Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 731 of 770
Found at i:231236731 original size:7 final size:7
Alignment explanation
Indices: 231236715--231236744 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
231236705 AATAGGGCGT
231236715 AAGA-AG
1 AAGAGAG
231236721 AAGAGAG
1 AAGAGAG
231236728 AAGAGAG
1 AAGAGAG
231236735 AAGAGAG
1 AAGAGAG
231236742 AAG
1 AAG
231236745 TGAGCGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (7 bp):
AAGAGAG
Found at i:231250944 original size:40 final size:40
Alignment explanation
Indices: 231250889--231251066 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
231250879 TGGATGATAA
* * *
231250889 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
231250929 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
231250969 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
231251009 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
231251049 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
231251067 TACTTGGCTT
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:231259014 original size:40 final size:39
Alignment explanation
Indices: 231258959--231259177 Score: 329
Period size: 40 Copynumber: 5.6 Consensus size: 39
231258949 TGGATGATAA
* * * *
231258959 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TT
*
231258999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAT-T
231259039 CCGGGCTAAGT-CC-AAGGCATTCGTGCGAGTTACTATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATT
231259076 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAT-T
231259116 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATT
*
231259154 CC-GGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCG
231259178 AGCTAGCTAT
Statistics
Matches: 170, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
37 33 0.19
38 27 0.16
39 32 0.19
40 78 0.46
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATT
Found at i:231259089 original size:77 final size:79
Alignment explanation
Indices: 231258959--231259177 Score: 347
Period size: 77 Copynumber: 2.8 Consensus size: 79
231258949 TGGATGATAA
* * * * *
231258959 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TTCCGGGCTAAGTCCCGAAGGCATTCG
231259024 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
231259039 CCGGGCTAAGT-CC-AAGGCATTCGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTCGT
231259102 GCGAGTTACTATAT
66 GCGAGTTACTATAT
*
231259116 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TACTATTCC-GGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTCG
231259178 AGCTAGCTAT
Statistics
Matches: 131, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
77 73 0.56
78 29 0.22
79 18 0.14
80 11 0.08
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTCGT
GCGAGTTACTATAT
Found at i:231259201 original size:34 final size:36
Alignment explanation
Indices: 231258962--231259205 Score: 163
Period size: 40 Copynumber: 6.4 Consensus size: 36
231258952 ATGATAACCG
* * * *
231258962 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCC
1 GGCTAAATCCCGAAGGCATTCGAGC--GAGACTA-TTCC
* * *
231259001 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 -GGCTAAATCCCGAAGGCATTCGAGCGAG--ACTAT-TCC
* *
231259041 GGGCTAAGT-CC-AAGGCATTCGTGCGAGTTACTATTCC
1 -GGCTAAATCCCGAAGGCATTCGAGCGAG--ACTATTCC
* *
231259078 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCC
1 -GGCTAAATCCCGAAGGCATTCGAGCGAG--ACTAT-TCC
* *
231259118 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTACTATTCC
1 -GGCTAAATCCCGAAGGCATTCGAGCGAG-ACTATTCC
** *
231259156 GGCTATGTCCCGAAGGCATTCGAGCTAG-CTA-TCC
1 GGCTAAATCCCGAAGGCATTCGAGCGAGACTATTCC
*
231259190 GGTTAAATCCCGAAGG
1 GGCTAAATCCCGAAGG
231259206 TACTTGGCTT
Statistics
Matches: 189, Mismatches: 9, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
34 16 0.08
35 3 0.02
37 37 0.20
38 29 0.15
39 32 0.17
40 72 0.38
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (36 bp):
GGCTAAATCCCGAAGGCATTCGAGCGAGACTATTCC
Found at i:231266564 original size:40 final size:40
Alignment explanation
Indices: 231266509--231266758 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
231266499 AACATTGGAA
231266509 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
231266549 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
231266589 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
231266629 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
231266669 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
231266708 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
231266749 CTATATCCGG
1 ATATATCCGG
231266759 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:231273428 original size:29 final size:29
Alignment explanation
Indices: 231273327--231273427 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
231273317 GTGACGAGAT
231273327 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
231273356 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* * * ***
231273385 CGGCACT-GGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
231273413 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
231273428 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 20 0.32
29 42 0.68
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:231273484 original size:28 final size:28
Alignment explanation
Indices: 231273415--231273515 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
231273405 GAAGGGTATG
* * * *
231273415 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
231273445 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
231273473 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
231273502 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
231273516 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:231281333 original size:29 final size:29
Alignment explanation
Indices: 231281231--231281332 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
231281221 GTGACGAGAT
231281231 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
231281260 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
231281289 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
231281318 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
231281333 GGGTTTAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:231281389 original size:28 final size:28
Alignment explanation
Indices: 231281320--231281420 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
231281310 GAAGGGTATG
* * * *
231281320 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
231281350 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
231281378 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
231281407 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
231281421 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:231283709 original size:41 final size:42
Alignment explanation
Indices: 231283631--231283736 Score: 196
Period size: 41 Copynumber: 2.5 Consensus size: 42
231283621 TGTTGATTTC
231283631 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
231283673 GGCACTAAGTGTGCGGGTAT-AATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
231283714 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
231283737 ATTTGTACAG
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 40 0.65
42 22 0.35
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:231283785 original size:28 final size:27
Alignment explanation
Indices: 231283745--231283814 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
231283735 AAATTTGTAC
**
231283745 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTGATTATAT
* *
231283773 AGCACTATGTGTGCGAGCTGATTTTAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
*
231283800 ATCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
231283815 GACTCACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:231290991 original size:28 final size:27
Alignment explanation
Indices: 231290951--231291020 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
231290941 AAATTTGTAC
**
231290951 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-AGCTGATTATAT
* *
231290979 AGCACTATGTGTGCGAGCTGATTTTAT
1 AGCACTAAGTGTGCGAGCTGATTATAT
*
231291006 ATCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
231291021 GACTCACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTGATTATAT
Found at i:231294085 original size:17 final size:18
Alignment explanation
Indices: 231294061--231294121 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
231294051 GCATATCATA
231294061 TCATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
231294079 T-ATATCATATCTAAG-T
1 TCATATCATATCTAAGAT
231294095 TGCATATCATATCTAAGAT
1 T-CATATCATATCTAAGAT
231294114 TGCATATC
1 T-CATATC
231294122 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.05
17 14 0.35
18 15 0.38
19 9 0.22
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATATCATATCTAAGAT
Found at i:231294530 original size:45 final size:45
Alignment explanation
Indices: 231294475--231294586 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
231294465 GGAAGGCGAT
*
231294475 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAA
*
231294520 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACG-CTAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTC-AA
* *
231294565 ATTTGCT-TCTTCAATCTGCTCC
1 ATCTGCTATCTTCGATCTGCTCC
231294587 TTGCAAACTC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
44 15 0.25
45 46 0.75
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.34
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAA
Found at i:231294669 original size:44 final size:44
Alignment explanation
Indices: 231294528--231294669 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 44
231294518 AAATCTGTTA
* * * * *
231294528 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCTAAATTTGCT
1 TCTTCAATCTGCTCTCCGTCAAACACAAAGACGCTAAATTTGCT
* * * * *
231294572 TCTTCAATCTG--CTCCTTGCAAACTC-ATGACTG-T-CATATTGAT
1 TCTTCAATCTGCTCTCCGT-CAAACACAAAGAC-GCTAAAT-TTGCT
* *
231294614 ATCTTCGATCTGCTCTCCGTCGAACACAAAGACGCTAAATTTGCT
1 -TCTTCAATCTGCTCTCCGTCAAACACAAAGACGCTAAATTTGCT
231294659 TCTTCAATCTG
1 TCTTCAATCTG
231294670 TTCCCTAACA
Statistics
Matches: 71, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
41 2 0.03
42 12 0.17
43 15 0.21
44 26 0.37
45 14 0.20
46 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (44 bp):
TCTTCAATCTGCTCTCCGTCAAACACAAAGACGCTAAATTTGCT
Found at i:231295397 original size:205 final size:205
Alignment explanation
Indices: 231294668--231295374 Score: 1225
Period size: 205 Copynumber: 3.4 Consensus size: 205
231294658 TTCTTCAATC
* * * * *
231294668 TGTTCCCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACATAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
*
231294733 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTAC
