Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 197 of 373
Found at i:66308684 original size:22 final size:22
Alignment explanation
Indices: 66308642--66308686 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
66308632 CTCTGGAGGT
66308642 ACCATGGATGTTAGCATTCTCC
1 ACCATGGATGTTAGCATTCTCC
66308664 ACCAGTGGTATGTT-GCATCTCTC
1 ACCA-TGG-ATGTTAGCAT-TCTC
66308687 AATAAGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (22 bp):
ACCATGGATGTTAGCATTCTCC
Found at i:66308862 original size:37 final size:37
Alignment explanation
Indices: 66308812--66308887 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
66308802 CCCTAAATTC
66308812 CTCAGCACCTTGATTTCGAATTTTATCGACTGGTGTT
1 CTCAGCACCTTGATTTCGAATTTTATCGACTGGTGTT
*
66308849 CTCAGCACCTTGATTTTGAATTTTATCGACTGGTGTT
1 CTCAGCACCTTGATTTCGAATTTTATCGACTGGTGTT
66308886 CT
1 CT
66308888 AGAGAATCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (37 bp):
CTCAGCACCTTGATTTCGAATTTTATCGACTGGTGTT
Found at i:66313364 original size:22 final size:23
Alignment explanation
Indices: 66313330--66313375 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
66313320 ATAGAGCTGA
66313330 AACTTCCTTGAAGGTTCT-CAGC
1 AACTTCCTTGAAGGTTCTCCAGC
66313352 AACTT-CTTGGAAGGTTCTCCAGC
1 AACTTCCTT-GAAGGTTCTCCAGC
66313375 A
1 A
66313376 TTGGTGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (23 bp):
AACTTCCTTGAAGGTTCTCCAGC
Found at i:66317511 original size:48 final size:46
Alignment explanation
Indices: 66317422--66317635 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 46
66317412 TGCATGAGCT
* * *
66317422 AGTGTAAGACATGTTTAGGACATGCATCGGCCA-C-ATTATGAGAACC
1 AGTGTAAGACATGTTTGGGATATGCATCGG-CATCGA-GATGAGAACC
* ** *
66317468 AGTGTAAGACCATGTTTGGGATATGACATCGGCATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTTTGGGATATG-CATCGGCATCGAGATGAGAACC
* * *
66317516 AGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGACGTA-AACC
1 AGTGTAAGACATGTTTGGGATATGCATCGGCATCGAGATG-AGAACC
* * * *
66317562 AGTGTAAGACATGTTTGGGACATGCATTGGC-TACGAGATGTG--TC
1 AGTGTAAGACATGTTTGGGATATGCATCGGCAT-CGAGATGAGAACC
* *
66317606 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTTTGGGATAT-GCATC
66317636 AGTACAGATA
Statistics
Matches: 137, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 61 0.45
47 30 0.22
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGATATGCATCGGCATCGAGATGAGAACC
Found at i:66318797 original size:20 final size:21
Alignment explanation
Indices: 66318758--66318797 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66318748 AAATTAATGG
*
66318758 CTACACGGGCATGTTGCCCTT
1 CTACACGAGCATGTTGCCCTT
66318779 CTACACGAGCATG-TGCCCT
1 CTACACGAGCATGTTGCCCT
66318798 GTTCTAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (21 bp):
CTACACGAGCATGTTGCCCTT
Found at i:66320396 original size:16 final size:16
Alignment explanation
Indices: 66320375--66320410 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66320365 CCTAGCCAAA
66320375 ATTTTGACTTTTCGGC
1 ATTTTGACTTTTCGGC
*
66320391 ATTTTGGCTTTTCGGC
1 ATTTTGACTTTTCGGC
66320407 ATTT
1 ATTT
66320411 CGGCTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (16 bp):
ATTTTGACTTTTCGGC
Found at i:66320415 original size:16 final size:16
Alignment explanation
Indices: 66320382--66320418 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
66320372 AAAATTTTGA
*
66320382 CTTTTCGGCATTTTGG
1 CTTTTCGGCATTTCGG
66320398 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
66320414 CTTTT
1 CTTTT
66320419 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGG
Found at i:66327416 original size:46 final size:44
Alignment explanation
Indices: 66327349--66327468 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 44
66327339 TGCGTGAGCT
66327349 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT--GCC
* * *
66327395 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCC
*
66327439 AGTGTAAGACCATGCCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
66327469 AGCACAGATA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.17
45 14 0.21
46 41 0.62
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCC
Found at i:66328065 original size:20 final size:21
Alignment explanation
Indices: 66328026--66328065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66328016 GAATTAATGG
66328026 CTACACGGGCATGTTGCCCTT
1 CTACACGGGCATGTTGCCCTT
*
66328047 CTACACGGGCGTG-TGCCCT
1 CTACACGGGCATGTTGCCCT
66328066 GTTCTAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
CTACACGGGCATGTTGCCCTT
Found at i:66332282 original size:49 final size:49
Alignment explanation
Indices: 66332216--66332436 Score: 219
Period size: 49 Copynumber: 4.7 Consensus size: 49
66332206 AGGCTATCTA
* *
66332216 GTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * * *
66332265 GTACACGTAGTAGCCTGCACTTTGTACTACACACGTGACC---TA----
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * * * *
66332307 --AC-CATCGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG
* *
66332355 GTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* *
66332404 GTACACGTAGTAGCCTGTACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
66332437 CGTGACCTCA
Statistics
Matches: 140, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
39 30 0.21
40 3 0.02
44 2 0.01
46 2 0.01
49 69 0.49
50 5 0.04
51 29 0.21
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
Found at i:66336791 original size:9 final size:9
Alignment explanation
Indices: 66336779--66336974 Score: 73
Period size: 10 Copynumber: 20.8 Consensus size: 9
66336769 TTTTATGATT
66336779 TTTTTATAA
1 TTTTTATAA
66336788 TTTTTATAA
1 TTTTTATAA
*
66336797 GTTTATATCAA
1 -TTTTTAT-AA
*
66336808 TTTTAAT-A
1 TTTTTATAA
66336816 TTTTTATAA
1 TTTTTATAA
*
66336825 TTTTTTAAGAA
1 -TTTTT-ATAA
* *
66336836 TTTTAATACG
1 TTTTTATA-A
66336846 TTTTT-TAA
1 TTTTTATAA
*
66336854 TTTTAAATAA
1 TTTT-TATAA
*
66336864 GTTTTATTAA
1 TTTTTA-TAA
66336874 -TTTTATACA
1 TTTTTATA-A
66336883 TTTTTCATAA
1 TTTTT-ATAA
* *
66336893 TTAATTCT-A
1 TT-TTTATAA
*
66336902 TTTGATT-TGA
1 TTT--TTATAA
66336912 TTTTTGAT-A
1 TTTTT-ATAA
66336921 TTTTTATAA
1 TTTTTATAA
*
66336930 GTTTTAATAA
1 -TTTTTATAA
66336940 -TTTTATAAA
1 TTTTTAT-AA
*
66336949 TTTATATCAA
1 TTTTTAT-AA
* *
66336959 TTTTAATAT
1 TTTTTATAA
66336968 TTTTTAT
1 TTTTTAT
66336975 TCTTTGATTA
Statistics
Matches: 141, Mismatches: 24, Indels: 44
0.67 0.11 0.21
Matches are distributed among these distances:
8 22 0.16
9 41 0.29
10 68 0.48
11 10 0.07
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:66336837 original size:28 final size:28
Alignment explanation
Indices: 66336787--66336886 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
66336777 TTTTTTTATA
* *
66336787 ATTTTTATAAGTTTATATCAATTTTAAT
1 ATTTTTATAATTTTATAACAATTTTAAT
* *
66336815 ATTTTTATAATTTTTTAAGAATTTTAAT
1 ATTTTTATAATTTTATAACAATTTTAAT
* *
66336843 ACGTTTTT-TAATTTTA-AATAAGTTTTATT
1 A--TTTTTATAATTTTATAACAA-TTTTAAT
*
66336872 AATTTTATACATTTT
1 ATTTTTATA-ATTTT
66336887 TCATAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
27 4 0.07
28 31 0.53
29 19 0.32
30 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTTTTATAATTTTATAACAATTTTAAT
Found at i:66336838 original size:20 final size:19
Alignment explanation
Indices: 66336779--66336840 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
66336769 TTTTATGATT
66336779 TTTTTATAATTTTTATAAG-
1 TTTTTATAATTTTT-TAAGA
* *
66336798 TTTATATCAA--TTTTAATA
1 TTTTTAT-AATTTTTTAAGA
66336816 TTTTTATAATTTTTTAAGA
1 TTTTTATAATTTTTTAAGA
*
66336835 ATTTTA
1 TTTTTA
66336841 ATACGTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 18 0.53
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAGA
Found at i:66336857 original size:18 final size:18
Alignment explanation
Indices: 66336834--66336887 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
66336824 ATTTTTTAAG
66336834 AATTTTAATACGTTTTTT
1 AATTTTAATACGTTTTTT
*
66336852 AATTTTAAATAAGTTTTATT
1 AATTTT-AATACGTTTT-TT
*
66336872 AATTTT-ATACATTTTT
1 AATTTTAATACGTTTTT
66336888 CATAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
19 9 0.29
20 8 0.26
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
AATTTTAATACGTTTTTT
Found at i:66336862 original size:19 final size:20
Alignment explanation
Indices: 66336834--66336878 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
66336824 ATTTTTTAAG
*
66336834 AATTTT-AATACGTTTT-TT
1 AATTTTAAATAAGTTTTATT
66336852 AATTTTAAATAAGTTTTATT
1 AATTTTAAATAAGTTTTATT
66336872 AATTTTA
1 AATTTTA
66336879 TACATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTAAATAAGTTTTATT
Found at i:66337021 original size:20 final size:20
Alignment explanation
Indices: 66336997--66337037 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66336987 TTTCTTTCTA
*
66336997 TTTTTTTATAAATTTTATGAG
1 TTTTTTAAT-AATTTTATGAG
*
66337018 TTTTTTAATCATTTTATGAG
1 TTTTTTAATAATTTTATGAG
66337038 AAAAATAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTTTTAATAATTTTATGAG
Found at i:66344344 original size:79 final size:80
Alignment explanation
Indices: 66344156--66344379 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 80
66344146 TTGAATGATG
* * * * *
66344156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
66344220 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
66344236 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
66344298 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
* * * * *
