Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 195 of 320
Found at i:65014066 original size:21 final size:20
Alignment explanation
Indices: 65014038--65014077 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65014028 CACTTAAAAC
65014038 AGGGAACACGCCCGTGTGGA
1 AGGGAACACGCCCGTGTGGA
* *
65014058 AGGGCAACATGCCTGTGTGG
1 AGGG-AACACGCCCGTGTGG
65014078 CCCTATTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGAACACGCCCGTGTGGA
Found at i:65020028 original size:39 final size:39
Alignment explanation
Indices: 65019974--65020227 Score: 286
Period size: 39 Copynumber: 6.5 Consensus size: 39
65019964 CGGATGATAA
* * *
65019974 CCGGGCTAAGT-CCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
65020013 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
65020052 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATTACCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
65020091 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
65020131 TCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
65020171 CCGGGCTACGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
65020210 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65020228 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.08
39 97 0.50
40 82 0.42
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:65020118 original size:40 final size:39
Alignment explanation
Indices: 65019974--65020201 Score: 296
Period size: 39 Copynumber: 5.8 Consensus size: 39
65019964 CGGATGATAA
* * * **
65019974 CCGGGCTAAGTCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTACAT
*
65020013 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTACAT
* *
65020052 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACCT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTACAT
*
65020091 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTACAT
* * *
65020131 TCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTACAT
* *
65020171 CCGGGCTACGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGT
65020202 AGCTATATCC
Statistics
Matches: 172, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 90 0.52
40 82 0.48
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:65020200 original size:79 final size:78
Alignment explanation
Indices: 65019975--65020209 Score: 305
Period size: 79 Copynumber: 3.0 Consensus size: 78
65019965 GGATGATAAC
* * *
65019975 CGGGCTAAGTCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGT-CCGAAGGCATTTGTG
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-TTCCGGGCTAAGTCCCGAAGGCATTTGTG
* * *
65020039 CGAGTTATTACATC
65 CGAGTTACTATATT
* *
65020053 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACCTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-TTCCGGGCTAAGTCCCGAAGGCATTTGTG
65020118 CGAGTTACTATATT
65 CGAGTTACTATATT
* * *
65020132 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTACGTCCCGAAGGCA-TTGA
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
65020196 GCGAG-TAGCTATAT
64 GCGAGTTA-CTATAT
65020210 CCGGTTAAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 45 0.32
79 50 0.36
80 44 0.32
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTTACTATATT
Found at i:65028226 original size:40 final size:39
Alignment explanation
Indices: 65028171--65028401 Score: 311
Period size: 40 Copynumber: 5.8 Consensus size: 39
65028161 CGGATGATAA
* * *
65028171 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
65028211 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* *
65028251 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
65028291 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
65028331 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* *
65028371 CCGGGCTACGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65028402 AGCTATATCT
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 8 0.05
40 168 0.95
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:65028384 original size:120 final size:119
Alignment explanation
Indices: 65028171--65028401 Score: 356
Period size: 120 Copynumber: 1.9 Consensus size: 119
65028161 CGGATGATAA
* *
65028171 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* *
65028236 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACAT
* * *
65028291 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
65028355 GTGCGAGTTACTATATCCGGGCTACGTCCCGAAGGCATTGAGCGAGT
65 GTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
65028402 AGCTATATCT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
119 10 0.10
120 91 0.90
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:65036429 original size:40 final size:40
Alignment explanation
Indices: 65036371--65036665 Score: 357
Period size: 40 Copynumber: 7.5 Consensus size: 40
65036361 GGATGATAAT
** * * * *
65036371 CGGGCTAAGTTTCAAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
* *
65036411 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
65036451 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
65036491 CGGGCTAAGTCCCTTAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
65036531 C-GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
65036570 CGGGCTACGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
65036610 CGGGCTACGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
65036649 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
65036666 TACTTGGCTT
Statistics
Matches: 229, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
38 15 0.07
39 51 0.22
40 163 0.71
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:65036582 original size:79 final size:79
Alignment explanation
Indices: 65036409--65036665 Score: 349
Period size: 79 Copynumber: 3.3 Consensus size: 79
65036399 AGTGACTAGT
* *
65036409 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA-TT
* * *
65036474 GTGCAAGTTATTACA
65 GTGCGAGTTACTATA
**
65036489 TCCGGGCTAAGTCCCTTAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT-
65036553 GTGCGAGTTACTATA
65 GTGCGAGTTACTATA
* * *
65036568 TCCGGGCTACGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTACGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTG
*
65036633 AGCGAG-TAGCTATA
66 TGCGAGTTA-CTATA
* *
65036647 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
65036666 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
78 17 0.11
79 83 0.53
80 58 0.37
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTG
TGCGAGTTACTATA
Found at i:65036583 original size:119 final size:119
Alignment explanation
Indices: 65036371--65036665 Score: 362
Period size: 119 Copynumber: 2.5 Consensus size: 119
65036361 GGATGATAAT
** * * * * *
65036371 CGGGCTAAGTTTCAAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-TATCC-GGCTAAGTCCCGAAGGCATTGG
* * *
65036435 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACATC
64 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTACATC
** *
65036491 CGGGCTAAGTCCCTTAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGTG
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGTG
* * * *
65036556 CGAGTTACTATATCCGGGCTACGTCCCGAAGGCATTGGTGCGAGTTACTATATC
66 CGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTACATC
* * *
65036610 CGGGCTACGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
65036666 TACTTGGCTT
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
117 2 0.01
118 30 0.20
119 88 0.58
120 32 0.21
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (119 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTGGTG
CGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTACATC
Found at i:65039456 original size:51 final size:51
Alignment explanation
Indices: 65039324--65039480 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
65039314 AAGATGTTTA
*
65039324 TCACACATCAAACTTTGACATTCTTCCATTAAACATCAAAATACATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
* *
65039375 TCACA-ATCAAACTTTTACATTCTTCCATTAAACATCAAAATAGATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
65039425 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
1 TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
65039476 TCACA
1 TCACA
65039481 TATGGGTAAG
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 48 0.48
51 53 0.52
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (51 bp):
TCACACATCAAACTTTCACATTCTTCCATTAAACATCAAAATACATGCATG
Found at i:65041342 original size:33 final size:33
Alignment explanation
Indices: 65041305--65041371 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
65041295 TACACAAATC
*
65041305 AAAACAATTTATTTCACTATTCATGATAAAACT
1 AAAACAATTTATTTCACTATTCATAATAAAACT
65041338 AAAACAATTTATTTCACTATTCATAATAAAACT
1 AAAACAATTTATTTCACTATTCATAATAAAACT
65041371 A
1 A
65041372 TCCATCCGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (33 bp):
AAAACAATTTATTTCACTATTCATAATAAAACT
Found at i:65043634 original size:38 final size:38
Alignment explanation
Indices: 65043504--65043761 Score: 308
Period size: 39 Copynumber: 6.7 Consensus size: 38
65043494 TTGAATGCTG
* * *
65043504 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTA-A
* * *
65043543 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
65043582 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
*
65043621 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
65043659 TCCGGG-TAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
65043697 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-A
* *
65043736 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