231294798 TTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
131 TTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
231294863 GACTTCGATT
196 GACTTCGATT
231294873 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
*
231294938 CAAATCAGCTATGTATTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTAC
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTAC
* * *
231295003 TTCAGTATAAACATCTGAAGTTTGGATCTGCTATGTGTCAGCCCTCCGTCAAAGTGGAGATGCCA
131 TTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
231295068 GACTTCGATT
196 GACTTCGATT
** * *
231295078 TGTTCTCTGACAATACAGTGATGCCAAATCATCTTAGATTTGTTTCAATGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
* *
231295143 CAAATCAGCTATATCTTCGATTTGCTCCTTGTAAGCCCAAGGATGCCAAACCATCTTGGATCTAC
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTAC
* *
231295208 TTCAATATAAACATCTGAAGGTTGGATTTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
131 TTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
231295273 GACTTCGATT
196 GACTTCGATT
*
231295283 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
1 TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
* *
231295348 CAAATCAGCTGTGTCTTCGATCTGCTC
66 CAAATCAGCTATGTCTTCGATTTGCTC
231295375 TCCGCCAATA
Statistics
Matches: 472, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 472 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (205 bp):
TGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACGTGAAAGC
CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTAC
TTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGAGATGCCA
GACTTCGATT
Found at i:231295412 original size:44 final size:44
Alignment explanation
Indices: 231295361--231295453 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
231295351 ATCAGCTGTG
** **
231295361 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCCAACAATACAGAGATGCCAAATCTACTA
* *
231295405 TCTTCGATCTGCTTTCTAACAATACAGAGATGCCAAATCTACTA
1 TCTTCGATCTGCTCTCCAACAATACAGAGATGCCAAATCTACTA
231295449 TCTTC
1 TCTTC
231295454 AACTTGTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCAACAATACAGAGATGCCAAATCTACTA
Found at i:231295481 original size:44 final size:44
Alignment explanation
Indices: 231295384--231295840 Score: 308
Period size: 44 Copynumber: 10.4 Consensus size: 44
231295374 CTCCGCCAAT
* ** * * *
231295384 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTT-TCTA-ACAAT
1 ACAGGGATGCCAAATCTACTATCTTCAATCTG-TTCCCTATA-AAC
*
231295428 ACAGAGATGCCAAATCTACTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAATC-TGTTCCCTATAAAC
** * * * * ** * *
231295472 ACAGGGATGCCATGT-TGA-AATCCTCGATCTACTTCGTTGTAAGC
1 ACAGGGATGCCAAATCT-ACTATCTTCAATCT-GTTCCCTATAAAC
* ** *
231295516 ACA-GGAGTGTCAAATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTACTATCTTCAATCTGTTCCCTATAAAC
**
231295560 ACAGGGATGCCAAATCTGTTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAATC-TGTTCCCTATAAAC
** * * * *
231295604 ACAGGGATGCC--ATGCTAAAATCCTCAATCTGCTTCACTGTAAGC
1 ACAGGGATGCCAAAT-CTACTATCTTCAATCTG-TTCCCTATAAAC
* * * ** *
231295648 ACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAATCTGTTCCCTATAAAC
231295692 ACAGGGATGCCAAATCTACTATCTTCAA-CTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAATC-TGTTCCCTATAAAC
** * * * *
231295736 ACAGGGATGCC--ATGCTAAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTACTATCTTCAATCTG-TTCCCTATAAAC
* * * * *
231295780 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAATCTGTTCCCTATAAAC
231295824 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
231295841 TATTTTTTGA
Statistics
Matches: 322, Mismatches: 69, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
42 4 0.01
43 39 0.12
44 234 0.73
45 41 0.13
46 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTACTATCTTCAATCTGTTCCCTATAAAC
Found at i:231295481 original size:88 final size:87
Alignment explanation
Indices: 231295384--231295840 Score: 351
Period size: 88 Copynumber: 5.2 Consensus size: 87
231295374 CTCCGCCAAT
* * * *
231295384 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTT-TCTAACAATACAGAGATGCCAAATCTACT
1 ACAGGGATGCCAAATCTGATATCTTCGATCTGCTTCCCTAA-AACACAG-GATGCCAAATCTACT
231295448 ATCTTCAA-CTTGTTCCCTATAAAC
64 ATCTTCAATC-TGTTCCCTATAAAC
** * * * ** * * * **
231295472 ACAGGGATGCCATGT-TGAAATCCTCGATCTACTTCGTTGTAAGCACAGGAGTGTCAAATCTGTT
1 ACAGGGATGCCAAATCTGATATCTTCGATCTGCTTCCCT-AAAACACAGGA-TGCCAAATCTACT
*
231295536 ATCTTCGATCTGTTCCCTATAAAC
64 ATCTTCAATCTGTTCCCTATAAAC
* *
231295560 ACAGGGATGCCAAATCTGTTATCTTC-AACTTG-TTCCCTATAAACACAGGGATGCC--ATGCTA
1 ACAGGGATGCCAAATCTGATATCTTCGATC-TGCTTCCCTA-AAACACA-GGATGCCAAAT-CTA
** * * * *
231295621 AAATCCTCAATCTGCTTCACTGTAAGC
62 CTATCTTCAATCTG-TTCCCTATAAAC
* * * *
231295648 ACAGGAATGTCAGATCTGTTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCTACT
1 ACAGGGATGCCAAATCTGATATCTTCGATCTGCTTCCCTA-AAACACA-GGATGCCAAATCTACT
231295712 ATCTTCAA-CTTGTTCCCTATAAAC
64 ATCTTCAATC-TGTTCCCTATAAAC
* * * * * * * *
231295736 ACAGGGATGCC--ATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
1 ACAGGGATGCCAAAT-CTGATATCTTCGATCTGCTTCCCT-AAAACACAGG-ATGCCAAATCTAC
*
231295799 TATCTTCGATCTGTTCCCTATAAAC
63 TATCTTCAATCTGTTCCCTATAAAC
231295824 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
231295841 TATTTTTTGA
Statistics
Matches: 290, Mismatches: 58, Indels: 41
0.75 0.15 0.11
Matches are distributed among these distances:
86 4 0.01
87 45 0.16
88 207 0.71
89 30 0.10
90 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (87 bp):
ACAGGGATGCCAAATCTGATATCTTCGATCTGCTTCCCTAAAACACAGGATGCCAAATCTACTAT
CTTCAATCTGTTCCCTATAAAC
Found at i:231295569 original size:132 final size:132
Alignment explanation
Indices: 231295394--231295840 Score: 709
Period size: 132 Copynumber: 3.4 Consensus size: 132
231295384 ACAGAGATGC
* * * *
231295394 CAAATCTGGTATCTTCGATCTGCTT-TCTA-ACAATACAGAGATGCCAAATCTACTATCTTCAAC
1 CAAATCTGTTATCTTCGATCTG-TTCCCTATA-AACACAGGGATGCCAAATCTACTATCTTCAAC
* * * *
231295457 TTGTTCCCTATAAACACAGGGATGCCATGTTGAAATCCTCGATCTACTTCGTTGTAAGCACAGGA
64 TTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCCTCGATCTGCTTCGCTGTAAGCACAGGA
*
231295522 GTGT
129 ATGT
**
231295526 CAAATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGTTATCTTCAACTT
1 CAAATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
* *
231295591 GTTCCCTATAAACACAGGGATGCCATGCTAAAATCCTCAATCTGCTTCACTGTAAGCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTAAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAAT
231295656 GT
131 GT
*
231295658 CAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
1 CAAATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
*
231295723 GTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAAT
66 GTTCCCTATAAACACAGGGATGCCATGCTAAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAAT
231295788 GT
131 GT
* *
231295790 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 CAAATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
231295841 TATTTTTTGA
Statistics
Matches: 293, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 290 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (132 bp):
CAAATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTT
GTTCCCTATAAACACAGGGATGCCATGCTAAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAAT
GT
Found at i:231296733 original size:1 final size:1
Alignment explanation
Indices: 231296723--231296789 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
231296713 GGCCTCTCCA
* * * * * * * *
231296723 TTTTTCTTTTTTCTCTTTTTTTTTTATTTTTTATTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
231296788 TT
1 TT
231296790 GAAATAGAAG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:231296741 original size:8 final size:7
Alignment explanation
Indices: 231296723--231296789 Score: 75
Period size: 7 Copynumber: 9.6 Consensus size: 7
231296713 GGCCTCTCCA
231296723 TTTTTCT
1 TTTTTCT
231296730 TTTTTCT
1 TTTTTCT
*
231296737 CTTTT-T
1 TTTTTCT
*
231296743 TTTTTAT
1 TTTTTCT
*
231296750 TTTTTAT
1 TTTTTCT
231296757 TTTTTCTT
1 TTTTTC-T
231296765 TTTTTCTT
1 TTTTTC-T
231296773 TTTTTCT
1 TTTTTCT
231296780 TTTTT-T
1 TTTTTCT
231296786 TTTT
1 TTTT
231296790 GAAATAGAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
6 10 0.18
7 30 0.55
8 15 0.27
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:231303585 original size:17 final size:18
Alignment explanation
Indices: 231303561--231303621 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
231303551 GCATATCATA
231303561 TCATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
231303579 T-ATATCATATCTAAG-T
1 TCATATCATATCTAAGAT
231303595 TGCATATCATATCTAAGAT
1 T-CATATCATATCTAAGAT
231303614 TGCATATC
1 T-CATATC
231303622 CTTAAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.05
17 14 0.35
18 15 0.38
19 9 0.22
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.39
Consensus pattern (18 bp):
TCATATCATATCTAAGAT
Found at i:231306183 original size:40 final size:39
Alignment explanation
Indices: 231306138--231306267 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
231306128 CGGAATACAA
231306138 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
231306178 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
231306218 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
231306258 CCGGATATAA
1 CCGGATATAA
231306268 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:231315407 original size:40 final size:39
Alignment explanation
Indices: 231315280--231315409 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
231315270 ATGCTGGAAA
*
231315280 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
231315320 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
231315360 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
231315400 TTATATCCGG
1 TTATATCCGG
231315410 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:231323499 original size:40 final size:39
Alignment explanation
Indices: 231323372--231323501 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
231323362 ATGCTGGAAA
*
231323372 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
231323412 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
231323452 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
231323492 TTATATCCGG
1 TTATATCCGG
231323502 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:231327692 original size:27 final size:27
Alignment explanation
Indices: 231327654--231327722 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
231327644 AAATTTGTAC
231327654 AGCACTAAGTGTGCGAGTTGATCATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
231327681 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
231327708 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
