Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 254 of 349
Found at i:84386721 original size:40 final size:39
Alignment explanation
Indices: 84386637--84386833 Score: 177
Period size: 40 Copynumber: 4.9 Consensus size: 39
84386627 TTGAATGCTG
* * *
84386637 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
** *
84386676 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
84386717 TCCGGGTTAAGTTCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
84386757 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTA-AAAA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAG-TTACTAAT
**
84386797 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACTA
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA
84386834 TAACCGGGCT
Statistics
Matches: 132, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.02
39 8 0.06
40 109 0.83
41 12 0.09
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:84394473 original size:40 final size:40
Alignment explanation
Indices: 84394429--84394559 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
84394419 GGACTAAGAT
84394429 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
84394469 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
84394509 CCGAAGGCATTCGTGCGAGTT-TAAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAT-TAATTCCGGGTTAAGTC
84394549 CCGAAGGCATT
1 CCGAAGGCATT
84394560 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:84410973 original size:93 final size:93
Alignment explanation
Indices: 84410861--84411030 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
84410851 GCCCATAAGT
* * *
84410861 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
84410926 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
84410954 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* *
84411019 CGAGTTCGGATG
66 CAAGCTCGGATG
84411031 ATCAACCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:84411028 original size:46 final size:46
Alignment explanation
Indices: 84410853--84411028 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
84410843 TGTAACCCGC
* *
84410853 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
84410899 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
84410945 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
84410992 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84411029 TGATCAACCA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:84415973 original size:19 final size:19
Alignment explanation
Indices: 84415949--84415988 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
84415939 CAAAATGTAT
84415949 AAATTTCATACTTTATACA
1 AAATTTCATACTTTATACA
* *
84415968 AAATTTTATACTTTATGCA
1 AAATTTCATACTTTATACA
84415987 AA
1 AA
84415989 TGTTATTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTTCATACTTTATACA
Found at i:84415994 original size:18 final size:19
Alignment explanation
Indices: 84415956--84415994 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
84415946 TATAAATTTC
*
84415956 ATACTTTATACAAAATTTT
1 ATACTTTATACAAAATGTT
*
84415975 ATACTTTATGC-AAATGTT
1 ATACTTTATACAAAATGTT
84415993 AT
1 AT
84415995 TCTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (19 bp):
ATACTTTATACAAAATGTT
Found at i:84420188 original size:18 final size:18
Alignment explanation
Indices: 84420165--84420205 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
84420155 CCTTTGAAAA
84420165 ATTCCTTCAGAAAACATT
1 ATTCCTTCAGAAAACATT
*
84420183 ATTCCTTTAGAAAACATT
1 ATTCCTTCAGAAAACATT
*
84420201 CTTCC
1 ATTCC
84420206 CAAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (18 bp):
ATTCCTTCAGAAAACATT
Found at i:84422543 original size:29 final size:29
Alignment explanation
Indices: 84422510--84422567 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
84422500 TAAATTCACA
84422510 TAAAATTCATGAACTAACTCTTCATCTGC
1 TAAAATTCATGAACTAACTCTTCATCTGC
*
84422539 TAAAATTCATGAACTAAGTCTTCATCTGC
1 TAAAATTCATGAACTAACTCTTCATCTGC
84422568 CCTAGGTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (29 bp):
TAAAATTCATGAACTAACTCTTCATCTGC
Found at i:84423624 original size:22 final size:22
Alignment explanation
Indices: 84423599--84423640 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
84423589 TGCAAAGTTG
84423599 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
84423618 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
84423640 A
1 A
84423641 GTTATTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:84423627 original size:16 final size:15
Alignment explanation
Indices: 84423602--84423635 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
84423592 AAAGTTGATA
*
84423602 ATAATTAATATATATT
1 ATAATAAATATA-ATT
84423618 ATAATAAATATAATT
1 ATAATAAATATAATT
84423633 ATA
1 ATA
84423636 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:84432927 original size:46 final size:46
Alignment explanation
Indices: 84432877--84433049 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
84432867 TGGTTGAGCA
*
84432877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
84432923 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG
* * * *
84432968 CATCCGAACTCGTTGAGTTGAATCCAAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
84433016 -CTTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84433050 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.53
47 27 0.26
48 5 0.05
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:84433033 original size:93 final size:93
Alignment explanation
Indices: 84432874--84433044 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
84432864 GGATGGTTGA
* * * *
84432874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
84432939 TGAGTCCGAGTTCGTGAGATGTAACTAC
66 TGAGTCCGAGTTCGTGAGATGTAACTAC
* * * *
84432967 GCATCCGAACTCGTTGAGTTGAATCCAAGTTCATTTATGGATGCGAACG-CTTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCAAACGTC-CGAACTCATTGAG
84433031 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
84433045 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCAAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAC
Found at i:84434095 original size:37 final size:37
Alignment explanation
Indices: 84434036--84434144 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
84434026 AGCTCAGACG
* * *
84434036 AAATCTCCACACGAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
84434073 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
84434110 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
84434145 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:84434403 original size:47 final size:47
Alignment explanation
Indices: 84434351--84434497 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
84434341 CATACATATT
* * * * *
84434351 TCACATTAGCCATTCGACTTTACCACATATATGCATATTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
* **
84434398 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