66344314 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
66344379 G
66 G
66344380 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
78 37 0.29
79 59 0.46
80 33 0.26
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:66344359 original size:40 final size:39
Alignment explanation
Indices: 66344156--66344379 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 39
66344146 TTGAATGATG
* * *
66344156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
66344196 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
66344235 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
66344274 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
66344314 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
66344354 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66344380 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 73 0.45
40 81 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:66344410 original size:79 final size:79
Alignment explanation
Indices: 66344209--66344412 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
66344199 GGACTAAGAT
** * * * *
66344209 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
*
66344273 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
66344287 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
*
66344351 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
66344367 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGATA-CTAAATCCGGGTTAAATCCCGAAGG
66344413 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
78 35 0.32
79 50 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
ATACCGGGCTAAGC
Found at i:66352359 original size:39 final size:40
Alignment explanation
Indices: 66352258--66352481 Score: 264
Period size: 39 Copynumber: 5.7 Consensus size: 40
66352248 TTGAGTGATG
* *
66352258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-TCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
66352297 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
66352338 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
66352377 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
66352416 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
66352455 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
66352482 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 74 0.46
40 74 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:66352446 original size:79 final size:80
Alignment explanation
Indices: 66352258--66352481 Score: 296
Period size: 79 Copynumber: 2.8 Consensus size: 80
66352248 TTGAGTGATG
* * * *
66352258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-ATATCCGGGCTAAGACCCGAAGGCAT
*
66352321 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
66352338 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
66352400 TGTGCGAGATACTAAA
65 TGTGCGAGATACTAAA
* * * * *
66352416 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
66352481 G
66 G
66352482 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 37 0.29
79 58 0.45
80 34 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:66352488 original size:40 final size:39
Alignment explanation
Indices: 66352259--66352481 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 39
66352249 TGAGTGATGT
* * *
66352259 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATA
1 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAATA
* * * *
66352298 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATA
*
66352339 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
*
66352378 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA-A
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
66352416 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAA
1 -CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
66352457 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTTG
66352482 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 73 0.46
40 74 0.47
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:66352512 original size:79 final size:79
Alignment explanation
Indices: 66352311--66352514 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
66352301 GGACTAAGAT
** * * * *
66352311 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
*
66352375 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** *
66352389 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
*
66352453 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
66352469 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGATA-CTAAATCCGGGTTAAATCCCGAAGG
66352515 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
78 35 0.32
79 50 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGATACTAAATCCGGGTTAAATCCCGAAGGCAATTGTGCGAGTTACTA
ATACCGGGCTAAGC
Found at i:66360741 original size:25 final size:25
Alignment explanation
Indices: 66360704--66360782 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
66360694 GACACACCAT
*
66360704 AGCTCGTATGAGCTTATTGATTTTC
1 AGCTCGTATGAGCTTATCGATTTTC
*
66360729 AGCTCGTGA-GAGCTTATCGATTCTC
1 AGCTCGT-ATGAGCTTATCGATTTTC
* * * *
66360754 AACTCGTATGAGCTGACCGATTTAC
1 AGCTCGTATGAGCTTATCGATTTTC
66360779 AGCT
1 AGCT
66360783 TGTGAGAGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
AGCTCGTATGAGCTTATCGATTTTC
Found at i:66360800 original size:50 final size:50
Alignment explanation
Indices: 66360701--66360814 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
66360691 GCAGACACAC
* * ** * * *
66360701 CATAGCTCGTATGAGCTTATTGATTTTCAGCTCGTGAGAGCTTATCGATT
1 CATAACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCATACCGATT
* *
66360751 C-TCAACTCGTATGAGCTGACCGATTTACAGCTTGTGAGAGCATGCCGATT
1 CAT-AACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCATACCGATT
*
66360801 CATAGCTCGTATGA
1 CATAACTCGTATGA
66360815 TCATACATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
CATAACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCATACCGATT
Found at i:66366610 original size:38 final size:37
Alignment explanation
Indices: 66366557--66366682 Score: 153
Period size: 38 Copynumber: 3.3 Consensus size: 37
66366547 TATAATACAC
* * *
66366557 CGGCACGAAGACTGCTAGGCACAGAGCCCGAATATTAT
1 CGGCACAAAGCCTGCTAGGCACAGAGCCCGAATA-TAA
*
66366595 CGGCACAAAGCCTGCTAGGCACAGATCCCGAATATAA
1 CGGCACAAAGCCTGCTAGGCACAGAGCCCGAATATAA
* * * *
66366632 CCGACACAAAGTCTGCTAGGCACAGAGCCCAAATATCA
1 -CGGCACAAAGCCTGCTAGGCACAGAGCCCGAATATAA
66366670 CTGGCACAAAGCC
1 C-GGCACAAAGCC
66366683 CGATTATCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
37 3 0.04
38 72 0.96
ACGTcount: A:0.34, C:0.30, G:0.22, T:0.13
Consensus pattern (37 bp):
CGGCACAAAGCCTGCTAGGCACAGAGCCCGAATATAA
Found at i:66366690 original size:22 final size:22
Alignment explanation
Indices: 66366650--66366701 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
66366640 AAGTCTGCTA
*
66366650 GGCACAGAGCCCAAATATCA-C
1 GGCACAAAGCCCAAATATCATC
* *
66366671 TGGCACAAAGCCCGATTATCATC
1 -GGCACAAAGCCCAAATATCATC
66366694 GGCACAAA
1 GGCACAAA
66366702 ACCTGCTAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (22 bp):
GGCACAAAGCCCAAATATCATC
Found at i:66374549 original size:21 final size:21
Alignment explanation
Indices: 66374525--66374571 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
66374515 TAAAAGTTGC
* *
66374525 TTTTCTATGAATAAATTT-TCA
1 TTTTCTA-CAATAAATTTCTAA
66374546 TTTTCTACAATAAATTTCTAA
1 TTTTCTACAATAAATTTCTAA
66374567 TTTTC
1 TTTTC
66374572 AGCATATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTCTACAATAAATTTCTAA
Found at i:66375084 original size:5 final size:5
Alignment explanation
Indices: 66375074--66375102 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
66375064 AATGCCAACC
66375074 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAA
66375103 TTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:66375113 original size:6 final size:6
Alignment explanation
Indices: 66375102--66375127 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66375092 AAATAAAATA
66375102 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
66375128 CTCGGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:66375668 original size:24 final size:24
Alignment explanation
Indices: 66375636--66375693 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
66375626 CCACATTGTT
66375636 GGAGAAATAAGGAAA-GTGAGAGAA
1 GGAGAAATAA-GAAATGTGAGAGAA
*
66375660 GGAGAAATAAGAAATGTTAGAGAA
1 GGAGAAATAAGAAATGTGAGAGAA
*
66375684 TGAGAAATAA
1 GGAGAAATAA
66375694 TGTGGTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.55, C:0.00, G:0.31, T:0.14
Consensus pattern (24 bp):
GGAGAAATAAGAAATGTGAGAGAA
Found at i:66378853 original size:42 final size:43
Alignment explanation
Indices: 66378763--66378901 Score: 122
Period size: 42 Copynumber: 3.2 Consensus size: 43
66378753 GTCCCGGATG
* * ** * *
66378763 TGGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCATATA
1 TGGTCTTACACGTAAATCAATATCGATGCCAATGTCCCAGACA
*
66378806 AGGTCTTACACG-AAATCAAATAT-GATGCCAATGTCCCAGACA
1 TGGTCTTACACGTAAATC-AATATCGATGCCAATGTCCCAGACA
* * **
66378848 TGGTCTTACACATAAATCTCAA-ATCGAGGCCTGTGTCCCAGACA
1 TGGTCTTACACGTAAA--TCAATATCGATGCCAATGTCCCAGACA
*
66378892 CGGTCTTACA
1 TGGTCTTACA
66378902 TGATATTTCA
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 29 0.37
43 20 0.26
44 27 0.35
45 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TGGTCTTACACGTAAATCAATATCGATGCCAATGTCCCAGACA
Found at i:66384487 original size:40 final size:39