231327723 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:231327733 original size:27 final size:27
Alignment explanation
Indices: 231327654--231327734 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
231327644 AAATTTGTAC
* *
231327654 AGCACTAAGTGTGCGAGTTGA-TCATAT
1 AGCACTAAGTGTGCGAGCTCACT-ATAT
* * *
231327681 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
231327708 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
231327735 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:231334659 original size:27 final size:28
Alignment explanation
Indices: 231334594--231334663 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
231334584 AAATTTGTAC
231334594 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
231334622 AGCACTAAGTGTGCGAGTT-GATTATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
231334649 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
231334664 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTGGATCATAT
Found at i:231334674 original size:27 final size:27
Alignment explanation
Indices: 231334594--231334675 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
231334584 AAATTTGTAC
* *
231334594 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
231334622 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
231334649 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
231334676 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:231336198 original size:6 final size:6
Alignment explanation
Indices: 231336180--231336218 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
231336170 CTTCAAAAAT
* *
231336180 AAATAG AAATAA AAGTAAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AA
231336219 TGAGTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:231336208 original size:19 final size:19
Alignment explanation
Indices: 231336180--231336218 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
231336170 CTTCAAAAAT
* *
231336180 AAATAGAAATAAAAGTAAA
1 AAATAAAAATAAAAATAAA
231336199 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
231336218 A
1 A
231336219 TGAGTTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:231348149 original size:31 final size:31
Alignment explanation
Indices: 231348099--231348176 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
231348089 AACTTTAAAA
* *
231348099 AAAAAAATTCAGTGACTTAAATAAAAACTTT
1 AAAATAATTTAGTGACTTAAATAAAAACTTT
** * *
231348130 TGAATAATTTAGTTACTTAAATGAAAACTTT
1 AAAATAATTTAGTGACTTAAATAAAAACTTT
231348161 AAAATAATTTAGTGAC
1 AAAATAATTTAGTGAC
231348177 CAAATTATAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.35
Consensus pattern (31 bp):
AAAATAATTTAGTGACTTAAATAAAAACTTT
Found at i:231348764 original size:19 final size:19
Alignment explanation
Indices: 231348732--231348780 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
231348722 TGAAACAAAC
*
231348732 AACA-GAAAATAGCAACAA
1 AACAGGAAAAAAGCAACAA
*
231348750 AACAGGAAAAAAGCAATAA
1 AACAGGAAAAAAGCAACAA
* *
231348769 AATAGTAAAAAA
1 AACAGGAAAAAA
231348781 ATGACAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.69, C:0.10, G:0.12, T:0.08
Consensus pattern (19 bp):
AACAGGAAAAAAGCAACAA
Found at i:231351935 original size:12 final size:12
Alignment explanation
Indices: 231351918--231351957 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
231351908 ATTTTTTACA
231351918 TATTATTAATAT
1 TATTATTAATAT
*
231351930 TATTATTAGTAT
1 TATTATTAATAT
*
231351942 TTTTATTAATA-
1 TATTATTAATAT
231351953 TATTA
1 TATTA
231351958 ATTATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:231352043 original size:13 final size:14
Alignment explanation
Indices: 231352019--231352049 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
231352009 ATCATTATTA
231352019 ATATTAATATATGT
1 ATATTAATATATGT
231352033 ATATT-ATATATGT
1 ATATTAATATATGT
231352046 ATAT
1 ATAT
231352050 ATTCGTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:231352269 original size:12 final size:12
Alignment explanation
Indices: 231352248--231352344 Score: 66
Period size: 12 Copynumber: 8.4 Consensus size: 12
231352238 TTCTTAATAT
231352248 TATATT-TTATA
1 TATATTATTATA
231352259 TATATTATTATA
1 TATATTATTATA
231352271 TATATT-TTA-A
1 TATATTATTATA
*
231352281 TATCATTAGTCATA
1 TAT-ATTA-TTATA
* *
231352295 T-TCTTCTT-T-
1 TATATTATTATA
*
231352304 TATACTATTATA
1 TATATTATTATA
231352316 TATA-TA-TATA
1 TATATTATTATA
231352326 TATATATATATATA
1 TATAT-TAT-TATA
231352340 TATAT
1 TATAT
231352345 CTAATATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
9 1 0.01
10 17 0.25
11 16 0.24
12 19 0.28
13 3 0.04
14 11 0.16
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (12 bp):
TATATTATTATA
Found at i:231352319 original size:2 final size:2
Alignment explanation
Indices: 231352312--231352344 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
231352302 TTTATACTAT
231352312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
231352345 CTAATATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:231364953 original size:71 final size:70
Alignment explanation
Indices: 231364868--231365000 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 70
231364858 GTTTTCCAAG
* * *
231364868 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGACACGCTGAGGTAATTTCAATTTAT
231364933 GTTTCA
65 GTTTCA
* * *
231364939 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTT
231365001 CTGCTTTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
70 21 0.38
71 35 0.62
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTATG
TTTCA
Found at i:231365067 original size:158 final size:159
Alignment explanation
Indices: 231364779--231365157 Score: 694
Period size: 158 Copynumber: 2.4 Consensus size: 159
231364769 TTGTTTTTTC
231364779 CAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTCAGGGCACG-TGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTT
231364842 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
65 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
231364907 GACACGTTGAGGTAATTTCAATTTATGTTT
130 GACACGTTGAGGTAATTTCAATTTATGTTT
231364937 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTC
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTC
231365002 TGC-TTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
66 TGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
231365066 ACACGTTGAGGTAATTTCAATTTATGTTT
131 ACACGTTGAGGTAATTTCAATTTATGTTT
* *
231365095 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTA-TTTCAATT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-TCGGGCACGCTGAGGTATTTTCAATT
231365158 CCTATTAAAT
Statistics
Matches: 216, Mismatches: 2, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
158 164 0.76
159 52 0.24
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (159 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTC
TGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:231365189 original size:73 final size:72
Alignment explanation
Indices: 231365026--231365344 Score: 259
Period size: 71 Copynumber: 4.5 Consensus size: 72
231365016 GTTTTCCAAG
* * * * * * **
231365026 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGGCACGCTGAGGT-ATTTCAATTCCT
* **
231365091 GTTTCA--
65 ATTAAATT
* *
231365097 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTATTTCAATTCCTA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGGCACGCTGAGGTATTTCAATTCCTA
231365162 TTAAATCT
66 TTAAAT-T
* * * * * *
231365170 AAAATCAATTCATATTGCGAGAGGTGAGTT-AGCC-TCGGGCACAC-GAGGTATTTTTAATT-TT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGGCACGCTGAGGTA-TTTCAATTCCT
*
231365231 CATTTAATT
65 -ATTAAATT
* * *
231365240 ----TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGGCACGCTGAGGT-ATTTCAA-TTCC
231365301 GT-TGTAAA--
64 -TAT-TAAATT
*
231365309 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
231365345 CTGTTCACCT
Statistics
Matches: 200, Mismatches: 31, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
66 25 0.12
67 4 0.02
68 6 0.03
69 10 0.05
70 25 0.12
71 68 0.34
72 4 0.02
73 58 0.29
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGGCACGCTGAGGTATTTCAATTCCTA
TTAAATT
Found at i:231365345 original size:73 final size:71
Alignment explanation
Indices: 231365026--231365373 Score: 325
Period size: 73 Copynumber: 4.9 Consensus size: 71
231365016 GTTTTCCAAG
* * * **
231365026 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
*
231365091 GTTTCA
66 GTTTAA
* * ** *
231365097 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGT-ATTTCAA-TTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
231365160 -TATTAAA
66 GT-TT-AA
* * * * *
231365167 TCTAAAATCAATTCATATTGCGAGAGGTGAGTT-AGCCTC-GGGCACAC-GAGGTATTTTTAATT
1 ---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
231365229 TTCATTT--
63 TCCGTTTAA
**
231365236 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
231365301 GTTGTAAA
66 GTT-T-AA
** * ** *
231365309 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCTGTTCACCTGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA-C-GCTGAGGTAATTTCAATTT
231365374 TTGTTTTTAA
Statistics
Matches: 224, Mismatches: 36, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
66 27 0.12
67 6 0.03
68 7 0.03
69 21 0.09
70 14 0.06
71 56 0.25
72 9 0.04
73 65 0.29
74 1 0.00
75 18 0.08
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCC
GTTTAA
Found at i:231379791 original size:40 final size:40
Alignment explanation
Indices: 231379683--231379932 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
231379673 CGGGATTTAA
* * * * *
231379683 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
231379723 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231379763 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231379803 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231379843 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231379883 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231379923 CCGGATATAT
1 CCGGATATAT
231379933 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:231387949 original size:40 final size:40
Alignment explanation
Indices: 231387841--231388050 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
231387831 CGGGATTTAA
* * * * *
231387841 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
231387881 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231387921 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231387961 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231388001 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231388041 CCGGATATAT
1 CCGGATATAT
231388051 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:231392443 original size:40 final size:40
Alignment explanation
Indices: 231392369--231392509 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
231392359 CCGCACCAAG
* * * * * *