* * *
84434445 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
84434492 TCACAT
1 TCACAT
84434498 ACAATCCTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
Found at i:84441072 original size:20 final size:20
Alignment explanation
Indices: 84441025--84441072 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
84441015 GCCACATTAA
84441025 TATTCTTATCCTGAATTTCAG
1 TATT-TTATCCTGAATTTCAG
* * *
84441046 GAGTTTATCCTGAATTTTAG
1 TATTTTATCCTGAATTTCAG
84441066 TATTTTA
1 TATTTTA
84441073 ATTTGAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
TATTTTATCCTGAATTTCAG
Found at i:84449250 original size:40 final size:40
Alignment explanation
Indices: 84449195--84449468 Score: 442
Period size: 40 Copynumber: 6.8 Consensus size: 40
84449185 GCATTTGTAT
84449195 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
84449235 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
84449275 ATATATCCGGGCTAAGACCCGAAGTCATTTGTGTGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
84449315 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
84449355 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
84449395 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* * *
84449435 CTAT-GCGCGGGCTAAGACCCGAAGGCAATTGTGC
1 ATATATC-CGGGCTAAGACCCGAAGGCATTTGTGC
84449469 TTGTGGTAAT
Statistics
Matches: 216, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 215 1.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:84457622 original size:40 final size:40
Alignment explanation
Indices: 84457567--84457793 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
84457557 GCATTTGTAT
84457567 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
84457607 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
84457647 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
84457687 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
84457727 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* **
84457767 CTATGCCCGGGCTAAGACCCGAAGGCA
1 ATATATCCGGGCTAAGACCCGAAGGCA
84457794 ATTATGCTTG
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:84459196 original size:27 final size:26
Alignment explanation
Indices: 84459158--84459217 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
84459148 GGGGTGTTAC
* *
84459158 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
84459184 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
84459211 ATATCTG
1 ATATCTG
84459218 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:84459368 original size:6 final size:6
Alignment explanation
Indices: 84459337--84459424 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
84459327 TTGCATTCAC
* *
84459337 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
84459386 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
84459425 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:84459372 original size:31 final size:31
Alignment explanation
Indices: 84459337--84459415 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
84459327 TTGCATTCAC
* *
84459337 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
84459368 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
84459399 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
84459416 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:84463472 original size:12 final size:12
Alignment explanation
Indices: 84463455--84463479 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84463445 ATGTAAGTGA
84463455 TCTTGATGATTT
1 TCTTGATGATTT
84463467 TCTTGATGATTT
1 TCTTGATGATTT
84463479 T
1 T
84463480 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:84466006 original size:40 final size:40
Alignment explanation
Indices: 84465951--84466168 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
84465941 TGGATGATAA
*
84465951 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
84465991 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
84466031 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
84466071 CCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * * *
84466111 CCGGGCTATGTCCCGAAGGCAATCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
84466151 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84466169 TACTTGGCTT
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 15 0.09
40 152 0.91
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:84467694 original size:47 final size:46
Alignment explanation
Indices: 84467619--84467844 Score: 167
Period size: 47 Copynumber: 4.8 Consensus size: 46
84467609 GGTGATTTGT
* *
84467619 GAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATC-CAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCACAGA-GA
* * * *
84467667 GGGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGACAAAGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATC-ACAGAGA
* * * * *
84467714 TAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGC-T-A-AGAGTT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCACAGAG-A
* * *
84467758 GTA-CTAGTGTAAGACATGTCTGGGACATGTATCAGCA-CACATATATGA
1 G-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCAC--AGA-GA
* *
84467806 GAGCTAGTATAAGACCATGTCCGGGACATGGCATCGGCA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
84467845 ATTTATTCCA
Statistics
Matches: 139, Mismatches: 26, Indels: 24
0.74 0.14 0.13
Matches are distributed among these distances:
43 3 0.02
44 29 0.21
45 2 0.01
46 10 0.07
47 46 0.33
48 28 0.20
49 14 0.10
50 7 0.05
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCACAGAGA
Found at i:84474429 original size:48 final size:43
Alignment explanation
Indices: 84474296--84474436 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 43
84474286 TGATTTCATG
* * * * * *
84474296 TAAGACCATATCTAGGATATGGCGTTGAT-ATGAGATTTCGTG
1 TAAGACCATGTCTAGGACATGGCATCGATGATGAGACTTCGTA
* * **
84474338 TAAGACCATGTCTGGGACATGGCATCGATG-TGAGGCCCCGTA
1 TAAGACCATGTCTAGGACATGGCATCGATGATGAGACTTCGTA
84474380 TAAGACCATGTCTAGGACATGGCATCGACATCGACATGAGACTTCGTA
1 TAAGACCATGTCTAGGACATGGCATCG--AT-G--ATGAGACTTCGTA
84474428 TAAGACCAT
1 TAAGACCAT
84474437 ATTTGGGATA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 57 0.73
44 2 0.03
45 1 0.01
48 18 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACATGGCATCGATGATGAGACTTCGTA
Found at i:84474776 original size:18 final size:19
Alignment explanation
Indices: 84474741--84474778 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
84474731 GTACAATATG
*
84474741 TGTAATATGATAATATGTT
1 TGTAATATGATAACATGTT
*
84474760 TGTAAT-TGATAGCATGTT
1 TGTAATATGATAACATGTT
84474778 T
1 T
84474779 AATCCATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (19 bp):
TGTAATATGATAACATGTT
Found at i:84480331 original size:24 final size:24
Alignment explanation
Indices: 84480296--84480349 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
84480286 TATTTTAATA
*