Alignment explanation
Indices: 66384443--66384628 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 39
66384433 AAGTGACCAT
66384443 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
66384483 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
* * *
66384523 TTCCAGG-CTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCC-GGACTAAGTCCGAAGGCATTTGTGCGAGATACTAA
**
66384562 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-A
*
66384603 A-CCAGG-CTATGTCCCGAAGGCATTTG
1 ATCC-GGACTAAGT-CCGAAGGCATTTG
66384629 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.24
40 91 0.69
41 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGATACTAA
Found at i:66384553 original size:79 final size:80
Alignment explanation
Indices: 66384410--66384628 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 80
66384400 GATGTCCAGG
* * * *
66384410 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC-GGACTAAGAT-CCGAAGGCATTTGTG
1 CTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCAGG-CTAAG-TCCCGAAGGCATTTGTG
66384472 CGAGATACTAAATCCGGA
63 CGAGATACTAAATCCGGA
*
66384490 CTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCAGGCTAAG-CCCGAAGGCATTTGTG
1 CTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCAGGCTAAGTCCCGAAGGCATTTGTG
* *
66384551 CGAGTTACTAAATCCGGG
63 CGAGATACTAAATCCGGA
* *
66384569 TTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCAGGCTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCAGGCTAAGTCCCGAAGGCATTTG
66384629 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 8, Indels: 20
0.81 0.05 0.13
Matches are distributed among these distances:
78 2 0.02
79 68 0.56
80 39 0.32
81 11 0.09
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (80 bp):
CTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGA
GATACTAAATCCGGA
Found at i:66384650 original size:79 final size:79
Alignment explanation
Indices: 66384457--66384661 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
66384447 GGACTAAGAT
** **
66384457 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
66384520 TAATTCCAGGCTAAGC
64 TAATACCAGGCTAAGC
** * *
66384536 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
66384600 -ATAACCAGGCTATGTC
65 AAT-ACCAGGCTAAG-C
* *
66384616 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
66384662 TACGTGATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 79 0.72
80 25 0.23
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCAGGCTAAGC
Found at i:66390185 original size:47 final size:47
Alignment explanation
Indices: 66390133--66390634 Score: 779
Period size: 47 Copynumber: 10.6 Consensus size: 47
66390123 GATAATTGTG
* *
66390133 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
66390180 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
66390227 ATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTAATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390276 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
66390323 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66390370 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66390419 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390468 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390515 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
66390562 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390609 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
66390635 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 31, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
47 285 0.68
49 135 0.32
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:66390258 original size:96 final size:96
Alignment explanation
Indices: 66390133--66390634 Score: 777
Period size: 96 Copynumber: 5.3 Consensus size: 96
66390123 GATAATTGTG
66390133 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
66390196 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
66390227 ATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTAATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
66390292 ATGTGATAAGGCCTAATGGCCGATGCGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
66390323 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
66390386 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390419 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
66390484 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
66390515 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
66390578 ATGTGATAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66390609 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
66390635 TCCCGAAGGG
Statistics
Matches: 376, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
94 142 0.38
95 3 0.01
96 186 0.49
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:66390280 original size:143 final size:143
Alignment explanation
Indices: 66390133--66390634 Score: 810
Period size: 143 Copynumber: 3.5 Consensus size: 143
66390123 GATAATTGTG
*
66390133 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
66390198 GTGATAAGGCCGAATGGCCAATGTGATGAATGTAAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
* *
66390263 GTCGATGTAATGA
131 GCCGATGTGATGA
* *
66390276 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66390341 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66390406 GCCGATGTGATGA
131 GCCGATGTGATGA
66390419 ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGT--ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
66390484 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66390547 TGGCCGATGTGATGA
129 TGGCCGATGTGATGA
* * * * * * * *
66390562 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66390627 GTGATAAG
66 GTGATAAG
66390635 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
141 55 0.16
143 192 0.57
145 90 0.27
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:66392809 original size:10 final size:10
Alignment explanation
Indices: 66392796--66392830 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
66392786 AAGCTCGGTT
66392796 GAGCTCAAAC
1 GAGCTCAAAC
*
66392806 GAGCTGAAAC
1 GAGCTCAAAC
*
66392816 GAGCTCAAAT
1 GAGCTCAAAC
66392826 GAGCT
1 GAGCT
66392831 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:66392839 original size:20 final size:20
Alignment explanation
Indices: 66392793--66392840 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
66392783 AGTAAGCTCG
66392793 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
66392813 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
66392833 GTTGAGCT
1 GTTGAGCT
66392841 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:66395568 original size:43 final size:42
Alignment explanation
Indices: 66395519--66395615 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
66395509 CCAGATGTGT
* * *
66395519 TCTTACATGTAATTCAATATCGATG-CATCTATCCCAGACAGGG
1 TCTTACACGTAATTAAATA-CGATGCCA-ATATCCCAGACAGGG
* * *
66395562 TCTTACACGAAATTAAATACGATGCCAATGTCCCAGACATGG
1 TCTTACACGTAATTAAATACGATGCCAATATCCCAGACAGGG
66395604 TCTTACACGTAA
1 TCTTACACGTAA
66395616 ATCTCAAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 28 0.61
43 18 0.39
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
TCTTACACGTAATTAAATACGATGCCAATATCCCAGACAGGG
Found at i:66395598 original size:42 final size:43
Alignment explanation
Indices: 66395550--66395657 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 43
66395540 GATGCATCTA
* * *
66395550 TCCCAGACAGGGTCTTACACGAAAT-T-AAATACGATGCCAATG
1 TCCCAGACACGGTCTTACACGAAATCTCAAAT-CAAGGCCAATG
* **
66395592 TCCCAGACATGGTCTTACACGTAAATCTCAAATCAAGGCCTGTG
1 TCCCAGACACGGTCTTACACG-AAATCTCAAATCAAGGCCAATG
66395636 TCCCAGACACGGTCTTACACGA
1 TCCCAGACACGGTCTTACACGA
66395658 TATTTCAGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 20 0.35
43 5 0.09
44 28 0.49
45 4 0.07
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
TCCCAGACACGGTCTTACACGAAATCTCAAATCAAGGCCAATG
Found at i:66399942 original size:17 final size:18
Alignment explanation
Indices: 66399903--66399944 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
66399893 ATCTATATGT
* *
66399903 ATTCAAAATTAACCCTTTC
1 ATTCAAAA-TAACCATTTA
66399922 ATTCAAAA-AACCATTTA
1 ATTCAAAATAACCATTTA
66399939 ATTCAA
1 ATTCAA
66399945 TCCATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTCAAAATAACCATTTA
Found at i:66406653 original size:20 final size:20
Alignment explanation
Indices: 66406621--66406659 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
66406611 CAACATTTCA
66406621 CAATTAAACCATCACATAAG
1 CAATTAAACCATCACATAAG
*
66406641 CAATATAAA-CATCATATAA
1 CAAT-TAAACCATCACATAA
66406660 CTTACTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (20 bp):
CAATTAAACCATCACATAAG
Found at i:66407607 original size:20 final size:20
Alignment explanation
Indices: 66407577--66407627 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
66407567 GATCTATATG
66407577 TATTC-AAAATTAACTCTTT
1 TATTCAAAAATTAACTCTTT
66407596 TATTCAAAAATTAACTCTTT
1 TATTCAAAAATTAACTCTTT
66407616 TATTCAACAAAT
1 TATTCAA-AAAT
66407628 CATTTAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.17
20 21 0.70
21 4 0.13
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTCAAAAATTAACTCTTT
Found at i:66413131 original size:53 final size:54
Alignment explanation
Indices: 66413050--66413254 Score: 196
Period size: 53 Copynumber: 3.8 Consensus size: 54
66413040 TTTCCTTTTT
* * * *