65043762 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 15, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
37 33 0.17
38 51 0.26
39 69 0.35
40 37 0.19
41 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:65051550 original size:39 final size:40
Alignment explanation
Indices: 65051449--65051711 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
65051439 TTGAATGTTG
* *
65051449 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
65051488 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
65051529 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
65051568 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
65051607 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
65051646 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
65051685 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
65051712 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
39 112 0.55
40 77 0.38
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:65058416 original size:46 final size:49
Alignment explanation
Indices: 65058327--65058431 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 49
65058317 TACATGAATT
* * **
65058327 ATTCCTGTCTCCAATGCCATATATATATTTAATATGGGTTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCA-ATATATACTTAATATGGACTTACATGGCTC
65058377 ATTCCTGTCTCCAAAGCC-ATATAT-CTT-ATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATACTTAATATGGACTTACATGGCTC
65058423 ACTT-CTGTC
1 A-TTCCTGTC
65058432 CTGTCCTGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 23 0.46
47 4 0.08
48 6 0.12
50 17 0.34
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (49 bp):
ATTCCTGTCTCCAAAGCCAATATATACTTAATATGGACTTACATGGCTC
Found at i:65058437 original size:5 final size:5
Alignment explanation
Indices: 65058427--65058451 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
65058417 TGGCTCACTT
65058427 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
65058452 AACCCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:65059283 original size:16 final size:16
Alignment explanation
Indices: 65059259--65059290 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65059249 GAAGATGATG
65059259 AATTCAGTGTTATTTT
1 AATTCAGTGTTATTTT
*
65059275 AATTTAGTGTTATTTT
1 AATTCAGTGTTATTTT
65059291 TTCCTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AATTCAGTGTTATTTT
Found at i:65062693 original size:42 final size:43
Alignment explanation
Indices: 65062628--65062737 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 43
65062618 GACTTATGAT
*
65062628 TTACGTGTAAGACCATGTTTGGGACA-TCGGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTTTGGGACAGT-GGCACCGATATTTGA
** * *
65062670 TTTTGTGTAAGACCCTGTCTGGGACAGTGGCACCGATATTTGA
1 TTACGTGTAAGACCATGTTTGGGACAGTGGCACCGATATTTGA
*
65062713 TTACATGTAAGACCATGTTTGGGAC
1 TTACGTGTAAGACCATGTTTGGGAC
65062738 GTTGGCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTTTGGGACAGTGGCACCGATATTTGA
Found at i:65062744 original size:43 final size:42
Alignment explanation
Indices: 65062628--65062744 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
65062618 GACTTATGAT
* * *
65062628 TTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGA
1 TTACGTGTAAGACCATGTTTGGGACGTTGGCACCGTATTTGA
** * *
65062670 TTTTGTGTAAGACCCTGTCTGGGACAG-TGGCACCGATATTTGA
1 TTACGTGTAAGACCATGTTTGGGAC-GTTGGCACCG-TATTTGA
*
65062713 TTACATGTAAGACCATGTTTGGGACGTTGGCA
1 TTACGTGTAAGACCATGTTTGGGACGTTGGCA
65062745 TTGTATGAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTTTGGGACGTTGGCACCGTATTTGA
Found at i:65069827 original size:42 final size:43
Alignment explanation
Indices: 65069758--65069853 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
65069748 TATGATTTAT
* * * * *
65069758 GTGTAAGACCATGTCCGGGACATTGGCATTG-TATTTGATTTC
1 GTGTAAGACCATATCCGAGACAGTGGCATCGATATTTGATTAC
* *
65069800 GTGTAAGACCCTATCTGAGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATATCCGAGACAGTGGCATCGATATTTGATTAC
*
65069843 ATGTAAGACCA
1 GTGTAAGACCA
65069854 CATCTAGGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATATCCGAGACAGTGGCATCGATATTTGATTAC
Found at i:65069870 original size:43 final size:43
Alignment explanation
Indices: 65069713--65069871 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
65069703 ATTCCATATC
* ** *
65069713 CGTGTAAGACCACGTCTAGGATGTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACATCTAGGACATTGGCATCGA-TATTTGA-TTA
* ** ** * *
65069757 TGTGTAAGACCATGTCCGGGACATTGGCATTG-TATTTGATTT
1 CGTGTAAGACCACATCTAGGACATTGGCATCGATATTTGATTA
*
65069799 CGTGTAAGACC-CTATCT-GAGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-ATCTAG-GACATTGGCATCGATATTTGATTA
* *
65069842 CATGTAAGACCACATCTAGGATATTGGCAT
1 CGTGTAAGACCACATCTAGGACATTGGCAT
65069872 TGTATGACCT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 27 0.30
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACATCTAGGACATTGGCATCGATATTTGATTA
Found at i:65070064 original size:29 final size:29
Alignment explanation
Indices: 65070017--65070074 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
65070007 AAAGGTAAGT
* *
65070017 ACCTGTACCTTGGTGAACATATGATATAA
1 ACCTGTACCTTGCTAAACATATGATATAA
*
65070046 ACCTGTACTTTGCTAAACATATGATATAA
1 ACCTGTACCTTGCTAAACATATGATATAA
65070075 GTATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (29 bp):
ACCTGTACCTTGCTAAACATATGATATAA
Found at i:65081339 original size:25 final size:25
Alignment explanation
Indices: 65081287--65081378 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
65081277 TCCTATACAT
* * * * *
65081287 GTATGCTCACACGAACTGTGAATCG
1 GTATGCTCTCACGAGCTATAAATTG
* * * *
65081312 GTATGCTTTCACGGGTTGTAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
65081337 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
*
65081362 GTATGCTCTCACAAGCT
1 GTATGCTCTCACGAGCT
65081379 GTGGAGTATC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATTG
Found at i:65092922 original size:58 final size:59
Alignment explanation
Indices: 65092748--65092991 Score: 337
Period size: 59 Copynumber: 4.2 Consensus size: 59
65092738 AGTGCCATAG
* * * * * *
65092748 ATCACAGAATCACATGCCTTTCAACGAGGCTACTCAAAAGCACCTGGGCCCTAGGATGT
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* *
65092807 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGT
*
65092866 ATCACATATTCACATGCCTCTCAAC-AGGCTACTCAAAAGCACCCGGACTCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGT
* * * * * *
65092924 ATGACATAATCACATGCCTCTCAATGGGGCTACTCAAAGGCATCCGGACCCTAGCATGT
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGT
*
65092983 ATTACATAT
1 ATCACATAT
65092992 CAATTTAGCT
Statistics
Matches: 164, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 52 0.32
59 112 0.68
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (59 bp):
ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGT
Found at i:65092955 original size:117 final size:118
Alignment explanation
Indices: 65092748--65092991 Score: 357
Period size: 117 Copynumber: 2.1 Consensus size: 118
65092738 AGTGCCATAG
* * * * * *
65092748 ATCACAGAATCACATGCCTTTCAACGAGGCTACTCAAAAGCACCTGGGCCCTAGGATGTATCACA
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
*
65092813 TATTCACATGCCTCTCAACGGGGCTACTCAAAAGCA-CTCGGACCCTAGCATGT
66 TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATC-CGGACCCTAGCATGT
* *
65092866 ATCACATATTCACATGCCTCTCAAC-AGGCTACTCAAAAGCACCCGGACTCTAGCATGTATGACA
1 ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
* *
65092930 TAATCACATGCCTCTCAATGGGGCTACTCAAAGGCATCCGGACCCTAGCATGT
66 TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATCCGGACCCTAGCATGT
*
65092983 ATTACATAT
1 ATCACATAT
65092992 CAATTTAGCT
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
117 90 0.80
118 23 0.20
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (118 bp):
ATCACATATTCACATGCCTCTCAACGAGGCTACTCAAAAGCACCCGGACCCTAGCATGTATCACA
TAATCACATGCCTCTCAACGGGGCTACTCAAAAGCATCCGGACCCTAGCATGT
Found at i:65096889 original size:12 final size:12
Alignment explanation
Indices: 65096872--65096897 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65096862 ATGACATCAC
65096872 ATTTTCAGAAAA
1 ATTTTCAGAAAA
65096884 ATTTTCAGAAAA
1 ATTTTCAGAAAA
65096896 AT
1 AT
65096898 CTGATATCTC
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:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTTTCAGAAAA
Found at i:65102526 original size:14 final size:13
Alignment explanation
Indices: 65102509--65102547 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
65102499 AGTAGTTTAA
65102509 AAAAAGATAAAAAT
1 AAAAA-ATAAAAAT
65102523 AAAAACATAAAAAT
1 AAAAA-ATAAAAAT
*
65102537 AATAAATAAAA
1 AAAAAATAAAA
65102548 GTCTTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:65112837 original size:7 final size:7
Alignment explanation
Indices: 65112825--65112864 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
65112815 GAATGAATGA
65112825 ATGAGGG
1 ATGAGGG
65112832 ATGAGGG
1 ATGAGGG
65112839 ATGAGGG
1 ATGAGGG
65112846 ATGAGGG
1 ATGAGGG
*
65112853 ATGAGGA
1 ATGAGGG
65112860 ATGAG
1 ATGAG
65112865 TAGGGGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.53, T:0.15
Consensus pattern (7 bp):
ATGAGGG
Found at i:65122028 original size:33 final size:34
Alignment explanation
Indices: 65121991--65122055 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
65121981 ATCTCAGTTA
*
65121991 GGGCCTTCGCCC-ATTTAGTAACAGTATCAGTGC
1 GGGCCTTAGCCCAATTTAGTAACAGTATCAGTGC
65122024 GGGCCTTAGCCCAATTTAGTAACAGTATCAGT
1 GGGCCTTAGCCCAATTTAGTAACAGTATCAGT
65122056 ACAAAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (34 bp):