231392369 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
231392409 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
231392449 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
231392488 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
231392510 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:231402016 original size:40 final size:40
Alignment explanation
Indices: 231401908--231402117 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
231401898 CGGGATTTAA
* * * * *
231401908 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
231401948 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231401988 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231402028 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231402068 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231402108 CCGGATATAT
1 CCGGATATAT
231402118 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:231410149 original size:40 final size:40
Alignment explanation
Indices: 231410041--231410210 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
231410031 CGGGATTTAA
* * * * *
231410041 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
231410081 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231410121 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231410161 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
231410201 CCGGATATAT
1 CCGGATATAT
231410211 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:231417508 original size:5 final size:5
Alignment explanation
Indices: 231417498--231417529 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
231417488 TTGTGTGTTC
231417498 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
231417530 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:231417512 original size:9 final size:9
Alignment explanation
Indices: 231417498--231417528 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
231417488 TTGTGTGTTC
231417498 TTTATTTTA
1 TTTATTTTA
231417507 TTTATTTTA
1 TTTATTTTA
231417516 TTTTATTTTA
1 -TTTATTTTA
231417526 TTT
1 TTT
231417529 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:231426913 original size:93 final size:93
Alignment explanation
Indices: 231426801--231426972 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
231426791 GCCCATAAGT
* *
231426801 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
231426866 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
231426894 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
231426959 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
231426973 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:231426968 original size:46 final size:46
Alignment explanation
Indices: 231426793--231426968 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
231426783 TGTAACCCGC
* *
231426793 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
231426839 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
231426885 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
231426932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
231426969 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:231429369 original size:15 final size:15
Alignment explanation
Indices: 231429351--231429391 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
231429341 ACAAGAAAAC
231429351 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
231429366 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
231429381 GGATAAAGAAA
1 GAATAAAGAAA
231429392 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:231429400 original size:15 final size:15
Alignment explanation
Indices: 231429353--231429400 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
231429343 AAGAAAACGA
231429353 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
231429367 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
231429383 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
231429398 ATA
1 ATA
231429401 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:231432393 original size:93 final size:93
Alignment explanation
Indices: 231432281--231432452 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
231432271 GCCCATAAGT
* *
231432281 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
231432346 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
231432374 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
231432439 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
231432453 AAATATCCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:231432448 original size:46 final size:46
Alignment explanation
Indices: 231432273--231432448 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
231432263 TGTAACCCGC
* *
231432273 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
231432319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
231432365 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
231432412 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
231432449 TGCCAAATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:231434107 original size:23 final size:23
Alignment explanation
Indices: 231434071--231434214 Score: 167
Period size: 25 Copynumber: 6.4 Consensus size: 23
231434061 CTGGAGGCCT
*
231434071 AGCCTCTTTTAATAACTGGGCAAA
1 AGCC-CTTTTAATAACTGGGCATA
*
231434095 AGCCCTTTCAATAACTGGG-ATA
1 AGCCCTTTTAATAACTGGGCATA
231434117 AGCCC-TTT-ATAACTGGGCA-A
1 AGCCCTTTTAATAACTGGGCATA
231434137 AG--CTTTT-ATAACTGGGCATA
1 AGCCCTTTTAATAACTGGGCATA
*
231434157 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACT-GGGCATA
*
231434181 AGCCCTTTTTGATAACTGGGGCATA
1 AGCCC-TTTTAATAACT-GGGCATA
231434206 AGCCCTTTT
1 AGCCCTTTT
231434215 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
18 1 0.01
19 14 0.13
20 15 0.14
21 3 0.03
22 12 0.11
23 20 0.18
24 20 0.18
25 24 0.22
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGCATA
Found at i:231434289 original size:20 final size:20
Alignment explanation
Indices: 231434264--231434323 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
231434254 TATGATTACC
231434264 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
231434284 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
231434304 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
231434324 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:231434294 original size:11 final size:11
Alignment explanation
Indices: 231434264--231434318 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
231434254 TATGATTACC
231434264 TCATGTGCATA
1 TCATGTGCATA
*
231434275 TCA--TACATA
1 TCATGTGCATA
231434284 TCATGTGCATA
1 TCATGTGCATA
* *
231434295 TCA--TACATT
1 TCATGTGCATA
231434304 TCATGTGCATA
1 TCATGTGCATA
231434315 TCAT
1 TCAT
231434319 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:231434398 original size:25 final size:25
Alignment explanation
Indices: 231434366--231434413 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
231434356 ATACATAAAC
* * *
231434366 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
231434391 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
231434414 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:231441963 original size:38 final size:35
Alignment explanation
Indices: 231441904--231442021 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
231441894 TCAATCATGC
*
231441904 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
231441943 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
231441974 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
231442005 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
231442022 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:231441965 original size:31 final size:31
Alignment explanation
Indices: 231441927--231442021 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
231441917 CCTTTTCATA
*
231441927 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
231441958 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
231441989 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
231442020 TT
1 TT
231442022 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:231442264 original size:24 final size:24
Alignment explanation
Indices: 231442213--231442355 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
231442203 GCTTTATCAT
*
231442213 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
231442238 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
231442262 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
231442285 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
231442309 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
231442333 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
231442356 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:231442292 original size:47 final size:48
Alignment explanation
Indices: 231442213--231442354 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
231442203 GCTTTATCAT
* *
231442213 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
231442262 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
231442309 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
231442355 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:231442313 original size:71 final size:72
Alignment explanation
Indices: 231442212--231442355 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
231442202 TGCTTTATCA
*
231442212 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
231442277 GCCCTTT
66 GCCCTTT
* * **
231442284 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
231442347 AGCCCTTT
65 AGCCCTTT
231442355 T
1 T
231442356 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:231442431 original size:20 final size:20
Alignment explanation
Indices: 231442406--231442444 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
231442396 TATGATTACC
231442406 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
231442426 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
231442445 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:231442520 original size:25 final size:25
Alignment explanation
Indices: 231442488--231442535 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
231442478 ATACATAAAC
* * *
231442488 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
231442513 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
231442536 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:231444351 original size:40 final size:39
Alignment explanation
Indices: 231444306--231444513 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
231444296 CGGATTACAA
*
231444306 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
231444346 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
231444386 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