66413050 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * *
66413103 GAACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * * * *
66413157 GTAACACATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCTTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * * *
66413212 GAACTTATCAATTCCATGCCTTGGCATGGTCTTAAATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
66413255 CTTATCTTAC
Statistics
Matches: 123, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 44 0.36
54 36 0.29
55 43 0.35
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
Found at i:66413211 original size:55 final size:54
Alignment explanation
Indices: 66413061--66413257 Score: 209
Period size: 55 Copynumber: 3.6 Consensus size: 54
66413051 AACTTACCAT
* * * * *
66413061 TGCCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * ** *
66413114 TGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACACATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * *
66413169 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCTTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* * *
66413223 TTCCATGCCTTGGCATGGTCTTAAATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
66413258 ATCTTACCAA
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 34 0.29
54 39 0.33
55 42 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:66413302 original size:47 final size:47
Alignment explanation
Indices: 66413236--66413357 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
66413226 CATGCCTTGG
* * *
66413236 CATGGTCTTAAATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
66413283 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
66413330 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
66413358 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:66413545 original size:44 final size:44
Alignment explanation
Indices: 66413496--66413580 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
66413486 ATCCTTAACC
* *
66413496 GTCAATT-TCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCT
1 GTCAATTCT-TCCTTAAATGCCATGGTA-CAACCATGGACTTTTCT
*
66413540 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCTTCCTTAAATGCCATGGTACAACCATGGACTTT
66413581 GAGATATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.06
44 33 0.92
45 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (44 bp):
GTCAATTCTTCCTTAAATGCCATGGTACAACCATGGACTTTTCT
Found at i:66417640 original size:42 final size:42
Alignment explanation
Indices: 66417526--66417677 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
66417516 TACCATACCA
* * *
66417526 ATGCCATATCCCAAATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAG-TCTCATATCG
* * * ** *
66417568 ATGCTAATAGCCTAGCTATGGTCTTCCACGAAGTCTCATATCG
1 ATGC-CATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
* *
66417611 ATGCCATTTCCCAAATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
*
66417653 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATATCCCAAATATGGTCTTA
66417678 GACATAGTCT
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 57 0.64
43 31 0.35
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
Found at i:66420032 original size:4 final size:4
Alignment explanation
Indices: 66420023--66420047 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
66420013 TCTGACTTTG
66420023 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
66420048 ATGTGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:66421135 original size:45 final size:45
Alignment explanation
Indices: 66421071--66421200 Score: 192
Period size: 45 Copynumber: 2.9 Consensus size: 45
66421061 TGTACAGTAA
*
66421071 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGTCGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
*
66421116 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATGC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
* * *
66421161 TATTCGGG-CTTTCAAGCCTAGCAGGCGA-AATGCCGATGAA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTACAATGCCGGTGAA
66421201 TGAACTCGGG
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
44 15 0.19
45 64 0.81
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAAATAC
Found at i:66421233 original size:41 final size:44
Alignment explanation
Indices: 66421087--66421236 Score: 119
Period size: 45 Copynumber: 3.4 Consensus size: 44
66421077 GGCCTTTGAG
* * * * * * *
66421087 CCTAGCAGGCTACAATGTCGGTGAAATACTATTCGGGCCTTT-GAG
1 CCTAGCAGGCTA-AATGCCGATGAAATGCAACTCGGG-CTTTAAAA
* * * * *
66421132 CCTAGCAGGCTACAATGCCGGTGAAATGCTATTCGGGCTTTCAAG
1 CCTAGCAGGCTA-AATGCCGATGAAATGCAACTCGGGCTTTAAAA
*
66421177 CCTAGCAGGCGAAATGCCGATG-AATG-AACTCGGG-TTTAAAA
1 CCTAGCAGGCTAAATGCCGATGAAATGCAACTCGGGCTTTAAAA
*
66421218 CCTAGCATGCTAAATGCCG
1 CCTAGCAGGCTAAATGCCG
66421237 GTGATTTGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
41 22 0.24
42 6 0.06
43 4 0.04
44 13 0.14
45 48 0.52
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (44 bp):
CCTAGCAGGCTAAATGCCGATGAAATGCAACTCGGGCTTTAAAA
Found at i:66429635 original size:46 final size:47
Alignment explanation
Indices: 66429502--66429717 Score: 203
Period size: 46 Copynumber: 4.6 Consensus size: 47
66429492 TGAGATGTCA
* * **
66429502 ATGCCATGTCCCAAACACAGTCTTACACTGGCTTACATCTCAA-GTTG
1 ATGCCATGTCCCAAACA-TGTCTTACACTGGCTTATATCTCAAGGCCG
* *
66429549 AAGCCATGTCCCAGAA-ATGGTCTTACACTGG-TTATCATCTCGTA-GCCG
1 ATGCCATGTCCCA-AACAT-GTCTTACACTGGCTTAT-ATCTC-AAGGCCG
*
66429597 ATG-CATGTCCCAAACATGTCTTACACTGGCTTATATCTCGAGGCCG
1 ATGCCATGTCCCAAACATGTCTTACACTGGCTTATATCTCAAGGCCG
* * * * *
66429643 ATG-CATGTCCCAGACATGTCTTACACTAGCACT-TGTCTCAATGCCG
1 ATGCCATGTCCCAAACATGTCTTACACTGGC-TTATATCTCAAGGCCG
*
66429689 ATGCCATGTCCCAAATATGGTCTTACACT
1 ATGCCATGTCCCAAACAT-GTCTTACACT
66429718 AGCTCTCACA
Statistics
Matches: 143, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 67 0.47
47 58 0.41
48 17 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGTCTTACACTGGCTTATATCTCAAGGCCG
Found at i:66429697 original size:93 final size:94
Alignment explanation
Indices: 66429502--66429717 Score: 235
Period size: 93 Copynumber: 2.3 Consensus size: 94
66429492 TGAGATGTCA
* **
66429502 ATGCCATGTCCCAAACACAGTCTTACACTGGCTTACATCTCAAGTTGAAGCCATGTCCCAGAAAT
1 ATGCCATGTCCCAAACA-TGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAAAT
* * *
66429567 GGTCTTACACTGGTTATCATCTCGTAGCCG
65 GGTCTTACACTAGTCATCATCTCATAGCCG
* * * *
66429597 ATG-CATGTCCCAAACATGTCTTACACTGGCTTATATCTCGAGGCCGATG-CATGTCCCAGACAT
1 ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTC-AAGCCGAAGCCATGTCCCAGAAAT
**
66429660 -GTCTTACACTAG-CACTTGTCTCA-ATGCCG
65 GGTCTTACACTAGTCA-TCATCTCATA-GCCG
*
66429689 ATGCCATGTCCCAAATATGGTCTTACACT
1 ATGCCATGTCCCAAACAT-GTCTTACACT
66429718 AGCTCTCACA
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
91 2 0.02
92 23 0.22
93 47 0.46
94 28 0.27
95 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAAATG
GTCTTACACTAGTCATCATCTCATAGCCG
Found at i:66431141 original size:4 final size:4
Alignment explanation
Indices: 66431132--66431223 Score: 184
Period size: 4 Copynumber: 23.0 Consensus size: 4
66431122 GAAAACTTAA
66431132 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
66431180 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
66431224 AGAAATATTT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:66444137 original size:14 final size:14
Alignment explanation
Indices: 66444118--66444150 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
66444108 ATTTTACGAA
66444118 GCTTAGGATTTTGT
1 GCTTAGGATTTTGT
66444132 GCTTAGGATTTTGT
1 GCTTAGGATTTTGT
66444146 GCTTA
1 GCTTA
66444151 TTGCTTTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.09, G:0.27, T:0.48
Consensus pattern (14 bp):
GCTTAGGATTTTGT
Found at i:66447263 original size:12 final size:12
Alignment explanation
Indices: 66447246--66447272 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
66447236 GATGGTTGAT
66447246 GTATATATTTTA
1 GTATATATTTTA
66447258 GTATATATTTTA
1 GTATATATTTTA
66447270 GTA
1 GTA
66447273 ATAAAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (12 bp):
GTATATATTTTA
Found at i:66462955 original size:9 final size:11
Alignment explanation
Indices: 66462928--66462957 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
66462918 TTTCACATTT
66462928 TAATTTTTATA
1 TAATTTTTATA
66462939 TAATTTTTATA
1 TAATTTTTATA
66462950 -AATTTTTA
1 TAATTTTTA
66462958 GGGATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:66463280 original size:31 final size:29
Alignment explanation
Indices: 66463205--66463282 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
66463195 TTTGAATCAC
* *
66463205 AATTAGAGTTTCATGTGTATAATTGCACCA
1 AATTA-AGATTCATGTATATAATTGCACCA
*
66463235 AATTAA-ATTCCATGTATATAATTGCACATTA
1 AATTAAGATT-CATGTATATAATTGCAC--CA
66463266 AATTAAGATTCATGTAT
1 AATTAAGATTCATGTAT
66463283 GATTTGAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 2 0.05
29 17 0.41
30 5 0.12
31 14 0.34
32 3 0.07
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
AATTAAGATTCATGTATATAATTGCACCA
Found at i:66463474 original size:20 final size:19
Alignment explanation
Indices: 66463430--66463497 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 19
66463420 TAAATGCACA
66463430 TTATTATTATTT-TATT-TT
1 TTATTATT-TTTATATTATT
66463448 TTA-TATTTTTATATTATT
1 TTATTATTTTTATATTATT
66463466 TTGATTATTTTTCTATATATATT
1 TT-ATTA-TTTT-TATAT-TATT
*
66463489 TTATAATTT
1 TTATTATTT
