-AAAATCACCG-GAGTTTTTGAAAAC-ACGAAAA
1 TTTTTGAAAA-CA-CGAAAATTTTTGAAAACGATGATTT
* * ***
55155753 TCTTTG-AAACACCG-AAATTTTTGAAAAC-ACGAAGA
1 TTTTTGAAAACA-CGAAAATTTTTGAAAACGATGATTT
*
55155788 TTTTTG-AAACACGAAAATTTTTTGAAAATACGAAGATTT
1 TTTTTGAAAACACGAAAA-TTTTTG-AAA-ACGATGATTT
* * * *
55155827 TTTTT--TAACACGGAAATTTTTGAAACACGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
55155863 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGA-TT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* * * * **
55155899 TTTTTGAAAATACGGAAATTTATAAAACACGAAAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* * * *
55155937 TTTCTGAAAGCAAGAAAATTTTTGAAACACTA-GA---
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* *
55155971 ATTTTGAAAACACGAAGATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
55155998 CATGAGAATT
Statistics
Matches: 247, Mismatches: 50, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
34 41 0.17
35 61 0.25
36 60 0.24
37 20 0.08
38 57 0.23
39 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (37 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACGATGATTT
Found at i:55155927 original size:74 final size:74
Alignment explanation
Indices: 55155648--55155963 Score: 196
Period size: 71 Copynumber: 4.4 Consensus size: 74
55155638 AATACGAGAA
* * * * *
55155648 TTTTT-AAAACACGAAAATTTTTAAAACACGAA-A-ATTTTTGAAACACGGAAATTTTTTAGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAAACACGGAAA-TTTATA-AAA
55155710 -ACG---ATTT
64 CACGAAAATTT
* * * * * * * *
55155717 TTTTT-AAAATCACCG-GAGTTTTTGAAAACACGAA-A-ATCTTTGAAACACCGAAATTTTTGAA
1 TTTTTGAAAA-CA-CGAAAATTTTTG-AAAGACGAAGATTTTTTTAAAACACGGAAATTTAT-AA
*
55155778 AACACGAAGA---
62 AACACGAAAATTT
* ** * *
55155788 TTTTTG-AAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTTTAACACGGAAATTTTTGAAA
1 TTTTTGAAAACACGAAAA-TTTTTG-AAAGACGAAGATTTTTTTAAAACACGGAAATTTATAAAA
***
55155852 CACGGTCATTT
64 CACGAAAATTT
* *
55155863 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAAATTTATAAAAC
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTT-AAAACACGGAAATTTATAAAAC
55155927 ACGAAAATTT
65 ACGAAAATTT
* * *
55155937 TTTCTGAAAGCAAGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
55155964 CACTAGAATT
Statistics
Matches: 199, Mismatches: 30, Indels: 31
0.77 0.12 0.12
Matches are distributed among these distances:
69 11 0.06
70 19 0.10
71 55 0.28
72 9 0.05
73 28 0.14
74 54 0.27
75 12 0.06
76 11 0.06
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (74 bp):
TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAAACACGGAAATTTATAAAACA
CGAAAATTT
Found at i:55155977 original size:16 final size:16
Alignment explanation
Indices: 55155956--55156009 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
55155946 GCAAGAAAAT
55155956 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
55155972 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
55155990 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
55156006 TTTT
1 TTTT
55156010 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:55155992 original size:34 final size:35
Alignment explanation
Indices: 55155943--55156032 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 35
55155933 ATTTTTTCTG
* *
55155943 AAAGCAAGAAAATTTTTGAAACACT-AGAATTTTGA
1 AAAGCACGAAGATTTTTGAAACA-TGAGAATTTTGA
*
55155978 AAA-CACGAAGATTTTTGAAACATGAGAATTTTTA
1 AAAGCACGAAGATTTTTGAAACATGAGAATTTTGA
* *
55156012 AAAGCACGAGGATTATTGAAA
1 AAAGCACGAAGATTTTTGAAA
55156033 TTACAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 29 0.60
35 18 0.38
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (35 bp):
AAAGCACGAAGATTTTTGAAACATGAGAATTTTGA
Found at i:55156207 original size:17 final size:16
Alignment explanation
Indices: 55156173--55156223 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
55156163 AAAATTATTT
55156173 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
55156189 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
55156206 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
55156224 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:55156367 original size:10 final size:9
Alignment explanation
Indices: 55156352--55156407 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 9
55156342 ATTGAACCTC
55156352 TTTTTTCTT
1 TTTTTTCTT
55156361 GTTTTTTCTT
1 -TTTTTTCTT
55156371 TTTTCTT-TT
1 TTTT-TTCTT
55156380 TCTCTCTTTCTT
1 T-T-T-TTTCTT
55156392 TTTTTCTCTT
1 TTTTT-TCTT
55156402 TTTTTT
1 TTTTTT
55156408 TGCTGGGCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
9 10 0.25
10 22 0.55
11 4 0.10
12 4 0.10
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:55156372 original size:17 final size:16
Alignment explanation
Indices: 55156350--55156405 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
55156340 GAATTGAACC
55156350 TCTTTTTTCTTGTTTTT
1 TCTTTTTTCTT-TTTTT
*
55156367 TCTTTTTTC-TTTTTC
1 TCTTTTTTCTTTTTTT
*
55156382 TC-TCTTTCTTTTTTT
1 TCTTTTTTCTTTTTTT
55156397 CTCTTTTTT
1 -TCTTTTTT
55156406 TTTGCTGGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.16
15 11 0.34
16 3 0.09
17 13 0.41
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (16 bp):
TCTTTTTTCTTTTTTT
Found at i:55156408 original size:14 final size:14
Alignment explanation
Indices: 55156362--55156408 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
55156352 TTTTTTCTTG
55156362 TTTTTTCT-TTTTT
1 TTTTTTCTCTTTTT
*
55156375 CTTTTTCTCTCTTTCT
1 -TTTTT-TCTCTTTTT
55156391 TTTTTTCTCTTTTT
1 TTTTTTCTCTTTTT
55156405 TTTT
1 TTTT
55156409 GCTGGGCTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 17 0.59
15 8 0.28
16 4 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTCTTTTT
Done.