84480296 TATAAA-ATATAAATTTTAAATATT
1 TATAAACA-ATAAATATTAAATATT
* *
84480320 TTTAAACAATAAATATTAATTATT
1 TATAAACAATAAATATTAAATATT
84480344 TATAAA
1 TATAAA
84480350 ATTTAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TATAAACAATAAATATTAAATATT
Found at i:84481235 original size:18 final size:18
Alignment explanation
Indices: 84481209--84481246 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
84481199 TTAATTTTAC
84481209 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
* *
84481227 AATTTGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
84481245 AA
1 AA
84481247 CGAATTGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:84481374 original size:19 final size:19
Alignment explanation
Indices: 84481363--84481430 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
84481353 AAATTTATAT
84481363 TTTTTAAAAAAATTAAAAA
1 TTTTTAAAAAAATTAAAAA
*
84481382 TTTTTAAAAATATCTAAAGAA
1 TTTTTAAAAAAAT-TAAA-AA
* * *
84481403 TATATAAAACAAGTT-AAAA
1 TTTTTAAAA-AAATTAAAAA
84481422 -TTTTAAAAA
1 TTTTTAAAAA
84481431 TTTTCTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 1 0.03
18 6 0.15
19 14 0.36
20 6 0.15
21 10 0.26
22 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TTTTTAAAAAAATTAAAAA
Found at i:84488507 original size:36 final size:36
Alignment explanation
Indices: 84488467--84488565 Score: 144
Period size: 36 Copynumber: 2.8 Consensus size: 36
84488457 TTTTCAGTGG
* * * *
84488467 CATGCTTTACACGCGAATCAAAATATTAAAATATAA
1 CATGCTTAACATGCAAATCAGAATATTAAAATATAA
* *
84488503 CATGCTTAACATGCAAATCAGAATATTAGAATATAG
1 CATGCTTAACATGCAAATCAGAATATTAAAATATAA
84488539 CATGCTTAACATGCAAATCAGAATATT
1 CATGCTTAACATGCAAATCAGAATATT
84488566 GATAATCATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (36 bp):
CATGCTTAACATGCAAATCAGAATATTAAAATATAA
Found at i:84489627 original size:17 final size:17
Alignment explanation
Indices: 84489607--84489645 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
84489597 ATACAATATG
*
84489607 TGGAATTAATGAATACT
1 TGGAATTAATGAACACT
84489624 TGGAATTAATGAACACT
1 TGGAATTAATGAACACT
84489641 TGGAA
1 TGGAA
84489646 ATGCTATGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (17 bp):
TGGAATTAATGAACACT
Found at i:84491833 original size:27 final size:27
Alignment explanation
Indices: 84491774--84491835 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
84491764 CCACAAAGCC
* * *
84491774 TATTCTTTTAGAATACGTCACAAAGGT
1 TATTCTTTCAGAATACGCCACAAAAGT
* * *
84491801 TGTTCTTTCATAATACGCCACAAAATT
1 TATTCTTTCAGAATACGCCACAAAAGT
84491828 TATTCTTT
1 TATTCTTT
84491836 TTGACTTTGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.42
Consensus pattern (27 bp):
TATTCTTTCAGAATACGCCACAAAAGT
Found at i:84491858 original size:27 final size:27
Alignment explanation
Indices: 84491828--84491917 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
84491818 CCACAAAATT
** *
84491828 TATTCTTTTTGACTTTGCCATAAAGGC
1 TATTCTTTTTGACTTCACCACAAAGGC
* *
84491855 TATTC-TTTTGTAATACACCACAAAGGC
1 TATTCTTTTTG-ACTTCACCACAAAGGC
* *
84491882 TATTCTTTTAGGCTTCACCACAAAGGC
1 TATTCTTTTTGACTTCACCACAAAGGC
84491909 TATTCTTTT
1 TATTCTTTT
84491918 CTGATATGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.10
27 43 0.83
28 4 0.08
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (27 bp):
TATTCTTTTTGACTTCACCACAAAGGC
Found at i:84493793 original size:82 final size:82
Alignment explanation
Indices: 84493686--84493840 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
84493676 AGAGATTGTT
* * * *
84493686 AATTGGTAAACATGTTTGTCAAATTAATTACTAGCTAA-TCAATTACTAGTCAAATTGATTTAGG
1 AATTAGTAAACATATTTGTCAAATTAATTACTAGCTAAGT-AATTACTAATCAAATTGATTCAGG
84493750 AATTATTAGCGTAATGTC
65 AATTATTAGCGTAATGTC
* * *
84493768 AATTAGTAAACATATTT-TCCAAATTAATTACTGGCTAAGTAATTAGTAATCTAATTGATTCAGG
1 AATTAGTAAACATATTTGT-CAAATTAATTACTAGCTAAGTAATTACTAATCAAATTGATTCAGG
84493832 AATTATTAG
65 AATTATTAG
84493841 TGCAATCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 1 0.02
82 62 0.97
83 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (82 bp):
AATTAGTAAACATATTTGTCAAATTAATTACTAGCTAAGTAATTACTAATCAAATTGATTCAGGA
ATTATTAGCGTAATGTC
Found at i:84498135 original size:39 final size:39
Alignment explanation
Indices: 84498027--84498140 Score: 165
Period size: 39 Copynumber: 2.9 Consensus size: 39
84498017 CTAGACATAT
* * * *
84498027 TTCCAGCACGTAGTCTGCGGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
84498066 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
* * *
84498105 TTCTAGCACATAGCCTGCGGACCCTAAGTCTAGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATA
84498141 AACATCACTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCTGGATATAA
Found at i:84505301 original size:31 final size:31
Alignment explanation
Indices: 84505263--84505327 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
84505253 ACAGACCATG
* *
84505263 AACTTAAATAAAAACTTTTGAATAGTTTAAT
1 AACTTAAATAAAAACTTATGAATAGTTCAAT
*
84505294 AACTTAAATGAAAACTTATGAATAGTTCAAT
1 AACTTAAATAAAAACTTATGAATAGTTCAAT
84505325 AAC
1 AAC
84505328 CAAATTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (31 bp):
AACTTAAATAAAAACTTATGAATAGTTCAAT
Found at i:84512269 original size:180 final size:180
Alignment explanation
Indices: 84511967--84512339 Score: 746
Period size: 180 Copynumber: 2.1 Consensus size: 180
84511957 TGACTAAAGA
84511967 TAATTTTCAATTTGACTCTGTTATATTAAAATATTTGAAAAATTAGGGCTAACAATTTCCCCCTT
1 TAATTTTCAATTTGACTCTGTTATATTAAAATATTTGAAAAATTAGGGCTAACAATTTCCCCCTT
84512032 TTCTATATAACAAAACCATTAAAAATAATTTCTAACTCCCTCTTACTCAAAAAATATTTTCAAGT
66 TTCTATATAACAAAACCATTAAAAATAATTTCTAACTCCCTCTTACTCAAAAAATATTTTCAAGT
84512097 TTAGCACCTTTAAAAAATATTTGATGCAAACATTTATAAAAGTTTTGAAT
131 TTAGCACCTTTAAAAAATATTTGATGCAAACATTTATAAAAGTTTTGAAT
84512147 TAATTTTCAATTTGACTCTGTTATATTAAAATATTTGAAAAATTAGGGCTAACAATTTCCCCCTT
1 TAATTTTCAATTTGACTCTGTTATATTAAAATATTTGAAAAATTAGGGCTAACAATTTCCCCCTT
84512212 TTCTATATAACAAAACCATTAAAAATAATTTCTAACTCCCTCTTACTCAAAAAATATTTTCAAGT
66 TTCTATATAACAAAACCATTAAAAATAATTTCTAACTCCCTCTTACTCAAAAAATATTTTCAAGT
84512277 TTAGCACCTTTAAAAAATATTTGATGCAAACATTTATAAAAGTTTTGAAT
131 TTAGCACCTTTAAAAAATATTTGATGCAAACATTTATAAAAGTTTTGAAT
84512327 TAATTTTCAATTT
1 TAATTTTCAATTT
84512340 TAATAATGAA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
180 193 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (180 bp):
TAATTTTCAATTTGACTCTGTTATATTAAAATATTTGAAAAATTAGGGCTAACAATTTCCCCCTT
TTCTATATAACAAAACCATTAAAAATAATTTCTAACTCCCTCTTACTCAAAAAATATTTTCAAGT
TTAGCACCTTTAAAAAATATTTGATGCAAACATTTATAAAAGTTTTGAAT
Found at i:84514121 original size:28 final size:29
Alignment explanation
Indices: 84514059--84514123 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
84514049 TAGAACTTGC
*
84514059 AAAAATATGCATATATACGTATAATATAA
1 AAAAATAAGCATATATACGTATAATATAA
* *
84514088 ATAAAATAAGTATATATA-GT-TAATAGTAT
1 A-AAAATAAGCATATATACGTATAATA-TAA