66463498 CTAATAATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
16 3 0.07
17 8 0.19
18 7 0.17
19 1 0.02
20 2 0.05
21 7 0.17
22 8 0.19
23 6 0.14
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (19 bp):
TTATTATTTTTATATTATT
Found at i:66463482 original size:22 final size:20
Alignment explanation
Indices: 66463431--66463490 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
66463421 AAATGCACAT
* *
66463431 TATTATTATTTTATTTTTTA
1 TATTTTTATATTATTTTTTA
66463451 TATTTTTATATTATTTTGATTA
1 TATTTTTATATTATTTT--TTA
66463473 T-TTTTCTATATATATTTT
1 TATTTT-TATAT-TATTTT
66463491 ATAATTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 15 0.44
21 4 0.12
22 9 0.26
23 6 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTTTTATATTATTTTTTA
Found at i:66463497 original size:22 final size:19
Alignment explanation
Indices: 66463442--66463493 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
66463432 ATTATTATTT
66463442 TATT-TTTTATA-TTTTTA
1 TATTATTTTATATTTTTTA
66463459 TATTATTTTGATTATTTTTCTA
1 TATTATTTT-A-TATTTTT-TA
66463481 TATATATTTTATA
1 TAT-TATTTTATA
66463494 ATTTCTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 1 0.03
20 2 0.07
21 6 0.21
22 6 0.21
23 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TATTATTTTATATTTTTTA
Found at i:66470301 original size:3 final size:3
Alignment explanation
Indices: 66470293--66470318 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
66470283 TGGCAGACAA
66470293 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
66470319 GGTTAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:66471888 original size:15 final size:16
Alignment explanation
Indices: 66471865--66471902 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
66471855 TAAGGAAAAT
*
66471865 TTTTAAATTTAGTT-A
1 TTTTAAATTAAGTTAA
*
66471880 TTTTCAATTAAGTTAA
1 TTTTAAATTAAGTTAA
66471896 TTTTAAA
1 TTTTAAA
66471903 GTTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTAAATTAAGTTAA
Found at i:66487388 original size:46 final size:45
Alignment explanation
Indices: 66487258--66487519 Score: 156
Period size: 47 Copynumber: 5.6 Consensus size: 45
66487248 GGTAAGGTGC
* * * * * *
66487258 CATGTCCCAGGCACGGTCTTACACTAGCTCATGTCTCAAGTCGAATC
1 CATGTCCCAGACA-TGTCTTACACTAGCTTACGTCTCGAGTCG-ATG
*
66487305 CATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCGTAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTA-CGTCTCG-AGTCGATG
* *
66487352 CATGTCCTAGACATGTCTTACACTAGCTTACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGTC-GATG
** * * * * * *
66487398 TTTTTCCCAGACATGTCTTACACCAACACT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGA-GTCGATG
* * * * *
66487444 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCT-TACGT-CTCG-AGTCGATG
*
66487492 CATGCCCCAGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
66487520 CACACAAATG
Statistics
Matches: 169, Mismatches: 32, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
45 3 0.02
46 68 0.40
47 72 0.43
48 25 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGTCGATG
Found at i:66495094 original size:46 final size:46
Alignment explanation
Indices: 66495041--66495167 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 46
66495031 ACGTCTCGAG
* *
66495041 GCCGATGCATGTCCTAGACATGTCTTACATTAGCATTCGT-GTCAA-T
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATTC-TCGT-AAGT
* *
66495087 GCTGATGCCATGTCCCAGACATGGTCTTACACT-G-GTTCTCGTAATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCATTCTCGTAA-GT
66495134 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
66495168 TCATACAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
45 13 0.19
46 26 0.38
47 21 0.30
48 9 0.13
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATTCTCGTAAGT
Found at i:66505954 original size:50 final size:49
Alignment explanation
Indices: 66505797--66506070 Score: 222
Period size: 50 Copynumber: 5.6 Consensus size: 49
66505787 GTAAAATCCT
** * * * *
66505797 GATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCACACA-TCAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACT-GGT-CC
* * * * * * * * * *
66505847 AATGCCATGTTCCAAACATGGTTTTGCACTGGCTCGCAT--ATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTG-GTCC
* * *
66505895 GATGTCATGTCCCAGACATGATCTTACACTAGCTCTCATAAACTGGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGT-CC
* * *
66505945 GATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATACCAA--GG-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA--AACTGGTCC
66505991 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGT-CC
*
66506041 GATGCCGTGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
66506071 GACACATATC
Statistics
Matches: 178, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
46 32 0.18
47 1 0.01
48 46 0.26
49 4 0.02
50 95 0.53
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTCC
Found at i:66506086 original size:96 final size:96
Alignment explanation
Indices: 66505797--66506086 Score: 339
Period size: 96 Copynumber: 3.0 Consensus size: 96
66505787 GTAAAATCCT
** * * * * * *
66505797 GATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCACACA-TCAGTGCCAATGCCATGTTCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACT-GGTGCCGATGCCATGTCCCA
* * * * * * *
66505861 AACATGGTTTTGCACTGGCTCGCATATTGAGGCT
65 GACATGGTCTTACACT-G-ACACATATCGAGGCC
* * * * *
66505895 GATGTCATGTCCCAGACATGATCTTACACTAGCTCTCATAAACTGGTACTGATGCCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAG
* *
66505960 ACATGGTCTTACACTGACACATACCAAGGCC
66 ACATGGTCTTACACTGACACATATCGAGGCC
*
66505991 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCGTGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAG
66506056 ACATGGTCTTACACTGACACATATCGAGGCC
66 ACATGGTCTTACACTGACACATATCGAGGCC
66506087 TATTGTACTC
Statistics
Matches: 161, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
96 97 0.60
97 1 0.01
98 62 0.39
99 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATATCGAGGCC
Found at i:66515012 original size:23 final size:23
Alignment explanation
Indices: 66514984--66515034 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
66514974 CATAATCATG
66514984 TTACTTATTATTTGCATGTGAAC
1 TTACTTATTATTTGCATGTGAAC
66515007 TTACTTATTATTTGCATGTGAAC
1 TTACTTATTATTTGCATGTGAAC
66515030 TTACT
1 TTACT
66515035 AAGCATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (23 bp):
TTACTTATTATTTGCATGTGAAC
Found at i:66515042 original size:23 final size:23
Alignment explanation
Indices: 66514993--66515042 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
66514983 GTTACTTATT
* **
66514993 ATTTGCATGTGAACTTACTTATT
1 ATTTGCATGTGAACTTACTAAGC
66515016 ATTTGCATGTGAACTTACTAAGC
1 ATTTGCATGTGAACTTACTAAGC
66515039 ATTT
1 ATTT
66515043 ATGCTTACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (23 bp):
ATTTGCATGTGAACTTACTAAGC
Found at i:66527587 original size:39 final size:40
Alignment explanation
Indices: 66527542--66527709 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
66527532 CGGGGTTTAG
* * *
66527542 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
66527581 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
66527621 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
66527661 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
66527702 CCGGATAT
1 CCGGATAT
66527710 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:66527692 original size:41 final size:40
Alignment explanation
Indices: 66527565--66527709 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
66527555 CTCGCACAAG
* * * * *
66527565 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
66527605 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
66527645 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
66527686 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
66527710 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:66528944 original size:45 final size:38
Alignment explanation
Indices: 66528897--66528972 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
66528887 CAAGAACTCC
*
66528897 TTCCTCATTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
66528935 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
66528973 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:66535298 original size:49 final size:48
Alignment explanation
Indices: 66535210--66535382 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 48
66535200 TGTTGTGTGT
* *
66535210 CAGTGTAAGACCTATCTAGGACATGGCATCGACAC-CGATAGATAAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATAA-AGC
* *
66535259 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGAT-AAAGC
* * * * ** *
66535308 TAGTGTAAGACCTGTTTGGGACACT-GTATCGACTTTAAT-G-TGATAGC
1 CAGTGTAAGACCTGTCTGGGACA-TGGCATCGACCTCGATAGAT-AAAGC
*
66535355 CAGTGTAAGACTATGTCTGGGACATGGC
1 CAGTGTAAGAC-CTGTCTGGGACATGGC
66535383 GTTGGTATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
47 16 0.16
48 12 0.12
49 71 0.70
50 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAGC
Found at i:66537125 original size:28 final size:28
Alignment explanation
Indices: 66537085--66537142 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
66537075 TGAAACTTAT
66537085 CAACTTCATGCCATAATTATCGTTAACA
1 CAACTTCATGCCATAATTATCGTTAACA
66537113 CAACTTCATGCCATAATTATCGTTAACA
1 CAACTTCATGCCATAATTATCGTTAACA
66537141 CA
1 CA
66537143 TTCTTACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (28 bp):
CAACTTCATGCCATAATTATCGTTAACA