GGGCCTTAGCCCAATTTAGTAACAGTATCAGTGC
Found at i:65127025 original size:21 final size:22
Alignment explanation
Indices: 65126999--65127039 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65126989 CACTAGACAC
*
65126999 AGGGGC-ACACGCCTGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
65127020 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
65127040 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:65143541 original size:17 final size:18
Alignment explanation
Indices: 65143519--65143552 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
65143509 GTTTTGTTTA
65143519 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
65143536 AATAAATTAATATGCAT
1 AATAAATTAATATGCAT
65143553 ATATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:65150791 original size:21 final size:22
Alignment explanation
Indices: 65150765--65150805 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
65150755 CACTAGACAT
65150765 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
65150786 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
65150806 ACCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.29, G:0.44, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:65150984 original size:41 final size:41
Alignment explanation
Indices: 65150939--65151033 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
65150929 ATGTCCTGGC
*
65150939 ACACGCCCGTGTCCATGGCCCGTGTCCCTCACACGGCCATG
1 ACACGCCCGTGTCCATGGCCAGTGTCCCTCACACGGCCATG
*
65150980 ACACGCCCGTGACCATGGCCAGTGTCCCTCACACGGCCATG
1 ACACGCCCGTGTCCATGGCCAGTGTCCCTCACACGGCCATG
* *
65151021 ACATGCCCATGTC
1 ACACGCCCGTGTC
65151034 TTAGCCCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.18, C:0.42, G:0.23, T:0.17
Consensus pattern (41 bp):
ACACGCCCGTGTCCATGGCCAGTGTCCCTCACACGGCCATG
Found at i:65152081 original size:46 final size:44
Alignment explanation
Indices: 65151995--65152117 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
65151985 GGGTATAATA
* *
65151995 CCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTTGTA-G
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTAACACATCTCG-AGG
* **
65152041 CCGATGCATGTCCTAGACATGTCTTATACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCTAGACATGTCTTACACTAAC--ACATCTCGAGG
* *
65152087 CCGATACATGTCTTAGACATGTCTTACACTA
1 CCGATGCATGTCCTAGACATGTCTTACACTA
65152118 GCTCTAGTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.15
45 14 0.22
46 41 0.63
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (44 bp):
CCGATGCATGTCCTAGACATGTCTTACACTAACACATCTCGAGG
Found at i:65152136 original size:46 final size:47
Alignment explanation
Indices: 65152040--65152170 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 47
65152030 ACATCTTGTA
* * *
65152040 GCCGATGCATGTCCTAGACATGTCTTATACTGGCT-TACATCTCGAG
1 GCCGATACATGTCCTAGACATGTCTTACACTGGCTCTACATCTCAAG
* * * * *
65152086 GCCGATACATGTCTTAGACATGTCTTACACTAGCTCTA-GTTTCAAT
1 GCCGATACATGTCCTAGACATGTCTTACACTGGCTCTACATCTCAAG
** *
65152132 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 GCCGA-TACATGTCCTAGACAT-GTCTTACACTGGCTCT
65152171 CGTAATGTGG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 40 0.58
47 14 0.20
48 15 0.22
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
GCCGATACATGTCCTAGACATGTCTTACACTGGCTCTACATCTCAAG
Found at i:65155526 original size:37 final size:37
Alignment explanation
Indices: 65155476--65155554 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65155466 TTATTACGAA
* * *
65155476 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
65155513 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65155550 GTCTT
1 GTCTT
65155555 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:65155824 original size:47 final size:47
Alignment explanation
Indices: 65155673--65156145 Score: 734
Period size: 47 Copynumber: 10.1 Consensus size: 47
65155663 CCCTTCGGGA
* * * * * * *
65155673 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65155720 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65155766 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65155813 CTTAAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTT-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65155860 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65155907 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65155954 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65156001 CTTATCACACATATAAACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65156048 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65156095 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65156142 CTTA
1 CTTA
65156146 CTATCATTTC
Statistics
Matches: 398, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 41 0.10
47 355 0.89
48 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65158664 original size:20 final size:19
Alignment explanation
Indices: 65158639--65158689 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
65158629 CTTTATTCTA
65158639 TTAATTTATTCATTTTTATT
1 TTAATTTATT-ATTTTTATT
* *
65158659 TTAATTTTAATATTTTTGTT
1 TTAA-TTTATTATTTTTATT
65158679 TTAAATTTATT
1 TT-AATTTATT
65158690 TTTACATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTAATTTATTATTTTTATT
Found at i:65161343 original size:93 final size:93
Alignment explanation
Indices: 65161184--65161371 Score: 358
Period size: 93 Copynumber: 2.0 Consensus size: 93
65161174 AATGTAGCTT
65161184 TAGTACTTAATAACTTCGTATAAAAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
1 TAGTACTTAATAACTTCGTATAAAAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
65161249 CATAAATATATATTCCATCAATTTTGGG
66 CATAAATATATATTCCATCAATTTTGGG
* *
65161277 TAGTACTTAGTAACTTCGTATAATAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
1 TAGTACTTAATAACTTCGTATAAAAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
65161342 CATAAATATATATTCCATCAATTTTGGG
66 CATAAATATATATTCCATCAATTTTGGG
65161370 TA
1 TA
65161372 AGTTACCTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (93 bp):
TAGTACTTAATAACTTCGTATAAAAGAAAGTAAACTTACTGGTCTTATTTATTAACACAAGCACA
CATAAATATATATTCCATCAATTTTGGG
Found at i:65161687 original size:17 final size:18
Alignment explanation
Indices: 65161648--65161686 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
65161638 TTAATAATTA
*
65161648 AAAACTTATACCCTTTTT
1 AAAACTTATACCATTTTT
65161666 AAAACTTATACCATTTTT
1 AAAACTTATACCATTTTT
65161684 AAA
1 AAA
65161687 CCTTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACTTATACCATTTTT
Found at i:65162499 original size:26 final size:26
Alignment explanation
Indices: 65162431--65162507 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
65162421 ATGGCTGCCG
* *
65162431 GAACAGATATTGTGACAGAGTCACCA
1 GAACAGATATTGTGGCAGAGCCACCA
65162457 GATACAGATATTGTGGCAGAGCCACCA
1 GA-ACAGATATTGTGGCAGAGCCACCA
* * *
65162484 GAACAGATAATATGGCAAAGCCAC
1 GAACAGATATTGTGGCAGAGCCAC
65162508 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
GAACAGATATTGTGGCAGAGCCACCA
Found at i:65162700 original size:22 final size:22
Alignment explanation
Indices: 65162666--65162729 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
65162656 GCAAATACGT
*
65162666 TTGGTACACAGCCATAATCAGG
1 TTGGTACAAAGCCATAATCAGG
* * *
65162688 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGTACAAAGCCATAAT-CAGG
*
65162710 TTGGTGCAAAGCCATAATCA
1 TTGGTACAAAGCCATAATCA
65162730 AAAGGCTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
TTGGTACAAAGCCATAATCAGG
Found at i:65163188 original size:27 final size:27
Alignment explanation
Indices: 65163158--65163491 Score: 304
Period size: 27 Copynumber: 12.4 Consensus size: 27
65163148 GGGGCAAAAT
* * *
65163158 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
65163185 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
65163212 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
65163239 GGTAATTCTATCCTAC-AGGGTTATTTC
1 GGTAATTTTACCCTACAAGGG-TATTTC
* * * *
65163266 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
65163293 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
65163320 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
65163347 AGTAATTCTACCCTACAGGGGT-TTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
65163373 GGT-ATTTCTACCCTACTAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
65163400 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * * *
65163427 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
65163454 AGTAATTCTACCCTACAAGGGTACTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
65163481 AGTAATTTTAC
1 GGTAATTTTAC
65163492 AAATCCAGGG
Statistics
Matches: 253, Mismatches: 44, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.01
26 27 0.11
27 211 0.83
28 12 0.05
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:65163293 original size:81 final size:80
Alignment explanation
Indices: 65163158--65163514 Score: 403
Period size: 81 Copynumber: 4.4 Consensus size: 80
65163148 GGGGCAAAAT
* * * * *
65163158 GGTAATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
1 GGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
65163223 CCTACAAGGGTATTTC
65 CCTACAAGGGTATTTC
* * **
65163239 GGTAATTCTATCCTACAGGGTTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGCATTTCTAC
1 GGTAATTCTACCCTACAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
65163304 CCTACAAGGGTATTTC
65 CCTACAAGGGTATTTC
* * *
65163320 GGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGT-TTTCGGTATTTCTAC