84514117 AAAAATA
1 AAAAATA
84514124 TAGACACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 11 0.35
29 6 0.19
30 14 0.45
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAAATAAGCATATATACGTATAATATAA
Found at i:84519750 original size:61 final size:61
Alignment explanation
Indices: 84519680--84519807 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 61
84519670 GAAAAACAAG
*
84519680 GGAAATGTGTAAGAGGTTTTATAGCAAATAAACCATATTTCGGAATTTTGGAGGGCAAAGA
1 GGAAATGTGTAAGAGGTTTTATAGCAAATAAACCATATTTCGAAATTTTGGAGGGCAAAGA
*
84519741 GGAAATGTGTAAGAGGTTTTATTGCAAATAAACCATATTTCGAAATTTTGGAGGGCAAAGA
1 GGAAATGTGTAAGAGGTTTTATAGCAAATAAACCATATTTCGAAATTTTGGAGGGCAAAGA
*
84519802 GCAAAT
1 GGAAAT
84519808 TATAAAACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (61 bp):
GGAAATGTGTAAGAGGTTTTATAGCAAATAAACCATATTTCGAAATTTTGGAGGGCAAAGA
Found at i:84523421 original size:27 final size:27
Alignment explanation
Indices: 84523373--84523531 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
84523363 GCGAGGCTGC
* * *
84523373 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
84523400 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
84523426 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
84523453 CAGATAATTTTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
84523480 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
84523507 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
84523532 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:84523532 original size:54 final size:54
Alignment explanation
Indices: 84523373--84523534 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
84523363 GCGAGGCTGC
* * * * *
84523373 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
84523426 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTTTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
84523480 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
84523534 C
1 C
84523535 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:84523936 original size:8 final size:8
Alignment explanation
Indices: 84523920--84523949 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
84523910 CTCAAAATAC
84523920 CGGCTTTT
1 CGGCTTTT
*
84523928 CGGCATTT
1 CGGCTTTT
84523936 CGGCTTTT
1 CGGCTTTT
84523944 CGGCTT
1 CGGCTT
84523950 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:84525154 original size:26 final size:26
Alignment explanation
Indices: 84525121--84525225 Score: 192
Period size: 26 Copynumber: 4.0 Consensus size: 26
84525111 AATTCCCATT
84525121 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
84525147 ATGGAACATTTACCTAACCTATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
84525173 ATGAAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
84525199 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
84525225 A
1 A
84525226 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:84526729 original size:20 final size:20
Alignment explanation
Indices: 84526700--84526814 Score: 74
Period size: 20 Copynumber: 5.6 Consensus size: 20
84526690 TATTTAGATA
*
84526700 TAGCCCTTGTGGCATTCTGT
1 TAGCCTTTGTGGCATTCTGT
84526720 TAGCCTTTGTGGCA-TCTGAT
1 TAGCCTTTGTGGCATTCTG-T
* * *
84526740 ATGGCCTTTTATGGCATTATGT
1 -TAGCC-TTTGTGGCATTCTGT
* *
84526762 TAGACTTTCTGGCA-TCTGAT
1 TAGCCTTTGTGGCATTCTG-T
* * *
84526782 ATTGCCTTTGT-ACTATTCTGC
1 -TAGCCTTTGTGGC-ATTCTGT
84526803 TAGCCTTTGTGG
1 TAGCCTTTGTGG
84526815 TGTAATCCGT
Statistics
Matches: 71, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
19 7 0.10
20 33 0.46
21 15 0.21
22 13 0.18
23 3 0.04
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.43
Consensus pattern (20 bp):
TAGCCTTTGTGGCATTCTGT
Found at i:84526756 original size:42 final size:43
Alignment explanation
Indices: 84526709--84526814 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 43
84526699 ATAGCCCTTG
84526709 TGGCATTCTGTTAGCCTTTGTGGCATCTGATATGGCCTTT-TA
1 TGGCATTCTGTTAGCCTTTGTGGCATCTGATATGGCCTTTGTA
* * * *
84526751 TGGCATTATGTTAGACTTTCTGGCATCTGATATTGCCTTTGTA
1 TGGCATTCTGTTAGCCTTTGTGGCATCTGATATGGCCTTTGTA
*
84526794 ---CTATTCTGCTAGCCTTTGTGG
1 TGGC-ATTCTGTTAGCCTTTGTGG
84526815 TGTAATCCGT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.02
41 15 0.28
42 36 0.67
43 2 0.04
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (43 bp):
TGGCATTCTGTTAGCCTTTGTGGCATCTGATATGGCCTTTGTA
Found at i:84526861 original size:25 final size:25
Alignment explanation
Indices: 84526805--84526865 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
84526795 TATTCTGCTA
*
84526805 GCCTTTGTGGTGTAATCCGTATGAC
1 GCCTTTGTGGCGTAATCCGTATGAC
* * * **
84526830 GCATTTGTGGCGTTATCTGTATGTT
1 GCCTTTGTGGCGTAATCCGTATGAC
84526855 GCCTTTGTGGC
1 GCCTTTGTGGC
84526866 ATATTCTGTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.11, C:0.18, G:0.30, T:0.41
Consensus pattern (25 bp):
GCCTTTGTGGCGTAATCCGTATGAC
Found at i:84532196 original size:19 final size:20
Alignment explanation
Indices: 84532172--84532209 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
84532162 GGTACCACCA
84532172 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
84532191 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
84532210 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:84532549 original size:93 final size:93
Alignment explanation
Indices: 84532439--84532609 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84532429 GCCCCTAAGT
* *
84532439 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84532504 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
84532532 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84532597 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84532610 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:84532606 original size:46 final size:46
Alignment explanation
Indices: 84532434--84532606 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
84532424 AACCCGCCCC
* * * *
84532434 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
84532480 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
84532528 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
84532573 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84532607 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:84539778 original size:19 final size:20
Alignment explanation
Indices: 84539754--84539791 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
84539744 GGTACCACCA
84539754 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
84539773 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
84539792 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:84540130 original size:93 final size:93
Alignment explanation
Indices: 84540020--84540190 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84540010 GCCCCTAAGT
* *
84540020 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84540085 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