Found at i:66543613 original size:27 final size:27
Alignment explanation
Indices: 66543582--66543760 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
66543572 TAAATTGTAC
66543582 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
66543609 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66543635 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
66543663 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
66543691 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66543718 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66543745 AGCACTGAGTGTGCGA
1 AGCACTAAGTGTGCGA
66543761 ACTCAATATA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66543696 original size:82 final size:81
Alignment explanation
Indices: 66543583--66543738 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
66543573 AAATTGTACA
* *
66543583 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
66543647 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
66543664 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
66543729 TGCGAGTTGA
65 TGCGAATTGA
66543739 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:66543750 original size:82 final size:81
Alignment explanation
Indices: 66543579--66543760 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
66543569 GATTAAATTG
* *
66543579 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
66543644 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
66543660 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
66543724 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
66543742 TATAGCACTGAGTGTGCGA
1 TACAGCACTAAGTGTGCGA
66543761 ACTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:66551715 original size:27 final size:27
Alignment explanation
Indices: 66551684--66551861 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
66551674 TAAATTGTAC
66551684 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
66551711 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66551737 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
66551765 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
66551793 AGCACTAAGTGTGCGATTTGA-TAACGT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
* * *
66551820 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66551847 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66551862 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66551825 original size:82 final size:81
Alignment explanation
Indices: 66551685--66551840 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
66551675 AAATTGTACA
* *
66551685 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
66551750 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
66551766 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATAACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAAT-ACGAT-GCACTAAG
*
66551829 TGTGCGAGTTGA
63 TGTGCGAATTGA
66551841 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 18 0.27
82 49 0.73
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:66551852 original size:82 final size:81
Alignment explanation
Indices: 66551681--66551861 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
66551671 GATTAAATTG
* *
66551681 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
66551746 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
66551762 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATAACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAAT-ACGAT-GCAC
* **
66551825 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
66551844 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
66551862 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:66559404 original size:50 final size:48
Alignment explanation
Indices: 66559333--66559656 Score: 237
Period size: 50 Copynumber: 6.7 Consensus size: 48
66559323 GGTAAAGTGT
* * *
66559333 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATACATCGGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATA-ATCGGTGC
** * * **
66559383 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATATAACAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATA-ATCGGTGC
* * * * *
66559431 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCAT-ATTGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATAATCG-GTGC
* * * * * * *
66559479 CGATGCCATGTCCCAGGCATAGTCTTACACTAGCTCTTATAAACCGATAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT-AATCGGTGC
* * * * *
66559529 CAATGCCATGTCCTAGACATGGTCTTACACTGAC-ACAT-ATCGAG-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATCG-GTGC
* * * * *
66559575 CAATGCCATGTACCAGACATGGCCTTACACCGGCTCTCATAAACCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT-AATCGGTGC
66559625 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
66559657 ACACATATCG
Statistics
Matches: 206, Mismatches: 56, Indels: 24
0.72 0.20 0.08
Matches are distributed among these distances:
46 32 0.16
48 77 0.37
49 1 0.00
50 96 0.47
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATCGGTGC
Found at i:66559451 original size:48 final size:49
Alignment explanation
Indices: 66559330--66559461 Score: 151
Period size: 48 Copynumber: 2.7 Consensus size: 49
66559320 AAGGGTAAAG
** * * **
66559330 TGTCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATACATCGG
1 TGTCGATGCCATGTTCCAAACATGGTCTTACACTAAC-TACATACAACAA
* * *
66559380 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATATAACAA
1 TGTCGATGCCATGTTCCAAACATGGTCTTACACTAACTACATACAACAA
66559428 TG-CTGATGCCATGTTCCAAACATGGTCTTACACT
1 TGTC-GATGCCATGTTCCAAACATGGTCTTACACT
66559462 GGCTCGCATA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 1 0.01
48 36 0.51
50 33 0.47
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (49 bp):
TGTCGATGCCATGTTCCAAACATGGTCTTACACTAACTACATACAACAA
Found at i:66559568 original size:96 final size:95
Alignment explanation
Indices: 66559333--66559674 Score: 339
Period size: 96 Copynumber: 3.5 Consensus size: 95
66559323 GGTAAAGTGT
* * * *
66559333 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATACATCG-GTGTCGATGCCATGTCCC
1 CGATGCCATG-TCCAGACATGGTCTTACACTGAC--ACAT--ATCGAG-GCCGATGCCATGTCCC
* * * *
66559397 AGACATGGTCTTACACTAACACATAT-AA-CAATGC
60 AGACATGGTCTTACACTAGCTCTTATAAACCGATGC
* * * * * *
66559431 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCCAGG
1 CGATGCCATG-TCCAGACATGGTCTTACACT-G-ACACATATCGAGGCCGATGCCATGTCCCAGA
* *
66559496 CATAGTCTTACACTAGCTCTTATAAACCGATAC
63 CATGGTCTTACACTAGCTCTTATAAACCGATGC
* * * *
66559529 CAATGCCATGTCCTAGACATGGTCTTACACTGACACATATCGAGGTCAATGCCATGTACCAGACA
1 CGATGCCATGTCC-AGACATGGTCTTACACTGACACATATCGAGGCCGATGCCATGTCCCAGACA
* ** * *
66559594 TGGCCTTACACCGGCTCTCATAAACCGGTGC
65 TGGTCTTACACTAGCTCTTATAAACCGATGC
66559625 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGAT
1 CGATGCCATGT-CCAGACATGGTCTTACACTGACACATATCGAGGCCGAT
66559675 TGTACTCGAC
Statistics
Matches: 205, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
96 133 0.65
97 9 0.04
98 61 0.30
99 1 0.00
100 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (95 bp):
CGATGCCATGTCCAGACATGGTCTTACACTGACACATATCGAGGCCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCTCTTATAAACCGATGC
Found at i:66559627 original size:146 final size:145
Alignment explanation
Indices: 66559385--66559655 Score: 350
Period size: 146 Copynumber: 1.9 Consensus size: 145
66559375 ATCGGTGTCG
* * *
66559385 ATGCCATGTCCCAGACATGGTCTTACACTAACACATATAACAATGCTGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATAT-ACAAGGCTAATGCCATGTACCAAACA
* * ** *
66559450 TGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCCAGGCATAGTCTTACACTAGCTC
65 TGGCCTTACACCGGCTCGCATACCGAGGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTC
66559515 TTATAAACCGATACCA
130 TTATAAACCGATACCA
* * * *
66559531 ATGCCATGTCCTAGACATGGTCTTACACTGACACATAT-CGAGG-TCAATGCCATGTACCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATATACAAGGCT-AATGCCATGTACCAAACA
* *
66559594 TGGCCTTACACCGGCTCTCATAAACCG-GTGCCGATGCCATGTCCCAGACATGGTCTTACACT
65 TGGCCTTACACCGGCTCGCAT--ACCGAG-GCCGATGCCATGTCCCAGACATAGTCTTACACT
66559656 GACACATATC
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
143 1 0.01
144 36 0.34
145 1 0.01
146 69 0.64
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (145 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACATATACAAGGCTAATGCCATGTACCAAACAT
GGCCTTACACCGGCTCGCATACCGAGGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCT
TATAAACCGATACCA
Found at i:66562402 original size:17 final size:16
Alignment explanation
Indices: 66562363--66562398 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
66562353 GCCAAGTTGG
66562363 AAGT-AAAAAGAACTA
1 AAGTGAAAAAGAACTA
*
66562378 AAGTGAAAAAGAATTA
1 AAGTGAAAAAGAACTA
66562394 AAGTG
1 AAGTG
66562399 GAAAGTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.61, C:0.03, G:0.19, T:0.17
Consensus pattern (16 bp):
AAGTGAAAAAGAACTA
Found at i:66567702 original size:13 final size:13
Alignment explanation
Indices: 66567684--66567708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66567674 TAGGTAGCTG
66567684 TTGTTATTAAATT
1 TTGTTATTAAATT
66567697 TTGTTATTAAAT
1 TTGTTATTAAAT
66567709 CTCGATTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTGTTATTAAATT
Found at i:66595524 original size:20 final size:20
Alignment explanation
Indices: 66595499--66595537 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