1 GGTAATTCTACCCTACA-GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTAC
* *
65163384 CCTACTAGGGTATTTT
65 CCTACAAGGGTATTTC
* * * * * *
65163400 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTT-TAGTAATTCTA
1 GGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA-TATTTCTA
*
65163464 CCCTACAAGGGTACTTC
64 CCCTACAAGGGTATTTC
* * ** * *
65163481 AGTAATTTTACAAATCCAGGGTATTTTAGTAATT
1 GGTAATTCTAC-CCTACAGGGTATTTCAGTAATT
65163515 TTGTAAATTA
Statistics
Matches: 236, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
80 74 0.31
81 157 0.67
82 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACC
CTACAAGGGTATTTC
Found at i:65163486 original size:54 final size:54
Alignment explanation
Indices: 65163185--65163487 Score: 378
Period size: 54 Copynumber: 5.6 Consensus size: 54
65163175 AGGATATCTC
* * * * * *
65163185 GGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTT
* * *
65163239 GGTAATTCTATCCTAC-AGGGTTATTTCAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTATAGGGGTATTTT
* * * *
65163293 GGCATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTT
* * *
65163347 AGTAATTCTACCCTACAGGGGT-TTTCGGTATTTCTACCCTACTA-GGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-TAGGGGTATTTT
* *
65163400 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTT
* * *
65163454 AGTAATTCTACCCTACAAGGGTACTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
65163488 TTACAAATCC
Statistics
Matches: 216, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
53 52 0.24
54 160 0.74
55 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTT
Found at i:65163501 original size:27 final size:27
Alignment explanation
Indices: 65163471--65163675 Score: 193
Period size: 27 Copynumber: 7.7 Consensus size: 27
65163461 CTACCCTACA
* *
65163471 AGGGTACTTCAGTAATTTTACAAATCC
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** **
65163498 AGGGTATTTTAGTAATTTTGTAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
65163525 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
65163552 AAGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
65163578 ACGGTATTTC-GATATTTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
** *
65163605 AGGGTATTTGGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
65163632 AGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
65163658 GGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
65163676 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.03
26 34 0.23
27 107 0.72
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:65163528 original size:54 final size:54
Alignment explanation
Indices: 65163469--65163681 Score: 216
Period size: 54 Copynumber: 4.0 Consensus size: 54
65163459 TTCTACCCTA
* *
65163469 CAAGGGTACTTCAGTAATTTTACAAATCCAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAT
* * * * *
65163523 TAAGGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAA-TTT-TACAAT
1 CAAGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTA-AAT
* * * * * ** *
65163576 CGACGGTATTTCGATATTTTTACAAATCGAGGGTATTTGGGTAATTTTATAAAT
1 CAAGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAT
* * * * *
65163630 CGAGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTTAGTAATTTGGTAAA
1 CAAGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAA
65163682 CTAAAGTATT
Statistics
Matches: 129, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
52 2 0.02
53 61 0.47
54 64 0.50
55 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTACTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGTAAAT
Found at i:65163611 original size:53 final size:52
Alignment explanation
Indices: 65163417--65163675 Score: 209
Period size: 54 Copynumber: 4.9 Consensus size: 52
65163407 CTACCCTACA
* ** * * ** *
65163417 AGGGTATTTCGGTAATTCTACCTTATAG-GGGTATTTTAGTAATTCTACCCTACA
1 AGGGTATTTCGGTAATTTTA-CAAATCGAGGGTATTTTAGTAATTTTA-AAT-CG
* * * **
65163471 AGGGTACTTCAGTAATTTTACAAATCCAGGGTATTTTAGTAATTTTGTAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAA-TTT-TAAATCG
* * *
65163525 AGGGTATTTCGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTTACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTA-AATCG
* * * **
65163578 ACGGTATTTCGATATTTTTACAAATCGAGGGTATTTGGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAA-TTT-TAAATCG
* *
65163632 AGGGTACTTT-GGTAATTTTACAACT-GGGGGTATTTTAGTAATTT
1 AGGGTA-TTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTT
65163676 GGTAAACTAA
Statistics
Matches: 165, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
52 5 0.03
53 57 0.35
54 93 0.56
55 8 0.05
56 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (52 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAAATCG
Found at i:65176956 original size:22 final size:22
Alignment explanation
Indices: 65176924--65176974 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
65176914 CCCTACAAGT
*
65176924 TTGGCATGGCCTAGCACACGGC
1 TTGGCACGGCCTAGCACACGGC
*
65176946 TTGGCACGGCCTAGCACATGGC
1 TTGGCACGGCCTAGCACACGGC
65176968 TTGGCAC
1 TTGGCAC
65176975 ATGGGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (22 bp):
TTGGCACGGCCTAGCACACGGC
Found at i:65180213 original size:20 final size:20
Alignment explanation
Indices: 65180188--65180229 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
65180178 AAACAAAAAT
* * *
65180188 ATTAAACATTAAATCTAAAC
1 ATTAAAAATAAAATATAAAC
65180208 ATTAAAAATAAAATATAAAC
1 ATTAAAAATAAAATATAAAC
65180228 AT
1 AT
65180230 ATAATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTAAAAATAAAATATAAAC
Found at i:65180739 original size:6 final size:7
Alignment explanation
Indices: 65180723--65180748 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65180713 CCGATGTGGC
65180723 TTTTTAT
1 TTTTTAT
65180730 TTTTTAT
1 TTTTTAT
65180737 TTTTTAT
1 TTTTTAT
65180744 TTTTT
1 TTTTT
65180749 GCCAGCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:65181568 original size:15 final size:15
Alignment explanation
Indices: 65181548--65181577 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65181538 TTAAAATTTT
65181548 ATTTTTTTTAATATC
1 ATTTTTTTTAATATC
65181563 ATTTTTTTTAATATC
1 ATTTTTTTTAATATC
65181578 GAAATACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTTTAATATC
Found at i:65182910 original size:20 final size:21
Alignment explanation
Indices: 65182861--65182904 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
65182851 AGCGAAACGA
65182861 CAGCAAAACAATGACAAAATAG
1 CAGCAAAACAATGA-AAAATAG
65182883 CAGCAAAACAATG-AAAATAG
1 CAGCAAAACAATGAAAAATAG
65182903 CA
1 CA
65182905 TGAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (21 bp):
CAGCAAAACAATGAAAAATAG
Found at i:65182912 original size:22 final size:21
Alignment explanation
Indices: 65182865--65182911 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
65182855 AAACGACAGC
*
65182865 AAAACAATGACAAAATAGCAGC
1 AAAACAATGA-AAAATAGCAGA
65182887 AAAACAATG-AAAATAGCATGA
1 AAAACAATGAAAAATAGCA-GA
65182908 AAAA
1 AAAA
65182912 ATAAGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 9 0.39
ACGTcount: A:0.64, C:0.13, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAACAATGAAAAATAGCAGA
Found at i:65185025 original size:46 final size:46
Alignment explanation
Indices: 65184850--65185061 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 46
65184840 TGTTAGCTAA
* * ***
65184850 TGTAAGACATGTCTGGGACATGCATTGACCACCTTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
* * * * * * *
65184896 TATAAGACTATGTCTGGGATATGGCATCGGC-ATTGAGACGAGTGCTAG
1 TGTAAGAC-ATGTCTGGGACAT-GCATTGGCTA-CGAGATGAGAGCCAG
65184944 TGTAAGACATGGT-TGGGACATGC-TTCGGCCT-CGAGATGTA-AGCCAG
1 TGTAAGACAT-GTCTGGGACATGCATT-GG-CTACGAGATG-AGAGCCAG
* *
65184990 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGA-G-GTGTCAG
1 TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
65185034 TGTAAGACCATGTCTGGGACATGGCATT
1 TGTAAGA-CATGTCTGGGACAT-GCATT
65185062 AACACAGATA
Statistics
Matches: 132, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
44 11 0.08
45 20 0.15
46 52 0.39
47 26 0.20
48 23 0.17
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGAGAGCCAG
Found at i:65195198 original size:13 final size:13
Alignment explanation
Indices: 65195180--65195204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65195170 CATTTTGGTA
65195180 TTTAATTATTATT
1 TTTAATTATTATT
65195193 TTTAATTATTAT
1 TTTAATTATTAT
65195205 GGTAAAATCA
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:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:65202119 original size:16 final size:17
Alignment explanation
Indices: 65202090--65202122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65202080 TTTTTAATAA
*
65202090 TTTTTATTTGTTTTTAT
1 TTTTTAATTGTTTTTAT
65202107 TTTTTAATT-TTTTTAT
1 TTTTTAATTGTTTTTAT
65202123 AAAGCACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTAATTGTTTTTAT
Found at i:65202122 original size:26 final size:25
Alignment explanation
Indices: 65202070--65202118 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
65202060 CTTTTTATAA
65202070 ATTTGTTTTATTTTTAATAATTTTT
1 ATTTGTTTTATTTTTAATAATTTTT
65202095 ATTTGTTTTTATTTTT--TAATTTTT
1 ATTTG-TTTTATTTTTAATAATTTTT
65202119 TTATAAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.35
25 5 0.22
26 10 0.43
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (25 bp):
ATTTGTTTTATTTTTAATAATTTTT
Found at i:65204298 original size:45 final size:45
Alignment explanation
Indices: 65204222--65204320 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
65204212 GATTTATGGC
* *