231444426 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
231444466 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
231444506 CCGGATAT
1 CCGGATAT
231444514 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:231444446 original size:80 final size:80
Alignment explanation
Indices: 231444306--231444513 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
231444296 CGGATTACAA
* * *
231444306 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
231444371 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
231444386 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
231444450 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
231444466 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
231444514 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:231452483 original size:40 final size:39
Alignment explanation
Indices: 231452438--231452645 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
231452428 CGGATTACAA
*
231452438 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
231452478 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
231452518 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
231452558 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
231452598 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
231452638 CCGGATAT
1 CCGGATAT
231452646 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:231452578 original size:80 final size:80
Alignment explanation
Indices: 231452438--231452645 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
231452428 CGGATTACAA
* * *
231452438 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
231452503 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
231452518 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
231452582 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
231452598 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
231452646 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:231457319 original size:29 final size:29
Alignment explanation
Indices: 231457286--231457417 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
231457276 GTGACGAGAT
*
231457286 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
231457315 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
231457344 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
231457373 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
231457402 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
231457418 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:231462168 original size:28 final size:28
Alignment explanation
Indices: 231462099--231462199 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
231462089 GACAAGATTG
* * * *
231462099 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
231462129 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
231462157 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
231462186 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
231462200 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:231470108 original size:28 final size:28
Alignment explanation
Indices: 231470039--231470139 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
231470029 GACAAGATTG
* * * *
231470039 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
231470069 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
231470097 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
231470126 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
231470140 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:231472479 original size:33 final size:35
Alignment explanation
Indices: 231472435--231472512 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 35
231472425 GCAGCAATAT
*
231472435 GGGCCTGAGCCCATTT-AGTAACAATAGCAGTC-A
1 GGGCCTAAGCCCATTTCAGTAACAATAGCAGTCTA
*
231472468 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCTA
1 GGGCCTAAGCCCATTTCAGTAACAATAGCAGTCTA
231472503 -GGCCTAAGCC
1 GGGCCTAAGCC
231472513 TATTAACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
33 15 0.37
34 25 0.61
35 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (35 bp):
GGGCCTAAGCCCATTTCAGTAACAATAGCAGTCTA
Found at i:231472497 original size:34 final size:34
Alignment explanation
Indices: 231472400--231472512 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 34
231472390 GGTAACTGTT
* * * * * *
231472400 AGGGCCTTAGCCCACTTCAATAATAGCAGCAAT-
1 AGGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
* *
231472433 ATGGGCCTGAGCCCATTT-AGTAACAATAGCAGTC
1 A-GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
231472467 AGGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
1 AGGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
231472501 TA-GGCCTAAGCC
1 -AGGGCCTAAGCC
231472513 TATTAACATA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
33 26 0.39
34 40 0.60
35 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (34 bp):
AGGGCCTAAGCCCATTTCAGTAACAGTAGCAGTC
Found at i:231475386 original size:18 final size:18
Alignment explanation
Indices: 231475365--231475411 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
231475355 GTTTTTTATC
*
231475365 GAAAACCTTATTT-TCATT
1 GAAAACCTTATTTAT-AAT
*
231475383 GAAAACCCTTCTTTATAAT
1 GAAAA-CCTTATTTATAAT
231475402 GAAAACCTTA
1 GAAAACCTTA
231475412 ATTACTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (18 bp):
GAAAACCTTATTTATAAT
Found at i:231479723 original size:48 final size:48
Alignment explanation
Indices: 231479649--231479832 Score: 212
Period size: 48 Copynumber: 3.8 Consensus size: 48
231479639 GCATAATAAG
* *
231479649 ATGCCAATGCCATATCCTAGATATGGTCTTACATGGGATCACATATCA
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCA
231479697 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGA
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC-A
* * * **
231479746 TGCTGATGCCAATGCCATGTCC-AAACATCGTCTTATC-TGGGATTACATATTG
1 -----ATGCCAATGCCATGTCCTAGACATGGTCTTA-CATGGGATCACATATCA
*
231479798 ATGCCAATGCCATGTCCCAGACAT-GTCTTACATGG
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGG
231479833 TGTAACACCC
Statistics
Matches: 119, Mismatches: 8, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
46 1 0.01
47 26 0.22
48 50 0.42
49 1 0.01
53 23 0.19
54 18 0.15
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCA
Found at i:231480945 original size:27 final size:27
Alignment explanation
Indices: 231480877--231480947 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
231480867 CGACTTGTAA
* *
231480877 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
231480904 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
231480931 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
231480948 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:231480954 original size:27 final size:27
Alignment explanation
Indices: 231480931--231481054 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
231480921 CAATTTACAG
231480931 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
231480958 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
231480985 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
231481012 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
231481039 AATTACTAAAATACCC
1 AATTACCAAAATACCC
231481055 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:231480973 original size:54 final size:53
Alignment explanation
Indices: 231480915--231481054 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
231480905 ATTACCGTTT
231480915 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
231480969 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
231481023 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
231481055 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:231481066 original size:81 final size:81
Alignment explanation
Indices: 231480931--231481083 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
231480921 CAATTTACAG
* **
231480931 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
231480996 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
231481012 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
231481075 AATACCCTT
64 AATACCCTT
231481084 GTGGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:231481067 original size:27 final size:27
Alignment explanation
Indices: 231481037--231481098 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
231481027 CATGGTTTGA
231481037 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
231481064 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
231481091 AAAATTAC
1 AAAATTAC
231481099 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:231481067 original size:54 final size:54
Alignment explanation
Indices: 231480931--231481081 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
231480921 CAATTTACAG
* ** * * *
231480931 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
231480985 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
231481039 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
231481082 TTGTGGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:231481752 original size:28 final size:28
Alignment explanation
Indices: 231481719--231481803 Score: 152
Period size: 28 Copynumber: 3.0 Consensus size: 28
231481709 GCGTAGATCA
231481719 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
231481747 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
231481775 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
231481803 C
1 C
231481804 AATATACCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:231485069 original size:27 final size:27
Alignment explanation
Indices: 231485037--231485163 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
231485027 TACTTCGATT
*
231485037 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACTAAAATACCCTTGGTTTA
* * *
231485064 TAAAATCACCAAAATACCCTTGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTA
* *
231485091 TAAAATTACTAAAATACCCTTTGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTA
*
231485118 TAAAATTACTAAAATACCCTTTGTTTGA
1 TAAAATTACTAAAATACCCTTGGTTT-A
231485146 -AAAATTACTAAAATACCC
1 TAAAATTACTAAAATACCC
231485164 CTGTAGGGTA
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (27 bp):
TAAAATTACTAAAATACCCTTGGTTTA
Found at i:231485124 original size:81 final size:81
Alignment explanation
Indices: 231485037--231485209 Score: 208
Period size: 81 Copynumber: 2.1 Consensus size: 81
231485027 TACTTCGATT
* **
231485037 TAAAATTACCAAAATACCCTTGGTTT-ATAAAATCACCAAAATACCCTTGGT-TTGTAAAATTAC
1 TAAAATTACCAAAATACCCTTGGTTTGA-AAAATCACCAAAATACCCCT-GTAGGGTAAAATTAC
**
231485100 TAAAATACCCTT-TGTTTG
64 TAAAATACCCTTGTG-GGG
* * * * *
231485118 TAAAATTACTAAAATACCCTTTGTTTGAAAAATTACTAAAATACCCCTGTAGGGTAAAATTACTG
1 TAAAATTACCAAAATACCCTTGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTA
231485183 AAATACCCTTGTGGGG
66 AAATACCCTTGTGGGG
231485199 TAAAATTACCA
1 TAAAATTACCA
231485210 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.03
81 73 0.94
82 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCTTGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTA
AAATACCCTTGTGGGG
Found at i:231485176 original size:27 final size:27
Alignment explanation
Indices: 231485037--231485207 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
231485027 TACTTCGATT
* * ***
231485037 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACTAAAATACCCTTTGTGGG
* * * **
231485064 TAAAATCACCAAAATACCCTTGGTTTG
1 TAAAATTACTAAAATACCCTTTGTGGG
**
231485091 TAAAATTACTAAAATACCCTTTGTTTG
1 TAAAATTACTAAAATACCCTTTGTGGG
**
231485118 TAAAATTACTAAAATACCCTTTGTTTG
1 TAAAATTACTAAAATACCCTTTGTGGG
* *
231485145 AAAAATTACTAAAATACCC-CTGTAGGG
1 TAAAATTACTAAAATACCCTTTGT-GGG
*
231485172 TAAAATTACTGAAATACCC-TTGTGGGG
1 TAAAATTACTAAAATACCCTTTGT-GGG
231485199 TAAAATTAC
1 TAAAATTAC
231485208 CATTTTGCCC
Statistics
Matches: 130, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 3 0.02
27 127 0.98
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TAAAATTACTAAAATACCCTTTGTGGG
Found at i:231485861 original size:28 final size:28
Alignment explanation
Indices: 231485828--231485912 Score: 152
Period size: 28 Copynumber: 3.0 Consensus size: 28
231485818 GCGTAGATCA
231485828 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
231485856 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
231485884 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
231485912 C
1 C
231485913 AATATACCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:231495749 original size:47 final size:47
Alignment explanation
Indices: 231495607--231495905 Score: 180
Period size: 47 Copynumber: 6.3 Consensus size: 47
231495597 TCTAAGACAA
* * * * * *
231495607 GTCTGGGACAT-GCATAGGCCACA-TTATGAGAGCCAGAGTAAAACAT
1 GTCTGGGACATGGCATCGGCCTCAGATATGA-AGCCAGTGTAAGACCT
* * * * * *
231495653 GTTTGGGACCT-GCATCGGCAT-TGAGATGAGAGCCAGTGTAAGACAT
1 GTCTGGGACATGGCATCGGCCTCAGATATGA-AGCCAGTGTAAGACCT
*
231495699 GTCTGGGACAT-GCATCGGCCTCAGATATGCAAGCCAGTGTAAGAGCT
1 GTCTGGGACATGGCATCGGCCTCAGATATG-AAGCCAGTGTAAGACCT
* * * ** * *
231495746 GTCTAGGACATGGCATCGACCTCGATATATGAAAGTTAATGGAAGACCT
1 GTCTGGGACATGGCATCGGCCTC-AGATATG-AAGCCAGTGTAAGACCT
* * * * * *
231495795 GTCTGGGACATGGCAT-TGACTTAGATGTGTGAGCCAATGTAAGACCT
1 GTCTGGGACATGGCATCGGCCTCAGATATG-AAGCCAGTGTAAGACCT
** * * *
231495842 GTCTGGGACATGGCATCAACAT-AGATGTGTGAGCCAGTGTAAGACCAT
1 GTCTGGGACATGGCATCGGCCTCAGATATG-AAGCCAGTGTAAGACC-T
* *
231495890 GTTTGGAACATGGCAT
1 GTCTGGGACATGGCAT
231495906 TGGCATCGTA
Statistics
Matches: 201, Mismatches: 45, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
46 53 0.26
47 86 0.43
48 29 0.14
49 33 0.16
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GTCTGGGACATGGCATCGGCCTCAGATATGAAGCCAGTGTAAGACCT
Found at i:231495804 original size:49 final size:48
Alignment explanation
Indices: 231495678--231495905 Score: 185
Period size: 47 Copynumber: 4.8 Consensus size: 48
231495668 CGGCATTGAG
* * * *
231495678 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTC-AGAT
1 ATGA-AGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAT
* * *
231495725 ATGCAAGCCAGTGTAAGAGCTGTCTAGGACATGGCATCGACCTCGATAT
1 ATG-AAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAT
** * * * * *
231495774 ATGAAAGTTAATGGAAGACCTGTCTGGGACATGGCATTGACTTAGATGT
1 ATG-AAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAT
* * * * *
231495823 GTG-AGCCAATGTAAGACCTGTCTGGGACATGGCATCAACATAGATGT
1 ATGAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAT
* * * *
231495870 GTG-AGCCAGTGTAAGACCATGTTTGGAACATGGCAT
1 ATGAAGCCAATGTAAGACC-TGTCTGGGACATGGCAT
231495906 TGGCATCGTA
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
47 82 0.54
48 26 0.17
49 43 0.28
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
ATGAAGCCAATGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAT
Found at i:231505502 original size:40 final size:40
Alignment explanation
Indices: 231505436--231505602 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
231505426 AAATTGAATG
* * *
231505436 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
231505475 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
231505515 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
231505555 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
231505595 ATATCCGG
1 ATATCCGG
231505603 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:231509590 original size:29 final size:29
Alignment explanation
Indices: 231509557--231509630 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
231509547 GTGACGAGAT
231509557 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
231509586 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
231509615 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
231509631 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:231509646 original size:29 final size:29
Alignment explanation
Indices: 231509614--231509689 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
231509604 CTGGAAATAT
* *
231509614 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
231509643 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
231509672 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
231509690 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:231509657 original size:58 final size:58
Alignment explanation
Indices: 231509557--231509689 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
231509547 GTGACGAGAT
* * * * * *
231509557 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
231509615 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
231509673 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
231509690 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:231517472 original size:29 final size:29
Alignment explanation
Indices: 231517439--231517512 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
231517429 GTGACGAGAT
231517439 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
231517468 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
231517497 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
231517513 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:231517528 original size:29 final size:29
Alignment explanation
Indices: 231517496--231517571 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
231517486 CTGGAAATAT
* *
231517496 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
231517525 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
231517554 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
231517572 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:231517539 original size:58 final size:58
Alignment explanation
Indices: 231517439--231517571 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
231517429 GTGACGAGAT
* * * * * *
231517439 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
231517497 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
231517555 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
231517572 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:231520142 original size:16 final size:18
Alignment explanation
Indices: 231520121--231520153 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
231520111 CATACTAGCT
231520121 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
231520137 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
231520154 GTGACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:231522021 original size:40 final size:40
Alignment explanation
Indices: 231521928--231522145 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
231521918 AAGCCAAGTA
* * *
231521928 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
231521966 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
231522006 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
231522046 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
231522086 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
231522127 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
231522146 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:231530099 original size:39 final size:39
Alignment explanation
Indices: 231530038--231530253 Score: 278
Period size: 39 Copynumber: 5.5 Consensus size: 39
231530028 AAGCCAAGTA
* * *
231530038 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATG
*
231530076 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
231530115 CCTTCGGGACTTAGCCCGGATATA-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
231530154 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
231530194 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAATG
231530235 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
231530254 TTATCATCCA
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
38 22 0.14
39 71 0.44
40 41 0.25
41 23 0.14
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
Found at i:231538171 original size:39 final size:39
Alignment explanation
Indices: 231538110--231538324 Score: 251
Period size: 40 Copynumber: 5.5 Consensus size: 39
231538100 AAGCCAAGTA
* * *
231538110 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATG
* *
231538148 CCTTCGGGACATAGCCCGGATATAGTAACTCAC-CAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
*
231538186 CCTTCGGGACTTAGCCCGGATA-AGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
231538225 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
231538265 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAATG
231538306 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
231538325 TTATCATCCA
Statistics
Matches: 157, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
37 10 0.06
38 39 0.25
39 40 0.25
40 41 0.26
41 23 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
Found at i:231538240 original size:77 final size:79
Alignment explanation
Indices: 231538144--231538324 Score: 244
Period size: 77 Copynumber: 2.3 Consensus size: 79
231538134 CTACTCGCTC
* * *
231538144 AATGCCTTCGGGACATAGCCCGGATATAGTAACT-CACCAATGCCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCCACAAATGCCTTCGGGACTTAGCCCGGA-A
231538208 -AGTAACT--CACACA
65 CAGTAACTAGCACA-A
*
231538221 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTC-CACAAATGCCTTCGGGACTTAGCCCGGAA
* *
231538286 CTAGTCACTAGCGCAA
65 C-AGTAACTAGCACAA
231538302 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
231538325 TTATCATCCA
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
77 31 0.34
78 1 0.01
79 27 0.29
80 6 0.07
81 24 0.26
82 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCCACAAATGCCTTCGGGACTTAGCCCGGAAC
AGTAACTAGCACAA
Found at i:231540236 original size:42 final size:44