84540113 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84540178 CGAGTTCGGATGC
66 CGAGTTCGGATGC
84540191 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:84540187 original size:46 final size:46
Alignment explanation
Indices: 84540015--84540187 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
84540005 AACCCGCCCC
* * * *
84540015 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
84540061 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
84540109 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
84540154 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84540188 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:84543523 original size:17 final size:17
Alignment explanation
Indices: 84543501--84543550 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
84543491 ATTGTATTCC
*
84543501 CTAGGTGAAACTATCTA
1 CTAGGTGAAACTATCCA
84543518 CTAGGT-AATACTATCCA
1 CTAGGTGAA-ACTATCCA
* *
84543535 CTAGGCGATACTATCC
1 CTAGGTGAAACTATCC
84543551 GCCAGGCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.07
17 25 0.89
18 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (17 bp):
CTAGGTGAAACTATCCA
Found at i:84543557 original size:17 final size:17
Alignment explanation
Indices: 84543525--84543562 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
84543515 CTACTAGGTA
*
84543525 ATACTATCCACTAGGCG
1 ATACTATCCACCAGGCG
*
84543542 ATACTATCCGCCAGGCG
1 ATACTATCCACCAGGCG
84543559 ATAC
1 ATAC
84543563 AATTCACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (17 bp):
ATACTATCCACCAGGCG
Found at i:84543837 original size:17 final size:17
Alignment explanation
Indices: 84543815--84543847 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84543805 AAGATAAACT
84543815 TTTTATT-TATTATATCA
1 TTTTATTCT-TTATATCA
84543832 TTTTATTCTTTATATC
1 TTTTATTCTTTATATC
84543848 TAGAGGGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATTCTTTATATCA
Found at i:84548340 original size:18 final size:20
Alignment explanation
Indices: 84548295--84548343 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
84548285 AATATATTTT
*
84548295 TATAAGTATAACAAAACTTA
1 TATAAATATAACAAAACTTA
84548315 -ATATAATATAA-AAAA-TTA
1 TATA-AATATAACAAAACTTA
84548333 TATAAATATAA
1 TATAAATATAA
84548344 TATATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAATATAACAAAACTTA
Found at i:84552038 original size:46 final size:44
Alignment explanation
Indices: 84551988--84552163 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 44
84551978 TGGTTGAGCA
84551988 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
84552034 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
84552081 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
84552127 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84552164 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:84552144 original size:93 final size:93
Alignment explanation
Indices: 84551985--84552155 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
84551975 GGATGGTTGA
* *
84551985 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84552050 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
84552078 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84552143 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84552156 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:84567752 original size:17 final size:17
Alignment explanation
Indices: 84567730--84567828 Score: 64
Period size: 17 Copynumber: 5.8 Consensus size: 17
84567720 ATTATTTTAA
84567730 TAATTTAATATTTAATT
1 TAATTTAATATTTAATT
*
84567747 TAATTTAATACTT-ATCT
1 TAATTTAATATTTAAT-T
* *
84567764 TAA--TAGTATTTTA-T
1 TAATTTAATATTTAATT
*
84567778 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTTAA-T--T
*
84567798 T-ATCTTAATATTAAATT
1 TAAT-TTAATATTTAATT
*
84567815 TAATTTAATGTTTA
1 TAATTTAATATTTA
84567829 TCTTGTAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
14 4 0.06
15 6 0.09
16 10 0.16
17 26 0.41
18 2 0.03
19 3 0.05
20 13 0.20
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (17 bp):
TAATTTAATATTTAATT
Found at i:84570250 original size:24 final size:25
Alignment explanation
Indices: 84570203--84570250 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
84570193 TGTATGCTAA
* *
84570203 TACGAGCTCTGAATCGGTATGCTCT
1 TACGAGCTCTGAATCAGTAAGCTCT
*
84570228 TACGAGCTGT-AATCAGTAAGCTC
1 TACGAGCTCTGAATCAGTAAGCTC
84570251 ATATGATCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
TACGAGCTCTGAATCAGTAAGCTCT
Found at i:84570272 original size:25 final size:25
Alignment explanation
Indices: 84570243--84570299 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
84570233 GCTGTAATCA
* *
84570243 GTAAGCTCATATGATCTGAGTAATG
1 GTAAGCTCATATGAGCTGAATAATG
*
84570268 GTAAGCTCATGTGAGCTGAATAATG
1 GTAAGCTCATATGAGCTGAATAATG
84570293 GTAAGCT
1 GTAAGCT
84570300 TATACAAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (25 bp):
GTAAGCTCATATGAGCTGAATAATG
Found at i:84570309 original size:25 final size:25
Alignment explanation
Indices: 84570243--84570311 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
84570233 GCTGTAATCA
** * *
84570243 GTAAGCTCATATGATCTGAGTAATG
1 GTAAGCTCATACAAGCTGAATAATG
***
84570268 GTAAGCTCATGTGAGCTGAATAATG
1 GTAAGCTCATACAAGCTGAATAATG
*
84570293 GTAAGCTTATACAAGCTGA
1 GTAAGCTCATACAAGCTGA
84570312 GAATCGATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (25 bp):
GTAAGCTCATACAAGCTGAATAATG
Found at i:84586870 original size:24 final size:23
Alignment explanation
Indices: 84586785--84586873 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 23
84586775 AACTTGTATA
*
84586785 AGCTTACTAATTT-AGCTCAAAAG
1 AGCTTACT-ATTTCAGCTCAATAG
*
84586808 AACTTACTA-TTCAGCTCAATAG
1 AGCTTACTATTTCAGCTCAATAG
* ** *
84586830 AGCTTCCCGTTTCCAGCTCAATCG
1 AGCTTACTATTT-CAGCTCAATAG
84586854 AGCTTACTATTATCAGCTCA
1 AGCTTACTATT-TCAGCTCA
84586874 TTATGAGGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
21 2 0.04
22 15 0.29
23 9 0.17
24 25 0.48
25 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (23 bp):
AGCTTACTATTTCAGCTCAATAG
Found at i:84597270 original size:40 final size:40
Alignment explanation
Indices: 84597225--84597416 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
84597215 ATAACCACAA
* * *
84597225 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
84597265 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
84597305 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
84597345 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
84597385 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
84597417 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:84597309 original size:80 final size:80
Alignment explanation
Indices: 84597196--84597415 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
84597186 ACCCAAGTTT
* * * * * * * * *