65204222 AGAGACAAACTCTCATTCGAAGATGTAAAGGGTCATTTGTTGAGT
1 AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
* * *
65204267 AGAGGCAAACTCTCATTTGAAGATATGAAGGGTCATTTATTGAGT
1 AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
65204312 AGAGACAAA
1 AGAGACAAA
65204321 TTCAAAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (45 bp):
AGAGACAAACTCTCATTCGAAGATATAAAGGGTCATTTATTGAGT
Found at i:65206051 original size:18 final size:18
Alignment explanation
Indices: 65206009--65206051 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65205999 TGCCCATTCG
*
65206009 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
65206027 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
65206045 AAGTATG
1 AAGTATG
65206052 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:65206573 original size:27 final size:28
Alignment explanation
Indices: 65206489--65206586 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
65206479 CATGAGATTG
* * *
65206489 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
65206518 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65206546 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65206573 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65206587 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65206600 original size:29 final size:27
Alignment explanation
Indices: 65206517--65206600 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
65206507 TAAATTGTTC
* *
65206517 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
65206545 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
65206572 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
65206601 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:65214860 original size:27 final size:28
Alignment explanation
Indices: 65214776--65214873 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
65214766 CATGAGATTG
* * *
65214776 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
65214805 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65214833 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65214860 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65214874 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65214887 original size:29 final size:27
Alignment explanation
Indices: 65214804--65214887 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
65214794 TAAATTGTTC
* *
65214804 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
65214832 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
65214859 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
65214888 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:65217581 original size:46 final size:46
Alignment explanation
Indices: 65217477--65217744 Score: 358
Period size: 46 Copynumber: 5.8 Consensus size: 46
65217467 TTTGACATGA
* * * * *
65217477 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
*
65217522 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
65217568 TTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCAAGC
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
65217614 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** * * *
65217660 TGCCATGATATCTTTCAACCATGGTCTTACACATTACATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
65217706 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
65217745 TTCAGAGAGC
Statistics
Matches: 201, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
45 32 0.16
46 169 0.84
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:65220864 original size:17 final size:15
Alignment explanation
Indices: 65220842--65220883 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 15
65220832 ACTATTTCTA
65220842 AAAAATTCAAAAAAATT
1 AAAAATT-AAAAAAA-T
65220859 AAAAATATAAAAAAAT
1 AAAAAT-TAAAAAAAT
65220875 AAAAATTAA
1 AAAAATTAA
65220884 CAGTGGGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 13 0.54
18 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATTAAAAAAAT
Found at i:65222739 original size:51 final size:52
Alignment explanation
Indices: 65222663--65222842 Score: 258
Period size: 51 Copynumber: 3.5 Consensus size: 52
65222653 ACTAGTGACT
*
65222663 CAAGTGTGGCACTATGTGAAGGCCACTTTGTAAAGAAAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
*
65222714 CAAGTGTGGTACTATGCGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
* * *
65222766 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAATG-TAGCATT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTC-A
* * *
65222817 CAAGGGTGGTACTATATGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
65222843 CGTGTATCCG
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
50 2 0.02
51 72 0.61
52 44 0.37
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTAAAGAAAGATAGCTTTGGTCA
Found at i:65225369 original size:17 final size:18
Alignment explanation
Indices: 65225333--65225368 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
65225323 TTGTCACTAT
65225333 ATATTTTAGAATTAAAAA
1 ATATTTTAGAATTAAAAA
65225351 ATATTTTA-AATGTAAAAA
1 ATATTTTAGAAT-TAAAAA
65225369 TGTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
ATATTTTAGAATTAAAAA
Found at i:65229358 original size:49 final size:50
Alignment explanation
Indices: 65229286--65229463 Score: 227
Period size: 52 Copynumber: 3.5 Consensus size: 50
65229276 ACTAGTGACT
65229286 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
65229335 CAAGTGTGGTACTATGTGAAGGCCACTTTGTA-AAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTG-AGAAG-AAGATAGC-TTGGTCA
* * * * *
65229387 CAAGTGTGGTACTATGTGAAAGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTC-A
* *
65229438 TAAGGGTGGTACTATGT-ACAGGCCAC
1 CAAGTGTGGTACTATGTGA-AGGCCAC
65229464 CGAGTATCTG
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
49 33 0.29
50 6 0.05
51 36 0.32
52 39 0.34
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAAGATAGCTTGGTCA
Found at i:65233219 original size:34 final size:34
Alignment explanation
Indices: 65233181--65233253 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
65233171 TTGATTTACG
65233181 TATTTGACAACTTAAATATAAAT-TAT-TCTATTTA
1 TATTTGAC-A-TTAAATATAAATATATGTCTATTTA
* * * *
65233215 TATTTTACATTATATATAAATATGTGTTTATTTA
1 TATTTGACATTAAATATAAATATATGTCTATTTA
65233249 TATTT
1 TATTT
65233254 AAATATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 11 0.33
33 3 0.09
34 19 0.58
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.53
Consensus pattern (34 bp):
TATTTGACATTAAATATAAATATATGTCTATTTA
Found at i:65233434 original size:4 final size:4
Alignment explanation
Indices: 65233425--65233449 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
65233415 TATATCATGC
65233425 AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA A
65233450 GATGGAATGA
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:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:65243946 original size:16 final size:19
Alignment explanation
Indices: 65243908--65243948 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
65243898 TTGGAGCAAC
65243908 TACAATCAATTATACATCA
1 TACAATCAATTATACATCA
65243927 TACAATC-ATT-TACA-CA
1 TACAATCAATTATACATCA
65243943 TACAAT
1 TACAAT
65243949 TAAGTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 3 0.14
19 7 0.32
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (19 bp):
TACAATCAATTATACATCA
Found at i:65245795 original size:45 final size:45
Alignment explanation
Indices: 65245731--65245824 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
65245721 TTTCCAATCC
*
65245731 TGATTGACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
1 TGATTAACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
65245776 TGATTAACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
1 TGATTAACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
65245821 TGAT
1 TGAT
65245825 CTTAATCATC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (45 bp):
TGATTAACCAAGCGTCTCGTTACAAGAATTGCATTGCCACCCAAG
Found at i:65249119 original size:42 final size:42
Alignment explanation
Indices: 65249058--65249208 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 42
65249048 CTGAGGCTAT
* *
65249058 GTGTAAGACCATATCTGGGATATGGCATCAATTTGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
* * * *
65249100 GTGTAAGACCATGTTTGGGATATGACATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
* * * * * ** *
65249142 GTGTAAGACCATAGCTAGGCTATTGGCATCGATACGAGA-TCCC
1 GTGTAAGACCATATCTGGGATA-TGACATCAATGTGAGACT-TC
*
65249185 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCTGGGATATG
65249209 GCATTGGTAT
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 56 0.64
43 32 0.36
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATCAATGTGAGACTTC
Found at i:65252100 original size:33 final size:34
Alignment explanation
Indices: 65252036--65252120 Score: 120
Period size: 33 Copynumber: 2.5 Consensus size: 34
65252026 CCATCTCAGT
65252036 ACAGTATCAAATATGCAGTACGACCTTAGCCCATC
1 ACAGTATC-AATATGCAGTACGACCTTAGCCCATC
* * *
65252071 ACAGTATCAGTATGCATTA-GGCCTTAGCCCATC
1 ACAGTATCAATATGCAGTACGACCTTAGCCCATC
65252104 ACAGTATCAATA-GCAGT
1 ACAGTATCAATATGCAGT
65252121 CACGCAGATC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.09
33 24 0.53
34 9 0.20
35 8 0.18
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (34 bp):
ACAGTATCAATATGCAGTACGACCTTAGCCCATC
Found at i:65260575 original size:29 final size:29
Alignment explanation
Indices: 65260512--65260579 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
65260502 TAATCAACCG