66595489 AGGAGGGTGC
66595499 ATGATCCCCCTTTTCACTCT
1 ATGATCCCCCTTTTCACTCT
66595519 ATGATCCCCCTTTTCACTC
1 ATGATCCCCCTTTTCACTC
66595538 CATGTCTCCA
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:0.15, C:0.41, G:0.05, T:0.38
Consensus pattern (20 bp):
ATGATCCCCCTTTTCACTCT
Found at i:66597298 original size:27 final size:27
Alignment explanation
Indices: 66597268--66597401 Score: 133
Period size: 27 Copynumber: 5.0 Consensus size: 27
66597258 CCTTTATCGA
* *
66597268 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATAACTATTTTGCCCTTATGTGG
* * *
66597295 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATAACTATTTTGCCCTTATGTGG
* *
66597322 TAAAATAACTGTTTTGCCTTTATGTGG
1 TAAAATAACTATTTTGCCCTTATGTGG
* * *
66597349 TAAAATAACTATTTTTCCCTTTTATGG
1 TAAAATAACTATTTTGCCCTTATGTGG
* * * * *
66597376 TAAGATGACTGTTTTACCCCTATGTG
1 TAAAATAACTATTTTGCCCTTATGTG
66597402 ATGTATGTTT
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATAACTATTTTGCCCTTATGTGG
Found at i:66597400 original size:54 final size:54
Alignment explanation
Indices: 66597268--66597401 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
66597258 CCTTTATCGA
* * * * * *
66597268 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTATTTTGCCCTTATATGG
* * * *
66597322 TAAAATAACTGTTTTGCCTTTATGTGGTAAAATAACTATTTTTCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTATTTTGCCCTTATATGG
* * *
66597376 TAAGATGACTGTTTTACCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
66597402 ATGTATGTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTTATGTGGTAAAATAACTATTTTGCCCTTATATGG
Found at i:66597735 original size:18 final size:18
Alignment explanation
Indices: 66597712--66597762 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 18
66597702 GGACTTGCAT
66597712 ACTGTTTACTGTTACTAC
1 ACTGTTTACTGTTACTAC
*
66597730 ACTG-TTAGTGTTACTAC
1 ACTGTTTACTGTTACTAC
* *
66597747 ACTATTTACTATTACT
1 ACTGTTTACTGTTACT
66597763 GTAATGGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (18 bp):
ACTGTTTACTGTTACTAC
Found at i:66606973 original size:27 final size:27
Alignment explanation
Indices: 66606924--66606988 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
66606914 AATGTTGCCA
** *
66606924 AGCCACCAGTATTAGTAATTGTGGCAT
1 AGCCACCAGTAACAGTAATTGTGACAT
66606951 AGCCACCAGTAACAGTGAA-TGTGACAT
1 AGCCACCAGTAACAGT-AATTGTGACAT
**
66606978 AATCACCAGTA
1 AGCCACCAGTA
66606989 CAACACTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (27 bp):
AGCCACCAGTAACAGTAATTGTGACAT
Found at i:66607159 original size:27 final size:27
Alignment explanation
Indices: 66607129--66607282 Score: 186
Period size: 27 Copynumber: 5.7 Consensus size: 27
66607119 GGGCATAATT
* *
66607129 GTCATTTTACCATACAGGGGTATTAAG
1 GTCATTTTACCCTACAGGGGCATTAAG
* * * *
66607156 GTCATTTTAACTTACATGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTAAG
*
66607183 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTAAG
*
66607210 GTCATTTTACCCTACAGGGTCATTATA-
1 GTCATTTTACCCTACAGGGGCATTA-AG
*
66607237 GTCATTTTACCCTACAGGTGCATTACA-
1 GTCATTTTACCCTACAGGGGCATTA-AG
*
66607264 GTTATTTTACCCTACAGGG
1 GTCATTTTACCCTACAGGG
66607283 ATATTACGGT
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTAAG
Found at i:66607260 original size:81 final size:81
Alignment explanation
Indices: 66607129--66607294 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 81
66607119 GGGCATAATT
* *
66607129 GTCATTTTACCATACAGGGGTATTAAGGTCATTTTAACTTACATGGGCATTACGGTCATTTTACC
1 GTCATTTTACCATACAGGGGTATTAAGGTCATTTTAACCTACATGGGCATTACAGTCATTTTACC
*
66607194 CTACAGGGGCATTACG
66 CTACAGGGACATTACG
* * *
66607210 GTCATTTTACCCTACA-GGGTCATTATA-GTCATTTTACCCTACA-GGTGCATTACAGTTATTTT
1 GTCATTTTACCATACAGGGGT-ATTA-AGGTCATTTTAACCTACATGG-GCATTACAGTCATTTT
*
66607272 ACCCTACAGGGATATTACG
63 ACCCTACAGGGACATTACG
66607291 GTCA
1 GTCA
66607295 AATAACGGGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
80 6 0.08
81 68 0.91
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (81 bp):
GTCATTTTACCATACAGGGGTATTAAGGTCATTTTAACCTACATGGGCATTACAGTCATTTTACC
CTACAGGGACATTACG
Found at i:66611305 original size:55 final size:54
Alignment explanation
Indices: 66611151--66611356 Score: 186
Period size: 53 Copynumber: 3.8 Consensus size: 54
66611141 CCTTTTCTAA
* *
66611151 ACTTACCATTGCCATGTCTTGACATGGTCTTAC--GCAGTATCCTTGCCTTATGA-
1 ACTTACCAATGCCATGTCTTGACATGGTCTTACATG-A-TATCCTTGCCTTATAAT
* * * ** * *
66611204 ACTCACCATTGCCAT-TCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCAT
1 ACTTACCAATGCCATGT-CTTGACATGGTCTTACATGATATCCTTGCCTTATAAT
* * * * *
66611258 AGTTTATCAGTGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAT
1 A-CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAT
* * * *
66611313 ACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 ACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
66611357 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.01
53 42 0.34
54 36 0.30
55 42 0.34
56 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (54 bp):
ACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAT
Found at i:66614386 original size:12 final size:13
Alignment explanation
Indices: 66614368--66614398 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
66614358 CTATTACTCA
66614368 AATTTTACAATTT
1 AATTTTACAATTT
66614381 -ATTTTACAATTT
1 AATTTTACAATTT
66614393 AATTTT
1 AATTTT
66614399 TCTTCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTACAATTT
Found at i:66614637 original size:12 final size:11
Alignment explanation
Indices: 66614617--66614689 Score: 65
Period size: 12 Copynumber: 5.9 Consensus size: 11
66614607 TGCATCTCCT
66614617 TTTCTTTTTTC
1 TTTCTTTTTTC
66614628 TTTCTCTTTTTC
1 TTTCT-TTTTTC
*
66614640 TTTCTTCAATTTTG
1 TTTCTT---TTTTC
66614654 TATGTCTTTCTTTC
1 T-T-TCTTT-TTTC
66614668 TTTCTTTCTTTC
1 TTTCTTT-TTTC
66614680 TTTCTTTTTT
1 TTTCTTTTTT
66614690 TATTCATTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
11 9 0.17
12 28 0.53
13 2 0.04
14 9 0.17
15 1 0.02
16 4 0.08
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:66614667 original size:4 final size:4
Alignment explanation
Indices: 66614658--66614686 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
66614648 ATTTTGTATG
66614658 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
66614687 TTTTATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:66619780 original size:30 final size:30
Alignment explanation
Indices: 66619746--66619802 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
66619736 TAACTCAAAA
66619746 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
66619776 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
66619803 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:66621450 original size:12 final size:12
Alignment explanation
Indices: 66621433--66621458 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66621423 AAGCAACATA
66621433 AACAAAAATAAT
1 AACAAAAATAAT
66621445 AACAAAAATAAT
1 AACAAAAATAAT
66621457 AA
1 AA
66621459 AATGATGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AACAAAAATAAT
Found at i:66623369 original size:27 final size:27
Alignment explanation
Indices: 66623319--66623371 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66623309 CAGTAACAGT
* *
66623319 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAATAACAAAATCAGG
66623346 TGGGCCTAAGCCCAAT-ACAAAATCAG
1 TGGGCCT-AGCCCAATAACAAAATCAG
66623372 TATCAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAAAATCAGG
Found at i:66623809 original size:27 final size:27
Alignment explanation
Indices: 66623779--66623868 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
66623769 GGCATAATTT
*
66623779 TCATTCTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
66623806 TCATTTTACCATATAGGGGCATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* * **
66623833 TCATTTTACCCTACAAGGGTATTATAG
1 TCATTTTACCATACAGGGGTATTACGG
66623860 TCATTTTAC
1 TCATTTTAC
66623869 ACTATCAGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:66623989 original size:27 final size:27
Alignment explanation
Indices: 66623905--66624136 Score: 222
Period size: 27 Copynumber: 8.6 Consensus size: 27
66623895 CGAATCTGAA
* *
66623905 GTATTTCGGTAACTTTT-CAAATTG-GAG
1 GTATTTCAGTAA-TTTTCCAAACTGAG-G
*
66623932 GTACTTCAGTAATTTTCCAAACT-AGGG
1 GTATTTCAGTAATTTTCCAAACTGA-GG
**
66623959 GTATTTCAGTAATTTTCCAAACTGAAA
1 GTATTTCAGTAATTTTCCAAACTGAGG
66623986 GTATTTCTA-TAATTTTCCAAACTGAGG
1 GTATTTC-AGTAATTTTCCAAACTGAGG
* *
66624013 GTATTTCAATAATTTTCCAAATTGAGG
1 GTATTTCAGTAATTTTCCAAACTGAGG
** * *
66624040 GTATTTTGGTAATTTTACAAACCGAGG
1 GTATTTCAGTAATTTTCCAAACTGAGG
* *
66624067 GTATTTCAATAATTTTCCAAACTGGGG
1 GTATTTCAGTAATTTTCCAAACTGAGG
* * * *
66624094 GTATTTCAATACTTTTACAAA-TCGAGA
1 GTATTTCAGTAATTTTCCAAACT-GAGG
*
66624121 GTATTTCGGTAATTTT
1 GTATTTCAGTAATTTT
66624137 ACAATCCGGG
Statistics
Matches: 170, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.04
27 161 0.95
28 3 0.02
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTCCAAACTGAGG
Found at i:66624026 original size:81 final size:81
Alignment explanation
Indices: 66623875--66624140 Score: 270
Period size: 81 Copynumber: 3.3 Consensus size: 81
66623865 TTACACTATC
* * * * ** * *
66623875 AGGGTATTTTGATAATTTTACGAATCTG-AAGTATTTCGGTAACTTTT-CAAATTG-GAGGTACT
1 AGGGTATTTCGGTAATTTTAC-AAACCGAAAGTATTTCAATAA-TTTTCCAAACTGAG-GGTATT
*
66623937 TCAGTAATTTTCCAAACTAG
63 TCAATAATTTTCCAAA-TAG
* * * *