84597196 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
84597259 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
84597275 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
84597339 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
84597355 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
84597416 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:84611830 original size:21 final size:20
Alignment explanation
Indices: 84611806--84611851 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
84611796 AGGCTAAAAA
84611806 AATGAGAAGAGAAGTAGCTGC
1 AATGAGAA-AGAAGTAGCTGC
* *
84611827 AATGGAGAAAGAGGTTGCTGC
1 AAT-GAGAAAGAAGTAGCTGC
84611848 AATG
1 AATG
84611852 CGCGTGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.39, C:0.09, G:0.35, T:0.17
Consensus pattern (20 bp):
AATGAGAAAGAAGTAGCTGC
Found at i:84623521 original size:46 final size:45
Alignment explanation
Indices: 84623377--84623593 Score: 235
Period size: 46 Copynumber: 4.7 Consensus size: 45
84623367 TGTGTGAGCT
* * * *
84623377 AGTGTAAGACATGTCTGGGACATACATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATG-TAGCC
* *
84623423 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-TAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAGC-C
84623470 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-AGCC
* * *
84623517 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAAATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGCC
84623561 AGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
84623594 AACTTACCCC
Statistics
Matches: 149, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 69 0.46
47 31 0.21
48 21 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGCC
Found at i:84624779 original size:19 final size:22
Alignment explanation
Indices: 84624747--84624786 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
84624737 GTTGAAGTGG
84624747 CCACACAAGCGTGT-TGCCCTT
1 CCACACAAGCGTGTGTGCCCTT
84624768 CCACAC-AG-GTGTGTGCCCT
1 CCACACAAGCGTGTGTGCCCT
84624787 GTTTCAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (22 bp):
CCACACAAGCGTGTGTGCCCTT
Found at i:84629258 original size:21 final size:21
Alignment explanation
Indices: 84629232--84629272 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
84629222 GATGGTCTCA
84629232 TTTGTTTCTTTTAAAAATAAG
1 TTTGTTTCTTTTAAAAATAAG
84629253 TTTGTTTCTTTTAAAAATAA
1 TTTGTTTCTTTTAAAAATAA
84629273 ACTCATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTGTTTCTTTTAAAAATAAG
Found at i:84631154 original size:46 final size:46
Alignment explanation
Indices: 84631104--84631276 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
84631094 TGGTTGAGCA
* *
84631104 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * ** *
84631150 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
84631197 TCCGAACTCATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
84631243 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84631277 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 58 0.58
47 27 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:84631260 original size:93 final size:93
Alignment explanation
Indices: 84631101--84631271 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
84631091 GGATGGTTGA
* * * *
84631101 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
84631166 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
* * * *
84631194 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
84631259 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
84631272 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:84632641 original size:35 final size:34
Alignment explanation
Indices: 84632602--84632768 Score: 190
Period size: 35 Copynumber: 4.8 Consensus size: 34
84632592 TTTCCTCATT
* * *
84632602 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
** * **
84632637 GAAATGTCGTACCTACGTTTCTTAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
*
84632671 TATAATACCATACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
84632706 GTTAATACCATACCTACGTTTCACAACTCAGTATA
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
*
84632741 GATGATACCATACCTACGTTTCACAACT
1 GA-AATACCATACCTACGTTTCACAACT
84632769 TTGCCATGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
34 2 0.02
35 108 0.98
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:84632687 original size:70 final size:70
Alignment explanation
Indices: 84632604--84632768 Score: 215
Period size: 70 Copynumber: 2.4 Consensus size: 70
84632594 TCCTCATTGA
* * * ** * **
84632604 AATACCATACCTACATTTTACAACTCGGTATGGGAAATGTCGTACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
84632669 T-GTAT
66 TAG-AT
**
84632674 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
84632739 TAGAT
66 TAGAT
*
84632744 GATACCATACCTACGTTTCACAACT
1 AATACCATACCTACGTTTCACAACT
84632769 TTGCCATGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
70 82 0.99
71 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TAGAT
Found at i:84640069 original size:35 final size:35
Alignment explanation
Indices: 84640023--84640224 Score: 237
Period size: 35 Copynumber: 5.8 Consensus size: 35
84640013 TTTCCTCATT
* * *
84640023 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* **
84640058 GAAATGCCATACCTACGTTTCTTAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* * *
84640092 GATAATACCATACCTACATTTCACAACTCAATATAG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
**
84640128 TTAATACCATACCTACGTTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
**
84640163 TTAATACCATACCTACGTTTCACAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* *
84640197 GATGATACCATACCTATGTTTCACAACT
1 GA-AATACCATACCTACGTTTCACAACT
84640225 TTTCCATGGA
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
34 4 0.03
35 139 0.97
36 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:84640107 original size:70 final size:70
Alignment explanation
Indices: 84640025--84640224 Score: 267
Period size: 70 Copynumber: 2.9 Consensus size: 70
84640015 TCCTCATTGA
* * * **
84640025 AATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
84640090 TGGAT
66 TGGAT
* * **
84640095 AATACCATACCTACATTTCACAACTCAATATAGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
*
84640160 TGGTT
66 TGGAT
* * *
84640165 AATACCATACCTACGTTTCACAACTCAGTAT-GGATGATACCATACCTATGTTTCACAACT
1 AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACGTTTCACAACT
84640225 TTTCCATGGA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 1 0.01
70 112 0.99
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:84640207 original size:105 final size:105
Alignment explanation
Indices: 84640025--84640224 Score: 301
Period size: 105 Copynumber: 1.9 Consensus size: 105
84640015 TCCTCATTGA
* * * **
84640025 AATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