65260512 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
65260541 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
65260570 CGCACACTTA
1 CGCACACTTA
65260580 CCTTTCCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:65260692 original size:174 final size:174
Alignment explanation
Indices: 65260401--65260728 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
65260391 AACTCAAGGT
* * *
65260401 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
65260466 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
65260531 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
65260575 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
65260640 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
65260705 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
65260729 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:65260720 original size:29 final size:30
Alignment explanation
Indices: 65260681--65260759 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
65260671 CTTAATAATC
65260681 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
65260711 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
65260740 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65260760 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:65262556 original size:34 final size:34
Alignment explanation
Indices: 65262505--65262569 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
65262495 ATTGGTATGA
* *
65262505 ATTAGGGCCTTATCCCATCACAATATCAATATAC
1 ATTAAGGCCTTAGCCCATCACAATATCAATATAC
*
65262539 ATTAAGGCCTTAGCCCATCACAGTATCAATA
1 ATTAAGGCCTTAGCCCATCACAATATCAATA
65262570 GCATTCATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (34 bp):
ATTAAGGCCTTAGCCCATCACAATATCAATATAC
Found at i:65263158 original size:20 final size:20
Alignment explanation
Indices: 65263130--65263183 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
65263120 CTGTGTGTCA
* *
65263130 CACATGGCCTGTCTGGCCAT
1 CACACGGCCTGTCTAGCCAT
*
65263150 CACACGGCCTGTCTAGTCAT
1 CACACGGCCTGTCTAGCCAT
*
65263170 CTCACGGCCGTGTC
1 CACACGGCC-TGTC
65263184 ATGCACGCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.15, C:0.37, G:0.24, T:0.24
Consensus pattern (20 bp):
CACACGGCCTGTCTAGCCAT
Found at i:65269316 original size:42 final size:42
Alignment explanation
Indices: 65269243--65269323 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 42
65269233 TTAGGGTTAC
65269243 TGAGACTATGTGTAAGACCATATCTGAGATATGGCATCACTT
1 TGAGACTATGTGTAAGACCATATCTGAGATATGGCATCACTT
* *
65269285 TGAGACT-TCGTGTAAGGCCATGTCT-AGGATATGGCATCA
1 TGAGACTAT-GTGTAAGACCATATCTGA-GATATGGCATCA
65269324 ATGTGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTGAGATATGGCATCACTT
Found at i:65269341 original size:42 final size:42
Alignment explanation
Indices: 65269253--65269341 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
65269243 TGAGACTATG
* * * *
65269253 TGTAAGACCATATCTGAGATATGGCATCACTTTGAGACTTCG
1 TGTAAGACCATATCTGAGATATGGCATCAATGTGAAACTTCA
* * *
65269295 TGTAAGGCCATGTCT-AGGATATGGCATCAATGTGAAATTTCA
1 TGTAAGACCATATCTGA-GATATGGCATCAATGTGAAACTTCA
65269337 TGTAA
1 TGTAA
65269342 AACCTTAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGAGATATGGCATCAATGTGAAACTTCA
Found at i:65295915 original size:40 final size:39
Alignment explanation
Indices: 65295818--65295985 Score: 230
Period size: 40 Copynumber: 4.3 Consensus size: 39
65295808 TCCTCGTTCA
* * *
65295818 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
*
65295856 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
*
65295895 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
* * *
65295935 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
*
65295975 AAAGCCTTCGG
1 AATGCCTTCGG
65295986 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 22 0.18
39 22 0.18
40 75 0.63
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
Found at i:65295998 original size:119 final size:118
Alignment explanation
Indices: 65295818--65296038 Score: 268
Period size: 119 Copynumber: 1.9 Consensus size: 118
65295808 TCCTCGTTCA
* * *
65295818 AATGCCTTCGGGACATAGCCCGGTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTT
1 AATGCCTTCGGGACATAACCCGGTTTAGTAACTCACACAAAGCCTTCGGGACATAACCCGGATAT
* *
65295883 A-ACAAC-TCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 ATAC-ACTTAGCAC-AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
65295936 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGCCTTC-GGATCTTAGTCCGGAT
1 AATGCCTTCGGGACATAACCCGG-TTTAGTAACTCACACAAAGCCTTCGGGA-CATAACCCGGAT
* *
65296000 ATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATACACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
65296039 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 24 0.28
119 56 0.65
120 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (118 bp):
AATGCCTTCGGGACATAACCCGGTTTAGTAACTCACACAAAGCCTTCGGGACATAACCCGGATAT
ATACACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65296029 original size:79 final size:79
Alignment explanation
Indices: 65295821--65296038 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 79
65295811 TCGTTCAAAT
* * * * *
65295821 GCCTTCGGGACATAGCCCGG-TTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGGATTTA
*
65295884 ACAACTCGCACGAAT
65 ACAACTCGCACGAAA
* *
65295899 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGGATTTA
** *
65295964 GTATCTCGCAC-AAA
65 ACAACTCGCACGAAA
** * * * *
65295978 GCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCGGA
65296039 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 21 0.18
79 57 0.48
80 40 0.34
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACGAAA
Found at i:65304821 original size:39 final size:39
Alignment explanation
Indices: 65304670--65304851 Score: 186
Period size: 40 Copynumber: 4.6 Consensus size: 39
65304660 TTGAATGCTG
* * * * *
65304670 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
65304709 TCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAAA
* *
65304749 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAA
* *
65304789 TCCGGGTTAAGTCCGAAGGCATTCGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
* *
65304828 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
65304852 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
39 45 0.37
40 70 0.57
41 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:65304871 original size:79 final size:79
Alignment explanation
Indices: 65304699--65304885 Score: 180
Period size: 79 Copynumber: 2.4 Consensus size: 79
65304689 CTTTGTGCTA
* ** * * * *
65304699 AGTGAATATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCC
1 AGTGACTATATCCGGGTTAAG-TCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCC
**
65304764 GAAGGCATTCGTGCG
65 GAAGGCATTCGAACG
* * * * * *
65304779 AGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCGTGTGAGTTACTAAAACCGGGCTATGTCCCG
1 AGTGACTATATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCCG
*
65304844 AAGGCATTTGAACG
66 AAGGCATTCGAACG
*
65304858 AG-GAGCTATATCC-GGTTAAATCCCGAAG
1 AGTGA-CTATATCCGGGTTAAGT-CCGAAG
65304886 ATTTTTTGGT
Statistics
Matches: 86, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
78 8 0.09
79 62 0.72
80 16 0.19
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
AGTGACTATATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAAAACCGGGCTAAGTCCCG
AAGGCATTCGAACG
Found at i:65312268 original size:40 final size:40
Alignment explanation
Indices: 65312185--65312368 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
65312175 TTGAATGCTG
* * * * * *
65312185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
65312225 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
65312265 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
65312305 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
65312345 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
65312369 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 113 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:65314020 original size:80 final size:79
Alignment explanation
Indices: 65313836--65314061 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 79
65313826 GCTCCTCGTT
* * * * * * *
65313836 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
65313901 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* *
65313915 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
* *
65313980 ATTTAGTATCTCGCA
65 ATTTAATAACTCGCA
** * * * * * * *
65313995 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGTACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
65314059 GAT
64 GAT
65314062 AGCATTCAAT
Statistics
Matches: 124, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
79 38 0.31
80 82 0.66
81 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAATAACTCGCA
Found at i:65314021 original size:40 final size:40
Alignment explanation
Indices: 65313838--65314007 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
65313828 TCCTCGTTCA
* * * * *
65313838 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65313877 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65313917 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65313957 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
65313997 AAGGCCTTCGG
1 AATGCCTTCGG
65314008 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.29
40 86 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65320939 original size:19 final size:19
Alignment explanation
Indices: 65320915--65321005 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