Alignment explanation
Indices: 231540189--231540376 Score: 186
Period size: 45 Copynumber: 4.3 Consensus size: 44
231540179 TCAGCATTTC
* * *
231540189 GCCTGCTATGCTTGAA-GCCC-ATA-TCATTTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGGCCCAATAGT-ATTTCACCGGCATTATA
* *
231540231 GCCTGCTAGGCTCGAAGGCCCGAATAGTATTTCACTGGCATTGTA
1 GCCTGCTAGGCTCGAAGGCCC-AATAGTATTTCACCGGCATTATA
* * * * *
231540276 GCCTGCTAGGCTCAAAGGCCCAAATAGCATCTCACTGGCATCATA
1 GCCTGCTAGGCTCGAAGGCCC-AATAGTATTTCACCGGCATTATA
* * * * *
231540321 GCCTGCTAGGATCAAAGGCCGAATAGT-TTTCACCAGCATTGTA
1 GCCTGCTAGGCTCGAAGGCCCAATAGTATTTCACCGGCATTATA
231540364 GCCTGCTAGGCTC
1 GCCTGCTAGGCTC
231540377 AAAGCCCGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
42 14 0.11
43 27 0.22
44 5 0.04
45 75 0.61
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAGGCCCAATAGTATTTCACCGGCATTATA
Found at i:231540278 original size:45 final size:45
Alignment explanation
Indices: 231540214--231540388 Score: 221
Period size: 45 Copynumber: 4.0 Consensus size: 45
231540204 AGCCCATATC
* *
231540214 ATTTCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
* * * *
231540259 ATTTCACTGGCATTGTAGCCTGCTAGGCTCAAAGGCCCAAATAGC
1 ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
* * * *
231540304 ATCTCACTGGCATCATAGCCTGCTAGGATCAAAGG-CCGAATAGT
1 ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
* *
231540348 -TTTCACCAGCATTGTAGCCTGCTAGGCTCAAA-GCCCGAATA
1 ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
231540389 TTACTAGACG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 33 0.30
44 7 0.06
45 70 0.63
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
ATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
Found at i:231543014 original size:3 final size:3
Alignment explanation
Indices: 231542990--231543543 Score: 176
Period size: 3 Copynumber: 179.7 Consensus size: 3
231542980 AAGTACCTAT
*
231542990 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
231543037 TAA TAA TAA TAA TAA TAA TAA CAA CAA TAA TAG CAA TAA TAG TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
231543085 TACA AAA GAA -AG T-A TAA CGTAA TAA TGAGG TAA GGAA -AA TAA -AA
1 TA-A TAA TAA TAA TAA TAA --TAA TAA T-A-A TAA -TAA TAA TAA TAA
* * **
231543129 T-A TAA T-A TAT TAGA TATA TAA -ATA TAA TAG TAA -ATA TAA TAA TGT
1 TAA TAA TAA TAA TA-A TA-A TAA TA-A TAA TAA TAA TA-A TAA TAA TAA
231543174 TAA -AA -AA TACCA TACA TAA -AGA GT-A TATA TAA -ACA TAGA TAA TAA
1 TAA TAA TAA TA--A TA-A TAA TA-A -TAA TA-A TAA TA-A TA-A TAA TAA
* * * * *
231543219 AAA T-A TACA CTAA TAT TTA TAAA TAA TAA TAG TAA -ATG TAA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
231543266 TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA
*
231543313 TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA T-A TAGA -AA TTCAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA TAA
* *
231543360 -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA CTAA
1 TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA
* * *
231543403 TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
231543449 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA
* * *
231543494 TATG TACA TAA TAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA
1 TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
231543542 TA
1 TA
231543544 TAGAATTTCA
Statistics
Matches: 411, Mismatches: 73, Indels: 134
0.67 0.12 0.22
Matches are distributed among these distances:
2 42 0.10
3 291 0.71
4 65 0.16
5 13 0.03
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:231543602 original size:16 final size:16
Alignment explanation
Indices: 231543569--231543601 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
231543559 AACTAAACAT
*
231543569 AATATAATAATATTAA
1 AATAAAATAATATTAA
231543585 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
231543600 AA
1 AA
231543602 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:231545666 original size:52 final size:50
Alignment explanation
Indices: 231545584--231545689 Score: 149
Period size: 52 Copynumber: 2.1 Consensus size: 50
231545574 AAAGTAGAAA
* *
231545584 TTGAAAATACCTCAGCGTGCCCTGACGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAATACCTCAGCGCGCCCTGACGCTCAACTCACCTCTCGC-A-ATGAG
* * *
231545636 TTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATGAG
1 TTGAAAATACCTCAGCGCGCCCTGACGCTCAACTCACCTCTCGCAATGAG
231545686 TTGA
1 TTGA
231545690 TTTTTTGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
50 9 0.18
51 1 0.02
52 39 0.80
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (50 bp):
TTGAAAATACCTCAGCGCGCCCTGACGCTCAACTCACCTCTCGCAATGAG
Found at i:231545753 original size:72 final size:72
Alignment explanation
Indices: 231545636--231546841 Score: 787
Period size: 72 Copynumber: 15.9 Consensus size: 72
231545626 GCAATATGAG
* * * **
231545636 TTGAAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTGAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTGAA
231545699 AGACA-AAA
65 A-ACAGAAA
*
231545707 TTTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG
1 -TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTG
*
231545772 AAAACAAAAA
63 AAAACAGAAA
* * *
231545782 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231545846 ACATAAA
66 ACAGAAA
* ** * * ** * * * * * *
231545853 TTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATG
1 TT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCTCGCAATATG
* *
231545917 AGTTGATTTTTTTTTTTAAAAATAGAAA
51 AGTTGA------TTTTTGAAAACAGAAA
* * * ** * *
231545945 TTGAAAATACCTCAGCATGTGAAC-CGAGGGTCAACTCACCTCTCTCAATAGGAGTTGATTTTTG
1 TTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
*
231546009 AAAACATAAA
63 AAAACAGAAA
* * * *
231546019 TTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
231546084 ACAGAAA
66 ACAGAAA
* * ** *
231546091 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTT
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-------TT
231546156 TTTGAAAAACAGAAA
59 TTTG-AAAACAGAAA
* * * * * *
231546171 TTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGAAATCTAAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231546236 ACAAAAA
66 ACAGAAA
* * * *
231546243 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATTTTG-AA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231546307 ACATAAA
66 ACAGAAA
* ** * * ** * * * * * *
231546314 TTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCATTATG
1 TT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G--CTCA-ACTC-A-T---TTCTCGCAATATG
* *
231546378 AGTTAATTTTTTTTTTTGAAAGATAGAAA
51 AGTTGA------TTTTTGAAA-ACAGAAA
* * ** *
231546407 TTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 TTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG
*
231546471 AAAACATAAA
63 AAAACAGAAA
* * * *
231546481 TTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231546546 ACAAAAA
66 ACAGAAA
* ** *
231546553 TT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTT
1 TTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-------T
231546617 TTTTGAAAAACAGAAA
58 TTTTG-AAAACAGAAA
* * * *
231546633 TTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCTCAATCTGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231546698 ACAAAAA
66 ACAGAAA
* ** * *
231546705 TTGAAATTACCTCAATGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
*
231546770 ATAGAAA
66 ACAGAAA
* * * *
231546777 -TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAA
1 TTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAA
231546841 A
65 A
231546842 GTAGAAATAA
Statistics
Matches: 888, Mismatches: 170, Indels: 152
0.73 0.14 0.13
Matches are distributed among these distances:
71 30 0.03
72 415 0.47
73 19 0.02
74 119 0.13
75 28 0.03
76 4 0.00
77 2 0.00
78 2 0.00
79 14 0.02
80 131 0.15
81 22 0.02
82 2 0.00
84 1 0.00
85 36 0.04
86 4 0.00
87 4 0.00
88 1 0.00
89 7 0.01
90 12 0.01
91 16 0.02
92 12 0.01
93 7 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (72 bp):
TTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA
ACAGAAA
Found at i:231546131 original size:224 final size:223
Alignment explanation
Indices: 231545874--231546837 Score: 1270
Period size: 224 Copynumber: 4.2 Consensus size: 223
231545864 AAATTGCCAA
* * *
231545874 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTT-AAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAA
* * *
231545938 ATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGGTCAACTCACCTCTCTCAATAGGAGTTG
66 ACAGAAATTGAAAATACCTCAGCATGT---CTCGAGGCTCAACTCACCTCTCTCAATATGAGTTG
* *
231546002 ATTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATA
128 AATTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATA
*
231546067 TGAGTTGAATTTTGAAAACAGAAATTGAAAT
193 TGAGTTGAATTTTGAAAACAGAAATTAAAAT
*
231546098 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTTGAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTTTGAAA
* * ** ** * *
231546163 AACAGAAATTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGAAATCTAAGTTGAA
65 AACAGAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCTCAATATGAGTTGAA
* * * *
231546228 TTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATG
130 TTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATG
*
231546293 AGTTGAATTTTG-AAACATAAATTAAGAAACAAAAATT
195 AGTTGAATTTTGAAAACAGAAATT--------AAAA-T
* * *
231546330 GCCAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTTTTT
1 -----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTT
* * *
231546395 GAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCACAATATG
61 GAAAAACAGAAATTGAAAATACCTCAGCATGT---CTCGAGGCTCAACTCACCTCTCTCAATATG
* *
231546459 AGTTGATTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCG
123 AGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCG
*
231546524 CAATATGAGTTGAATTTTGAAAACAAAAATTAAAAT
188 CAATATGAGTTGAATTTTGAAAACAGAAATTAAAAT
*
231546560 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTTGAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTTTGAAA
* ** *
231546625 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCTCAATCTGAGTTGAA
65 AACAGAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCTCAATATGAGTTGAA
* * *
231546690 TTTTGAAAACAAAAATTGAAATTACCTCAATGTGTCTTGAGGTTCAACTCATTTCTCGCAATATG
130 TTTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATG
* *
231546755 AGTTGAATTTTGAAAATAGAAATAAAAAT
195 AGTTGAATTTTGAAAACAGAAATTAAAAT
* * ** * *
231546784 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
231546838 GAAAGTAGAA
Statistics
Matches: 647, Mismatches: 70, Indels: 47
0.85 0.09 0.06
Matches are distributed among these distances:
223 16 0.02
224 301 0.47
225 56 0.09
226 70 0.11
230 1 0.00
231 7 0.01
232 1 0.00
236 40 0.06
237 45 0.07
238 99 0.15