66623957 -GGGTATTTCAGTAATTTTCCAAACTGAAAGTATTTCTATAATTTTCCAAACTGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAACCGAAAGTATTTCAATAATTTTCCAAACTGAGGGTATTTCA
*
66624021 ATAATTTTCCAAATTG
66 ATAATTTTCCAAATAG
* ** *
66624037 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTCCAAACTGGGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAACCGAAAGTATTTCAATAATTTTCCAAACTGAGGGTATTTCA
* * *
66624102 ATACTTTTACAAATCG
66 ATAATTTTCCAAATAG
*
66624118 AGAGTATTTCGGTAATTTTACAA
1 AGGGTATTTCGGTAATTTTACAA
66624141 TCCGGGGTCT
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
80 11 0.07
81 144 0.92
82 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAACCGAAAGTATTTCAATAATTTTCCAAACTGAGGGTATTTCA
ATAATTTTCCAAATAG
Found at i:66627440 original size:27 final size:27
Alignment explanation
Indices: 66627390--66627442 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66627380 CAGTAACAGT
*
66627390 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
*
66627417 TGGGCCTAAGCCCAAT-ACATAATCAG
1 TGGGCCT-AGCCCAATAACAGAATCAG
66627443 TATCAGATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:66627897 original size:27 final size:27
Alignment explanation
Indices: 66627862--66627972 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
66627852 ATCGTCATTC
*
66627862 TACCATACAGGGGTATTACGGTTATTT
1 TACCCTACAGGGGTATTACGGTTATTT
* * *
66627889 CACCCTACAGGAGCATTACGGTTATTT
1 TACCCTACAGGGGTATTACGGTTATTT
* * *
66627916 TACCCTAAAAGGGTATTACGGTCATTT
1 TACCCTACAGGGGTATTACGGTTATTT
* * *
66627943 TACACTACCA-GGGTATTTCGGTAATTT
1 TACCCTA-CAGGGGTATTACGGTTATTT
66627970 TAC
1 TAC
66627973 AAACCAGGTG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
27 68 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTACGGTTATTT
Found at i:66628003 original size:22 final size:22
Alignment explanation
Indices: 66627978--66628029 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
66627968 TTTACAAACC
*
66627978 AGGTGGCCCATTACTTGGCCTA
1 AGGTGGCCCATTACTTGGCCCA
66628000 AGGT---CCATTACTTGGCCCA
1 AGGTGGCCCATTACTTGGCCCA
66628019 A-GTGGGCCCAT
1 AGGT-GGCCCAT
66628030 ACGCTCGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
22 8 0.32
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (22 bp):
AGGTGGCCCATTACTTGGCCCA
Found at i:66631173 original size:23 final size:23
Alignment explanation
Indices: 66631143--66631267 Score: 123
Period size: 23 Copynumber: 5.4 Consensus size: 23
66631133 AGGTTAGTGT
*
66631143 TTTCAGCTCATTGGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACCG
* **
66631166 TTTCAGCTC-GTATGAGCTTATTG
1 TTTCAGCTCATTA-GAGCTTACCG
* *
66631189 -TTCAGCTCAATAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
66631211 -TTCAGCTCGA-TAGAGCTTACCG
1 TTTCAGCTC-ATTAGAGCTTACCG
*
66631233 TTTCAGCTCATTAGAGCTTACAG
1 TTTCAGCTCATTAGAGCTTACCG
66631256 TTTATCAGCTCA
1 -TT-TCAGCTCA
66631268 GGAGGAGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
22 38 0.44
23 39 0.45
24 2 0.02
25 8 0.09
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:66631195 original size:22 final size:22
Alignment explanation
Indices: 66631156--66631253 Score: 110
Period size: 22 Copynumber: 4.4 Consensus size: 22
66631146 CAGCTCATTG
*
66631156 GAGCTTACCGTTTCAGCTCG-TA
1 GAGCTTACTG-TTCAGCTCGATA
* *
66631178 TGAGCTTATTGTTCAGCTCAATA
1 -GAGCTTACTGTTCAGCTCGATA
66631201 GAGCTTACTGTTCAGCTCGATA
1 GAGCTTACTGTTCAGCTCGATA
*
66631223 GAGCTTACCGTTTCAGCTC-ATTA
1 GAGCTTACTG-TTCAGCTCGA-TA
66631246 GAGCTTAC
1 GAGCTTAC
66631254 AGTTTATCAG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
22 38 0.58
23 28 0.42
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCGATA
Found at i:66631205 original size:45 final size:45
Alignment explanation
Indices: 66631106--66631258 Score: 148
Period size: 45 Copynumber: 3.3 Consensus size: 45
66631096 CATCTCGTAT
* * * *
66631106 GAGCTTACCGATATATCAGCTCGTAAGAGGTTAGTGTTTTCAGCTCATTG
1 GAGCTTACCG-T-T-TCAGCTCGTATGAGCTTA-T-TGTTCAGCTCATTA
*
66631156 GAGCTTACCGTTTCAGCTCGTATGAGCTTATTGTTCAGCTCAATA
1 GAGCTTACCGTTTCAGCTCGTATGAGCTTATTGTTCAGCTCATTA
* **
66631201 GAGCTTACTG-TTCAGCTCG-ATAGAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACCGTTTCAGCTCGTAT-GAGCTTATTG-TTCAGCTCATTA
*
66631246 GAGCTTACAGTTT
1 GAGCTTACCGTTT
66631259 ATCAGCTCAG
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.02
44 17 0.19
45 40 0.44
46 3 0.03
47 16 0.18
48 1 0.01
49 1 0.01
50 10 0.11
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (45 bp):
GAGCTTACCGTTTCAGCTCGTATGAGCTTATTGTTCAGCTCATTA
Found at i:66636710 original size:26 final size:26
Alignment explanation
Indices: 66636681--66636737 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
66636671 TGCTTTTAAG
66636681 TAATTTTGGT-TGTT-TAATTAAAAGGT
1 TAATTTTGGTAT-TTATAATT-AAAGGT
66636707 TAATTTTGGTATTTAATAATTAAAGGT
1 TAATTTTGGTATTT-ATAATTAAAGGT
66636734 TAAT
1 TAAT
66636738 AATAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.43
27 11 0.39
28 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (26 bp):
TAATTTTGGTATTTATAATTAAAGGT
Found at i:66655297 original size:43 final size:42
Alignment explanation
Indices: 66655232--66655346 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
66655222 AGCTCGTACA
* *
66655232 ATGCCATATCCCAAATATGGTCTTACATGTTATCACA-TATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTTATCA-ATTAACG
* *
66655274 ATGCCACTATCCCAGATAGGGTCTTACACG-TATCAATTAACG
1 ATGCCA-TATCCCAGATATGGTCTTACATGTTATCAATTAACG
* * *
66655316 ATGCCAATGTCCTAGACATGGTCTTACATGT
1 ATGCC-ATATCCCAGATATGGTCTTACATGT
66655347 AATCTCATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 38 0.63
43 21 0.35
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTTATCAATTAACG
Found at i:66656652 original size:21 final size:22
Alignment explanation
Indices: 66656606--66656652 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
66656596 TACAAGGCTC
**
66656606 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
66656628 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
66656649 ACAC
1 ACAC
66656653 CCCTTGCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:66659075 original size:40 final size:40
Alignment explanation
Indices: 66659019--66659211 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
66659009 TTGGATAATA
* *
66659019 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATG
* * *
66659059 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
*
66659099 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* *
66659139 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
* *
66659179 ACTGGGCTAAGTCCCGAAGGCATTTGGGCGAGT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
66659212 AGCTATATCC
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
Found at i:66682395 original size:40 final size:40
Alignment explanation
Indices: 66682351--66682614 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
66682341 GCTCCTCGTT
* *
66682351 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66682391 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
66682431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
66682471 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66682511 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
66682550 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
66682591 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66682615 CAGCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66683711 original size:13 final size:13
Alignment explanation
Indices: 66683693--66683717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66683683 GGATGAGCAT
66683693 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
66683706 TTTTTTTTCTTT
1 TTTTTTTTCTTT
66683718 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:66691213 original size:28 final size:29
Alignment explanation
Indices: 66691181--66691278 Score: 135
Period size: 29 Copynumber: 3.4 Consensus size: 29
66691171 AGTAAGTCCA
* * * * *
66691181 CACACTTAGTGTTATATAA-TCGATCTCG
1 CACACTTAGTGCTATACAACTTGAACCCG
66691209 CACACTTAGTGCTATACAACTTGAACCCG
1 CACACTTAGTGCTATACAACTTGAACCCG
*
66691238 CACACTTAGTGCTATACAATTTGAACCCG
1 CACACTTAGTGCTATACAACTTGAACCCG
66691267 CACACTTAGTGC
1 CACACTTAGTGC
66691279 CAATTTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 17 0.27
29 46 0.73
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCTATACAACTTGAACCCG
Found at i:66710729 original size:27 final size:26
Alignment explanation
Indices: 66710682--66710761 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
66710672 ATCAGTCAAT
* *
66710682 AGATATTGTGACAAAGTCACCAGATAC
1 AGATATTGTGGCAAAGCCACCAGA-AC
*
66710709 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAAAGCCACCAGAAC
*
66710735 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAAAGCCACCAGAAC
66710762 GCTTCCTCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAAAGCCACCAGAAC
Found at i:66711005 original size:27 final size:26
Alignment explanation
Indices: 66710941--66711006 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
66710931 CAGTCACTTG
* *
66710941 CCCACAAGGGCAAAATAGTCATTTAC
1 CCCACAAGGGTAAAATAGTAATTTAC
* *
66710967 CACC-CTAGGGGTAAAATGGTAATTTTAC
1 C-CCAC-AAGGGTAAAATAGTAA-TTTAC
66710995 CCCACAAGGGTA
1 CCCACAAGGGTA
66711007 TCTTGATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
26 2 0.06
27 22 0.71
28 7 0.23
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (26 bp):
CCCACAAGGGTAAAATAGTAATTTAC
Done.