65320905 ATAATCTTCA
65320915 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65320934 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
65320953 ATGATA--CAATATTAGAT
1 ATGATATGCAATCTTAGAT
65320970 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65320988 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
65321006 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 15 0.22
19 37 0.55
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:65320985 original size:35 final size:36
Alignment explanation
Indices: 65320923--65320993 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
65320913 CAATGATATG
*
65320923 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATATTAGATATGATATGCAATCTTAGATATGATA
65320959 CAATATTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATATTAGATATGATATGCAATCTTAGATATGATA
65320994 TGCAATCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATATTAGATATGATATGCAATCTTAGATATGATA
Found at i:65321031 original size:22 final size:22
Alignment explanation
Indices: 65320915--65321028 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
65320905 ATAATCTTCA
65320915 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65320934 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
* *
65320953 ATGATA--CAATATTAGAT---
1 ATGATATGCAATCTTAGAAGAT
65320970 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65320988 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
65321010 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
65321029 GATTTAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
17 11 0.14
18 11 0.14
19 34 0.45
22 8 0.11
23 12 0.16
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:65321320 original size:18 final size:18
Alignment explanation
Indices: 65321292--65321330 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
65321282 CCATGTTTCC
*
65321292 TTAATTTTTTTTATATATT
1 TTAATTTTTTTAATA-ATT
65321311 TTAA-TTTTTTAATAATT
1 TTAATTTTTTTAATAATT
65321328 TTA
1 TTA
65321331 GTATCATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATTTTTTTAATAATT
Found at i:65331673 original size:78 final size:77
Alignment explanation
Indices: 65331535--65331751 Score: 317
Period size: 78 Copynumber: 2.8 Consensus size: 77
65331525 CGAAGAAACA
** * * *
65331535 GATTTGGCATCTCCATATTCGACGGGGAGCAGATCGAAGACACAGCAGATCTGACTTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGAT-TGACCTTCATTGAA
*
65331600 GTAGATCCAAGAT
65 GCAGATCCAAGAT
* *
65331613 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATT-GACCTTCATTGAA
65331678 GCAGATCCAAGAT
65 GCAGATCCAAGAT
* *
65331691 GATTTGGCATCTCTGTATTAGAAGGGGAGCAGATCGAAGACATAGTAGATTTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA-TTGACCTTCAT
65331752 GTGTTTACAT
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 122 0.98
79 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (77 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATTGACCTTCATTGAAG
CAGATCCAAGAT
Found at i:65331829 original size:45 final size:45
Alignment explanation
Indices: 65331765--65331964 Score: 215
Period size: 45 Copynumber: 4.5 Consensus size: 45
65331755 TTTACATCGA
* * * * *
65331765 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAAATCGAAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
*
65331810 AGCAAATCGGAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
1 AGCAAATCGAAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
** ** * *
65331855 AG-AAGATTAAAGA-AGTAGATTTGGCGTCTCTGTATTAGATGGGG
1 AGCAA-ATCGAAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
* *
65331899 AGCAGATCGAAGATAACAGATTTAGCGTCTCTGTATTAGATGGGG
1 AGCAAATCGAAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
* * * *
65331944 AACAGATCAAAGATAGCAGAT
1 AGCAAATCGAAGATAACAGAT
65331965 ATCCCCTTCC
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
44 37 0.28
45 93 0.72
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAAATCGAAGATAACAGATTTAGCATCTCTGTATTAGATGGGG
Found at i:65331933 original size:89 final size:89
Alignment explanation
Indices: 65331782--65331944 Score: 281
Period size: 89 Copynumber: 1.8 Consensus size: 89
65331772 CCAAGATGAC
*
65331782 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTAGCATCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTAGCATCTCTGTATT
65331847 AGATGGGGAGAAGATTAAAGAAGT
66 AGATGGGGAGAAGATTAAAGAAGT
* * * *
65331871 AGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTAGCATCTCTGTATT
65331936 AGATGGGGA
66 AGATGGGGA
65331945 ACAGATCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (89 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTAGCATCTCTGTATT
AGATGGGGAGAAGATTAAAGAAGT
Found at i:65332395 original size:35 final size:37
Alignment explanation
Indices: 65332324--65332421 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
65332314 ATAATCTTCA
65332324 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
65332362 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
65332397 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
65332422 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:65332421 original size:17 final size:19
Alignment explanation
Indices: 65332324--65332414 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
65332314 ATAATCTTCA
65332324 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65332343 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65332362 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65332379 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
65332397 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
65332415 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:65332440 original size:22 final size:22
Alignment explanation
Indices: 65332324--65332437 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
65332314 ATAATCTTCA
65332324 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65332343 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65332362 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65332379 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
65332397 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
65332419 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
65332438 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:65332728 original size:17 final size:17
Alignment explanation
Indices: 65332702--65332738 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
65332692 CATGTTTCCC
*
65332702 TAATTTTTTTATATATTT
1 TAATTTTTTAATA-ATTT
65332720 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
65332737 TA
1 TA
65332739 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:65333585 original size:44 final size:44
Alignment explanation
Indices: 65333520--65333603 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
65333510 TTGCTATCTC
* *
65333520 AAAGTCCATGGTTGTACCATGGAAATTAAAGAAGAATTGACGAA
1 AAAGTCCATGGTTATAACATGGAAATTAAAGAAGAATTGACGAA
* * * *
65333564 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAAATTAAAGAAGAATTGA
65333604 TGGTTAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 3 0.09
44 30 0.91
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAAGAAGAATTGACGAA
Found at i:65333817 original size:54 final size:54
Alignment explanation
Indices: 65333749--65334198 Score: 264
Period size: 55 Copynumber: 8.6 Consensus size: 54
65333739 GCACTAAGAT
* * *
65333749 AAGGATATTATGTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* ** *
65333803 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * * *
65333858 AAAGG-T-CCTATGTATGACCATGCCAAGCCATGGCATTGGTTAGTTC-AT-AGGT
1 -AAGGATATC-ATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * **** * *
65333910 AAGGATACCATGTAAGGCCATGTTTGGAACATGGCATT--T--G----GTAAGAC
1 AAGGATATCATGTAAGACCATGCCAAG-ACATGGCATTGATAAGTTCTATAAGGC
* **** * *
65333957 AAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGGTAAG----AT-----
1 AAGGATATCATGTAAGACCATGCCAAG-ACATGGCA-TTGATAAGTTCTATAAGGC
** * *
65334004 AAGGATATCACATAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
65334058 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
65334113 AA--ATGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATAT--CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
65334166 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATATCATGTAAGACCATGCCAAGACATGG
65334199 AAATGGTAAG
Statistics
Matches: 312, Mismatches: 58, Indels: 53
0.74 0.14 0.13
Matches are distributed among these distances:
45 7 0.02
46 7 0.02
47 56 0.18
48 2 0.01
49 3 0.01
50 1 0.00
51 5 0.02
52 18 0.06
53 46 0.15
54 79 0.25
55 84 0.27
56 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:65333979 original size:47 final size:47
Alignment explanation
Indices: 65333910--65334025 Score: 178
Period size: 47 Copynumber: 2.5 Consensus size: 47
65333900 GTTCATAGGT
* *
65333910 AAGGATACCATGTAAGGCCATGTTTGGAACATGGCATTTGGTAAGAC
1 AAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGGTAAGAC
*
65333957 AAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGGTAAGAT
1 AAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGGTAAGAC
* **
65334004 AAGGATATCACATAAGACCATG
1 AAGGATACCATGTAAGACCATG
65334026 CCAAGGCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (47 bp):
AAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGGTAAGAC
Found at i:65343658 original size:18 final size:17
Alignment explanation
Indices: 65343614--65343659 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
65343604 GATTCTTAAT