239 11 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (223 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAA
ACAGAAATTGAAAATACCTCAGCATGTCTCGAGGCTCAACTCACCTCTCTCAATATGAGTTGAAT
TTTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGA
GTTGAATTTTGAAAACAGAAATTAAAAT
Found at i:231546568 original size:462 final size:461
Alignment explanation
Indices: 231545639--231546769 Score: 1983
Period size: 462 Copynumber: 2.5 Consensus size: 461
231545629 ATATGAGTTG
* *
231545639 AAATTACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGA------TTTTTT
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
* *
231545696 GAAAGACA-AAATTTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 GAAAAACAGAAA-TTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAG
*
231545760 TTGATTTTTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
130 TTGA--ATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
231545825 CAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
193 CAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCC
*
231545890 GAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTTAAAAATAGAAATTGAAAATAC
258 GAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTTTTTAAAAATAGAAATTGAAAATAC
* *
231545955 CTCAGCATGTGAACCGAGGGTCAACTCACCTCTCTCAATAGGAGTTGATTTTTGAAAACATAAAT
323 CTCAGCATGTGAACCGAGGCTCAACTCACCTCTCACAATAGGAGTTGATTTTTGAAAACATAAAT
231546020 TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAA
388 TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAA
* *
231546085 CAGAAATTG
453 CAAAAATTA
231546094 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
* * *
231546159 GAAAAACAGAAATTGAAAATACCTCATCATGTCTTGAGGCTCAACTCATTTCTCGAAATCTAAGT
66 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
*
231546224 TGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAA
131 TGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
*
231546289 TATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCTGAG
196 TATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAG
*
231546354 GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTTTTTGAAAGATAGAAATTGAAAATACCT
261 GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTTTTT-AAAAATAGAAATTGAAAATACCT
*
231546419 CAGCATGTGAACCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACATAAATTG
325 CAGCATGTGAACCGAGGCTCAACTCACCTCTCACAATAGGAGTTGATTTTTGAAAACATAAATTG
231546484 AAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACA
390 AAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACA
231546549 AAAATTA
455 AAAATTA
231546556 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
1 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
*
231546621 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCTCAATCTGAGT
66 GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
* *
231546686 TGAATTTTGAAAACAAAAATTGAAATTACCTCAATGTGTCTTGAGGTTCAACTCATTTCTCGCAA
131 TGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
231546751 TATGAGTTGAATTTTGAAA
196 TATGAGTTGAATTTTGAAA
231546770 ATAGAAATAA
Statistics
Matches: 642, Mismatches: 24, Indels: 13
0.95 0.04 0.02
Matches are distributed among these distances:
455 40 0.06
456 1 0.00
457 8 0.01
461 164 0.26
462 361 0.56
463 65 0.10
464 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (461 bp):
AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTTTTT
GAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGT
TGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
TATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAG
GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTTTTTAAAAATAGAAATTGAAAATACCTC
AGCATGTGAACCGAGGCTCAACTCACCTCTCACAATAGGAGTTGATTTTTGAAAACATAAATTGA
AAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACAA
AAATTA
Found at i:231559166 original size:3 final size:3
Alignment explanation
Indices: 231559142--231559681 Score: 148
Period size: 3 Copynumber: 174.7 Consensus size: 3
231559132 AAGTACCTAT
*
231559142 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * *
231559189 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG CAA TAA TAG TAA AAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * *
231559238 AAA GAA -AG T-A TGACG TAA TAA TGAGG TAA GGAA -AA TAA -AA T-A
1 TAA TAA TAA TAA T-A-A TAA TAA T-A-A TAA -TAA TAA TAA TAA TAA
* * **
231559280 TAA T-A TAT TAGA TATA TAA -ATA TAA TAG TAA -ATA TAA TAA TGT TAA
1 TAA TAA TAA TA-A TA-A TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
*
231559326 -AA -AA TACCA TACA TAA -AGA GT-A TATA TAA -ACA TATA TAA TAA AAA
1 TAA TAA TA--A TA-A TAA TA-A -TAA TA-A TAA TA-A TA-A TAA TAA TAA
* * * *
231559371 T-A TACA CTAA TAT TTA TAAA TAA TAA TAG TAA -ATG TAA TAA TAA TAA
1 TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * * *
231559418 TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA
*
231559465 TAA GTAA CAA TAA TAA TAA TAA TAA TATA TAGA -AA TTCAA -AA -AA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA -T-AA TAA TAA
* * *
231559509 GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA CTAA TAT
1 -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA
* *
231559553 TTA TAAA TAA TAA TAG TAA -ATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
231559599 TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TAA GTACA TAA CAG
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA -TA-A TAA TAA
*
231559646 TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
231559682 TAGAAATTAA
Statistics
Matches: 397, Mismatches: 73, Indels: 134
0.66 0.12 0.22
Matches are distributed among these distances:
2 42 0.11
3 275 0.69
4 68 0.17
5 12 0.03
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:231559586 original size:190 final size:187
Alignment explanation
Indices: 231559389--231559728 Score: 583
Period size: 190 Copynumber: 1.8 Consensus size: 187
231559379 AATATTTATA
* * *
231559389 AATAATAATAGTAA-ATGTAATAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAA
1 AATAATAATAATAATA-ATAATAATAATAATAATATTAAGTATAGTATAAATAATAAGTACATAA
* *
231559453 CAGTAATAATAATAAGTAACAATAATAATAATAATAATATATAGAAATTCAAAAAAGTAAACATA
65 CAGTAATAATAATAAGTAACAATAATAATAATAAT-A-ATATAGAAATTAAAAAAACTAAACATA
*
231559518 ATATAATGATATTAAAATAAAATATACACTAATATTTATAAATAATAATAGTAAATATAAT
128 ATATAATAATATTAAAA-AAAATATACACTAATATTTATAAATAATAATAGTAAATATAAT
231559579 AATAATAATAATAATAATAATAATAATAATAATATTAAGTATAGTATAAATAATAAGTACATAAC
1 AATAATAATAATAATAATAATAATAATAATAATATTAAGTATAGTATAAATAATAAGTACATAAC
231559644 AGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTAAAAAAACTAAACATAATA
66 AGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTAAAAAAACTAAACATAATA
231559709 TAATAATATTAAAAAAAATA
131 TAATAATATTAAAAAAAATA
231559729 ATTTAAAAAA
Statistics
Matches: 143, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
187 6 0.04
188 41 0.29
189 1 0.01
190 94 0.66
191 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (187 bp):
AATAATAATAATAATAATAATAATAATAATAATATTAAGTATAGTATAAATAATAAGTACATAAC
AGTAATAATAATAAGTAACAATAATAATAATAATAATATAGAAATTAAAAAAACTAAACATAATA
TAATAATATTAAAAAAAATATACACTAATATTTATAAATAATAATAGTAAATATAAT
Found at i:231560958 original size:19 final size:19
Alignment explanation
Indices: 231560934--231560972 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
231560924 TTATGGGTTT
*
231560934 TAATGTGAATGGGCCCAAA
1 TAATGTGAATGGGCCAAAA
231560953 TAATGTGAATGGGCCAAAA
1 TAATGTGAATGGGCCAAAA
231560972 T
1 T
231560973 TGGCCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (19 bp):
TAATGTGAATGGGCCAAAA
Found at i:231564371 original size:39 final size:38
Alignment explanation
Indices: 231564288--231564384 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
231564278 TGAAACCAAT
*
231564288 TACCAGCACAAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
231564326 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-CATAA
*
231564365 TTCCAGCACATAGCCTGCGG
1 TACCAGCACA-AGCCTGCGG
231564385 ACCTTAAGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
38 15 0.31
39 34 0.69
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.20
Consensus pattern (38 bp):
TACCAGCACAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:231564408 original size:39 final size:39
Alignment explanation
Indices: 231564365--231564441 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
231564355 CCGGACATAT
*
231564365 TTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
*
231564404 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATA
231564442 CATCACTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCAGATATAA
Found at i:231572225 original size:39 final size:40
Alignment explanation
Indices: 231572130--231572282 Score: 111
Period size: 39 Copynumber: 3.9 Consensus size: 40
231572120 ACTTGAAACC
** * *
231572130 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* ** *
231572169 AATACCAGTTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
231572208 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
231572247 AATTCCAGCATATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
231572283 TATACATCAC
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 16 0.18
39 75 0.82
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:231572283 original size:39 final size:39
Alignment explanation
Indices: 231572200--231572286 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
231572190 GGACTTTAGC
* * * *
231572200 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
231572239 CCGGATATAATTCCAGCATATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
231572278 CCGGATATA
1 CCGGATATA
231572287 CATCACTGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:231574257 original size:28 final size:27
Alignment explanation
Indices: 231574233--231574314 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
231574223 AGTCACCAAT
231574233 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
* *
231574261 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
231574288 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
231574315 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:231574273 original size:55 final size:55
Alignment explanation
Indices: 231574201--231574314 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
231574191 AGCATGGCTG
* *
231574201 CCAGATACAGAAAATGTGACAGAGTCACCA-ATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGAAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
231574256 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGA-AAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
231574311 CCAG
1 CCAG
231574315 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.12
55 44 0.86
56 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGATACAGAAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Done.