65343614 AAGAATAA-AAATAAAA
1 AAGAATAAGAAATAAAA
65343630 AAGAA-AAGAAATAAAGA
1 AAGAATAAGAAATAAA-A
*
65343647 AATAATAAGAAAT
1 AAGAATAAGAAAT
65343660 CAAATAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 5 0.19
18 7 0.27
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (17 bp):
AAGAATAAGAAATAAAA
Found at i:65350112 original size:43 final size:43
Alignment explanation
Indices: 65350047--65350214 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
65350037 AGCTCGTACA
* * * *
65350047 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
* * *
65350089 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCA-ATTAACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACA-TAACG
* * *
65350132 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA-ACACA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA-ACG
* *
65350175 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATA
65350215 TCTGTAACCT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 7 0.07
43 97 0.92
44 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAACG
Found at i:65352898 original size:25 final size:25
Alignment explanation
Indices: 65352851--65352898 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
65352841 TTATAATATG
* * * *
65352851 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
65352876 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
65352899 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:65352949 original size:9 final size:9
Alignment explanation
Indices: 65352937--65352993 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65352927 TTTGATAAAC
65352937 ATGATATGT
1 ATGATATGT
*
65352946 ATGATATGCAC
1 ATGATATG--T
*
65352957 ATGACATGT
1 ATGATATGT
*
65352966 ATGATATGCAC
1 ATGATATG--T
65352977 ATGATATGT
1 ATGATATGT
65352986 ATGATATG
1 ATGATATG
65352994 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:65352960 original size:20 final size:20
Alignment explanation
Indices: 65352935--65352997 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
65352925 ATTTTGATAA
65352935 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
65352955 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
65352975 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65352995 ACA
1 ACA
65352998 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65353106 original size:23 final size:24
Alignment explanation
Indices: 65353051--65353156 Score: 162
Period size: 23 Copynumber: 4.4 Consensus size: 24
65353041 GAGGAAGTGC
65353051 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
65353075 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
65353099 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
65353122 AAAAAAGGGCTT-TGTCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
65353147 AAAAGAGGCT
1 AAAAG-GGCT
65353157 AGGCCTCTAG
Statistics
Matches: 77, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
23 28 0.36
24 28 0.36
25 12 0.16
26 9 0.12
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:65353121 original size:47 final size:47
Alignment explanation
Indices: 65353052--65353149 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
65353042 AGGAAGTGCA
65353052 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
*
65353099 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTTGTCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAGGGCTTTGCCCCAGTTATT
65353147 AAA
1 AAA
65353150 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 23 0.48
48 15 0.31
49 10 0.21
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:65353398 original size:31 final size:31
Alignment explanation
Indices: 65353363--65353426 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
65353353 CGTTTACAGT
65353363 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
65353394 AAAGGCTTCGGCCTAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65353425 AA
1 AA
65353427 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65355344 original size:53 final size:53
Alignment explanation
Indices: 65355247--65355353 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
65355237 TATCATATTG
* * **
65355247 TCCCTTATTCTCCCACTTAATGATCCTTTCCTGCTCATCGCCTTATTTCTCCT
1 TCCCTTATTCTCCCACTTAATGACCCTTGCCCACTCATCGCCTTATTTCTCCT
*
65355300 TCCCTTATTCTCCC-CTTTAATGACCCTTGCCCACTCA-CTTCCTTATTTCTCCT
1 TCCCTTATTCTCCCAC-TTAATGACCCTTGCCCACTCATC-GCCTTATTTCTCCT
65355353 T
1 T
65355354 TTCTCACCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.13, C:0.39, G:0.05, T:0.43
Consensus pattern (53 bp):
TCCCTTATTCTCCCACTTAATGACCCTTGCCCACTCATCGCCTTATTTCTCCT
Found at i:65361393 original size:18 final size:17
Alignment explanation
Indices: 65361359--65361401 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
65361349 AATCTTAAGT
*
65361359 CTAAAAATAACTAGAAA
1 CTAAAAATAAATAGAAA
*
65361376 CTAAAATATAAATTGAAA
1 CTAAAA-ATAAATAGAAA
*
65361394 ATAAAAAT
1 CTAAAAAT
65361402 CTAAGTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (17 bp):
CTAAAAATAAATAGAAA
Found at i:65365067 original size:27 final size:25
Alignment explanation
Indices: 65365002--65365071 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 25
65364992 TTATACATGT
*
65365002 ATGCTCACACGAGCTGTGAATTAGA
1 ATGCTCACACGAGCTGTGAATGAGA
* * *
65365027 ATGCTCACATGAGCTGTGAAAATGGGC
1 ATGCTCACACGAGCTGTG--AATGAGA
*
65365054 CTGCTCACACGAGCTGTG
1 ATGCTCACACGAGCTGTG
65365072 GGGCGAAACG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 17 0.46
27 20 0.54
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATGAGA
Found at i:65375491 original size:39 final size:39
Alignment explanation
Indices: 65375426--65375534 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 39
65375416 AAGAATAGTT
* *
65375426 TGGGCCTAAGCCCATTTCAGTGACAGTCCAGTATCAATG
1 TGGGCCTCAGCCCATTACAGTGACAGTCCAGTATCAATG
*
65375465 TGGGCCTCAGCCC-TT--A--G-CAGTTACAGTATCAATG
1 TGGGCCTCAGCCCATTACAGTGACAG-TCCAGTATCAATG
65375499 TGGGCC-CTAGCCCATTACAGTGACAGTCCAGTATCA
1 TGGGCCTC-AGCCCATTACAGTGACAGTCCAGTATCA
65375535 GTAATGCAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 4 0.07
34 24 0.41
35 2 0.03
36 1 0.02
37 1 0.02
38 2 0.03
39 22 0.37
40 3 0.05
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
TGGGCCTCAGCCCATTACAGTGACAGTCCAGTATCAATG
Found at i:65395125 original size:16 final size:16
Alignment explanation
Indices: 65395101--65395131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65395091 TTTCTTCACT
65395101 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
65395117 TACTTACTTACTTAA
1 TACTCACTTACTTAA
65395132 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:65395137 original size:20 final size:20
Alignment explanation
Indices: 65395098--65395137 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65395088 AAATTTCTTC
* *
65395098 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
65395118 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
65395138 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:65395451 original size:53 final size:54
Alignment explanation
Indices: 65395323--65395577 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
65395313 ACGCGGGTAC
* * ** *
65395323 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * **
65395372 CTTACCATTGCCATGTCTTGACATGGTCTTATTTGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
65395425 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
** * ** *
65395480 CTTATTAATGCCATGTCTTGACATGGTCTTACATAATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
65395533 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
65395578 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 9 0.05
55 68 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:65402151 original size:17 final size:16
Alignment explanation
Indices: 65402128--65402165 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
65402118 TTCTAAGCAT
65402128 TACTTTTATTGCAACA
1 TACTTTTATTGCAACA
65402144 TCACTTTTATTGCAACA
1 T-ACTTTTATTGCAACA
65402161 TACTT
1 TACTT
65402166 AAGTGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.45
Consensus pattern (16 bp):
TACTTTTATTGCAACA
Found at i:65410708 original size:115 final size:114
Alignment explanation
Indices: 65410497--65410841 Score: 555
Period size: 115 Copynumber: 3.0 Consensus size: 114
65410487 AACTTTAAGC
* *
65410497 CTCGAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAAAAATCACCATGTTCAATTCTT
1 CTCGAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTCAATTC-T
* * *
65410562 GAGAAAGTTGTAGAAAAACCTGCAAATGATCAACAACATAGAGGAATACG
65 CAGAAAGTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
*
65410612 CTCGAAGTAAAGTGGTACTTGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTCAATTCTA
1 CTCGAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTCAATTCT-
* **
65410677 CAGAAAGTTATAGAAAAACCTACAAACGATCAACAACATAGAGGAATAAA
65 CAGAAAGTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
* *
65410727 CTCAAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTTAATTCTC
1 CTCGAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTCAATTCTC
*
65410792 GAGAAAGTTGTAGGAAAACCTACAAACGATCAACAACATAGAGGAATACG
66 -AGAAAGTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
65410842 TCGTAGTGGA
Statistics
Matches: 212, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
114 2 0.01
115 210 0.99
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (114 bp):
CTCGAAGTAAAGTGGTACTCGAGGAACTTTCGGGAGTGGTAGAATAATCACCAAGTTCAATTCTC
AGAAAGTTGTAGAAAAACCTACAAACGATCAACAACATAGAGGAATACG
Done.