84640090 TGGATAATACCATACCTACATTTCACAACTCAATATAGTT
66 TGGATAATACCATACCTACATTTCACAACTCAATATAGTT
* **
84640130 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
* **
84640195 TGGATGATACCATACCTATGTTTCACAACT
66 TGGATAATACCATACCTACATTTCACAACT
84640225 TTTCCATGGA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 84 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (105 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGATAATACCATACCTACATTTCACAACTCAATATAGTT
Found at i:84644635 original size:20 final size:20
Alignment explanation
Indices: 84644610--84644688 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
84644600 GATGCATAAC
* *
84644610 AGAGGCATCGAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
84644630 AGAGGCA-CAAATGTG-AAAT
1 AGAGGCACCAAA-GTGCAAAT
* *
84644649 CAAAGGCACCGAAGTGCAAAT
1 -AGAGGCACCAAAGTGCAAAT
84644670 AGAGGCACCAAAGTGCAAA
1 AGAGGCACCAAAGTGCAAA
84644689 CCCGTACAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 7 0.14
20 36 0.72
21 7 0.14
ACGTcount: A:0.44, C:0.18, G:0.27, T:0.11
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:84648339 original size:49 final size:50
Alignment explanation
Indices: 84648217--84648348 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 50
84648207 TACGAGATGT
* * * *
84648217 GTCAGTATAAGACCATGTCTAGGACATGGCATCAGCAAGAATATGTAAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACAAGAATATGCAAGA
* ** *
84648267 G-CTAGTGTAAGACCATGTTTGGGACATGGCATCAACTTTGAAT-T-CAATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCAAC-AAGAATATGCAAGA
84648316 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
84648349 GGCACTATAC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
49 34 0.49
50 32 0.46
51 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACAAGAATATGCAAGA
Found at i:84649275 original size:58 final size:58
Alignment explanation
Indices: 84649210--84649329 Score: 240
Period size: 58 Copynumber: 2.1 Consensus size: 58
84649200 AATTCATGTA
84649210 ATACCATATATTTTCACATACATAAATTAGCTACATAACCAAATACACATTATCACAT
1 ATACCATATATTTTCACATACATAAATTAGCTACATAACCAAATACACATTATCACAT
84649268 ATACCATATATTTTCACATACATAAATTAGCTACATAACCAAATACACATTATCACAT
1 ATACCATATATTTTCACATACATAAATTAGCTACATAACCAAATACACATTATCACAT
84649326 ATAC
1 ATAC
84649330 ATACAATTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.31
Consensus pattern (58 bp):
ATACCATATATTTTCACATACATAAATTAGCTACATAACCAAATACACATTATCACAT
Found at i:84652772 original size:28 final size:27
Alignment explanation
Indices: 84652741--84652830 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 27
84652731 TCGTATACAC
84652741 AGTGCCCACTGACTGATTTCGCACACAT
1 AGTGCCCACTGACTGATTT-GCACACAT
* * * *
84652769 AGTGCTCGATTGA-AGAACTTGCACACAT
1 AGTGC-CCACTGACTG-ATTTGCACACAT
*
84652797 AGTGCCTCAACT-ACTGATCTGGCACACAT
1 AGTGCC-C-ACTGACTGAT-TTGCACACAT
84652826 AGTGC
1 AGTGC
84652831 TCGGTTGAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
27 1 0.02
28 21 0.45
29 25 0.53
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (27 bp):
AGTGCCCACTGACTGATTTGCACACAT
Found at i:84652814 original size:57 final size:57
Alignment explanation
Indices: 84652737--84652862 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 57
84652727 CACTTCGTAT
*
84652737 ACACAGTGCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAACTTGCAC
1 ACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCGATTGAAGAACTTGCAC
* * * *
84652793 ACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGGTTGAAGAGCTTGCAC
1 ACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAACTTGCAC
84652850 ACACAGTGCCTCA
1 ACACAGTGCCTCA
84652863 TAATTCCAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
56 9 0.15
57 50 0.81
58 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (57 bp):
ACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCGATTGAAGAACTTGCAC
Found at i:84652941 original size:40 final size:40
Alignment explanation
Indices: 84652890--84653103 Score: 392
Period size: 40 Copynumber: 5.3 Consensus size: 40
84652880 CCTTCGAGGT
* *
84652890 TTAGCACGGATATATCACTAGCACGAATGCTTTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
84652930 TTAGCCCGGATATGTCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
84652970 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
84653010 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
84653050 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
84653090 TTAGCCCGGATATA
1 TTAGCCCGGATATA
84653104 AATAACTCTC
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:84662986 original size:97 final size:94
Alignment explanation
Indices: 84662814--84662986 Score: 206
Period size: 97 Copynumber: 1.8 Consensus size: 94
84662804 ATGAAATGCC
* * *
84662814 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCAGTATAAGACTATGTCTAGGA
1 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGAGACAGTATAAGACTATGTCTAGGA
* *
84662879 CATGGTATCGGCACAGATATGTGAGAGCT
66 CATAGCATCGGCACAGATATGTGAGAGCT
* * *
84662908 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTAATG-GATGAGACAGTGTAAGA-TCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-T-ACGAGATGAGACAGTATAAGACT-ATGTC
*
84662971 TGGGACATAGCATCGG
61 TAGGACATAGCATCGG
84662987 TATTATACCC
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
94 9 0.14
95 13 0.20
96 8 0.12
97 33 0.51
98 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGAGACAGTATAAGACTATGTCTAGGA
CATAGCATCGGCACAGATATGTGAGAGCT
Found at i:84677020 original size:23 final size:22
Alignment explanation
Indices: 84676972--84677021 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
84676962 GTATTTTAGG
* * *
84676972 TTTTTAGTGTAGTTTTATTTTC
1 TTTTTAGTGTAGTCTTATTATA
*
84676994 TTTTTAGTTTAGTCCTTATTATA
1 TTTTTAGTGTAGT-CTTATTATA
84677017 TTTTT
1 TTTTT
84677022 GTTACTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (22 bp):
TTTTTAGTGTAGTCTTATTATA
Found at i:84686238 original size:30 final size:29
Alignment explanation
Indices: 84686129--84686230 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 29
84686119 AATTGTGAAT
84686129 CACACGGCCTCCCCAAACGGCAATGTGCCA
1 CACACGGCCTCCCCAAACGGC-ATGTGCCA
*
84686159 CACACGGCCTCCCCAAATGGCCATGTGCCA
1 CACACGGCCTCCCCAAACGG-CATGTGCCA
*
84686189 CACACGGCCTCCCCACACGGTCATGTGCCA
1 CACACGGCCTCCCCAAACGG-CATGTGCCA
84686219 CACACGGCCTCC
1 CACACGGCCTCC
84686231 TCTCACGGCC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 66 0.99
31 1 0.01
ACGTcount: A:0.23, C:0.46, G:0.20, T:0.12
Consensus pattern (29 bp):
CACACGGCCTCCCCAAACGGCATGTGCCA
Found at i:84689730 original size:12 final size:12
Alignment explanation
Indices: 84689713--84689737 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84689703 TAATTAGAAC
84689713 TTATAATGAGAT
1 TTATAATGAGAT
84689725 TTATAATGAGAT
1 TTATAATGAGAT
84689737 T
1 T
84689738 ATTCAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTATAATGAGAT
Found at i:84693739 original size:207 final size:207
Alignment explanation
Indices: 84693384--84693797 Score: 828
Period size: 207 Copynumber: 2.0 Consensus size: 207
84693374 TTCCCCTAAA
84693384 GCAAAAGAATGTTTAAAAAAGGACACATTTTCATCAAAAGTAACATCAATTGAATCAAGACTCTC
1 GCAAAAGAATGTTTAAAAAAGGACACATTTTCATCAAAAGTAACATCAATTGAATCAAGACTCTC
84693449 CAAGTAGGAGGATGAAAACATTTGTACCCTTTTTGCATTGAAGAATTCCAATAAAGACACACGGA
66 CAAGTAGGAGGATGAAAACATTTGTACCCTTTTTGCATTGAAGAATTCCAATAAAGACACACGGA
84693514 ATAGCATGTGGATCAAGTTTCCTCTATTGTTAGATTGTTTAAGGAGTTGAAATTTGAAAACATAT
131 ATAGCATGTGGATCAAGTTTCCTCTATTGTTAGATTGTTTAAGGAGTTGAAATTTGAAAACATAT
84693579 TTGTGAGCATGT
196 TTGTGAGCATGT
84693591 GCAAAAGAATGTTTAAAAAAGGACACATTTTCATCAAAAGTAACATCAATTGAATCAAGACTCTC
1 GCAAAAGAATGTTTAAAAAAGGACACATTTTCATCAAAAGTAACATCAATTGAATCAAGACTCTC
84693656 CAAGTAGGAGGATGAAAACATTTGTACCCTTTTTGCATTGAAGAATTCCAATAAAGACACACGGA
66 CAAGTAGGAGGATGAAAACATTTGTACCCTTTTTGCATTGAAGAATTCCAATAAAGACACACGGA
84693721 ATAGCATGTGGATCAAGTTTCCTCTATTGTTAGATTGTTTAAGGAGTTGAAATTTGAAAACATAT
131 ATAGCATGTGGATCAAGTTTCCTCTATTGTTAGATTGTTTAAGGAGTTGAAATTTGAAAACATAT
84693786 TTGTGAGCATGT
196 TTGTGAGCATGT
84693798 CTATTGGTTT
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 207 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (207 bp):
GCAAAAGAATGTTTAAAAAAGGACACATTTTCATCAAAAGTAACATCAATTGAATCAAGACTCTC
CAAGTAGGAGGATGAAAACATTTGTACCCTTTTTGCATTGAAGAATTCCAATAAAGACACACGGA
ATAGCATGTGGATCAAGTTTCCTCTATTGTTAGATTGTTTAAGGAGTTGAAATTTGAAAACATAT
TTGTGAGCATGT
Found at i:84694930 original size:22 final size:22
Alignment explanation
Indices: 84694902--84694946 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
84694892 TTGCTTTTTG
84694902 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
84694924 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
84694946 T
1 T
84694947 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:84699526 original size:22 final size:22
Alignment explanation
Indices: 84699498--84699542 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
84699488 AGGGGGAGTG
84699498 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
84699520 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
84699542 T
1 T
84699543 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:84700054 original size:119 final size:119
Alignment explanation
Indices: 84699904--84700142 Score: 406
Period size: 119 Copynumber: 2.0 Consensus size: 119
84699894 ATTTTTCTTC
* *
84699904 TCTTTATAATAAGTTTTTACTTTAAATATGACTGCTGCTCCTACTTTAGTTAGTGTTTCTATTTA
1 TCTTTATAATAAGTTTTTACTTTAAATATGACTGCTGCTCCTACTTTACTCAGTGTTTCTATTTA
* *** *
84699969 TTTATTTAAATTTTTGTTTTAGTTTTTTATGTAAACATTTGGTTTTCATGTTCT
66 TTTATTGAAATTTAAATTTTAGTTTTTTATGTAAACATTTGGCTTTCATGTTCT
*
84700023 TCTTTATAATCAGTTTTTACTTTAAATATGACTGCTGCTCCTACTTTACTCAGTGTTTCTATTTA
1 TCTTTATAATAAGTTTTTACTTTAAATATGACTGCTGCTCCTACTTTACTCAGTGTTTCTATTTA
84700088 TTTATTGAAATTTAAATTTTAGTTTTTTATGTAAACATTTGGCTTTCATGTTCT
66 TTTATTGAAATTTAAATTTTAGTTTTTTATGTAAACATTTGGCTTTCATGTTCT
84700142 T
1 T
84700143 ATATATCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 112 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (119 bp):
TCTTTATAATAAGTTTTTACTTTAAATATGACTGCTGCTCCTACTTTACTCAGTGTTTCTATTTA
TTTATTGAAATTTAAATTTTAGTTTTTTATGTAAACATTTGGCTTTCATGTTCT
Found at i:84702770 original size:20 final size:23
Alignment explanation
Indices: 84702721--84702774 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
84702711 TAGAAAGTGG
*
84702721 GCAACAAAAGCTAGAGATAAACA
1 GCAACAAAAGCTAGAAATAAACA
84702744 GCAACAAAAGCTAGAAATAAACA
1 GCAACAAAAGCTAGAAATAAACA
*
84702767 ACAACAAA
1 GCAACAAA
84702775 CAATAACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (23 bp):
GCAACAAAAGCTAGAAATAAACA
Found at i:84705126 original size:117 final size:115
Alignment explanation
Indices: 84704922--84705133 Score: 293
Period size: 117 Copynumber: 1.8 Consensus size: 115
84704912 GCAGAAGCCT
** * *
84704922 CTGTAGATGCTGTAATGTTCTTACTTGTGCTGTTGCTTGTTTAACTTTAAATATTGTGAAGATGC
1 CTGTAGATGCTGTAACATTCTTACTAGTGCTGTTGCTTGTTTAACTTTAAATATTGGGAAGATGC
84704987 AACTAGTAATTCCTTTTATTTGAATAGACATGTGCGCGTGCGCACACACG
66 AACTAGTAATTCCTTTTATTTGAATAGACATGTGCGCGTGCGCACACACG
* * * *
84705037 CTGTAGATGCTGTAACATTCTTACTAGTGTTTTTTGCTT-TCTTAACTTTCAATTTTGGGAAAGA
1 CTGTAGATGCTGTAACATTCTTACTAGTG-CTGTTGCTTGT-TTAACTTTAAATATTGGG-AAGA
*
84705101 TGCAGCTAGTAATTCC-TTTAGTTTGAATAGACA
63 TGCAACTAGTAATTCCTTTTA-TTTGAATAGACA
84705134 CACACAGACT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
115 27 0.32
116 26 0.31
117 31 0.37
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (115 bp):
CTGTAGATGCTGTAACATTCTTACTAGTGCTGTTGCTTGTTTAACTTTAAATATTGGGAAGATGC
AACTAGTAATTCCTTTTATTTGAATAGACATGTGCGCGTGCGCACACACG
Found at i:84707092 original size:13 final size:13
Alignment explanation
Indices: 84707074--84707100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84707064 ATGTTACTAC
84707074 ATGTGATGCTCTA
1 ATGTGATGCTCTA
84707087 ATGTGATGCTCTA
1 ATGTGATGCTCTA
84707100 A
1 A
84707101 GATCCTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (13 bp):
ATGTGATGCTCTA
Found at i:84709799 original size:25 final size:24
Alignment explanation
Indices: 84709734--84709799 Score: 105
Period size: 24 Copynumber: 2.7 Consensus size: 24
84709724 TATCCTTAGT
*
84709734 TTTTAAACTTGACAATACATTTTA
1 TTTTAATCTTGACAATACATTTTA
84709758 TTTTAATCTTGACAATACATTTTA
1 TTTTAATCTTGACAATACATTTTA
*
84709782 TTTTAATCCTTGTCAATA
1 TTTTAAT-CTTGACAATA
84709800 TTAGTAAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 30 0.77
25 9 0.23
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (24 bp):
TTTTAATCTTGACAATACATTTTA
Found at i:84709882 original size:19 final size:20
Alignment explanation
Indices: 84709868--84709904 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84709858 ATAAATTGTG
84709868 AAAATTA-AAAAAAATTATA
1 AAAATTATAAAAAAATTATA
*
84709887 AAAATTATTAAAAAATTA
1 AAAATTATAAAAAAATTA
84709905 ATGAAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAAAATTATA
Found at i:84714239 original size:89 final size:89
Alignment explanation
Indices: 84714088--84714265 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 89
84714078 GCAAGTTCCC
84714088 TCATTCCTAAGTGAACCACATTCCACAATAACCTACATCTGTTAATTTGCATTCCTCAAGAACTG
1 TCATTCCTAAGTGAACCACATTCCACAATAACCTACATCTGTTAATTTGCATTCCTCAAGAACTG
84714153 TTCAAAATTCCTCCATTCTTCTTT
66 TTCAAAATTCCTCCATTCTTCTTT
*
84714177 TCATTCCTAAGTGAGCCACATTCCACAATAACCTACATCTGTTAATTTGCATTCCTCAAGAACTG
1 TCATTCCTAAGTGAACCACATTCCACAATAACCTACATCTGTTAATTTGCATTCCTCAAGAACTG
84714242 TTCAAAATTCCTCCATTCTTCTTT
66 TTCAAAATTCCTCCATTCTTCTTT
84714266 CTAACCTCAG
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (89 bp):
TCATTCCTAAGTGAACCACATTCCACAATAACCTACATCTGTTAATTTGCATTCCTCAAGAACTG
TTCAAAATTCCTCCATTCTTCTTT
Found at i:84718579 original size:27 final size:27
Alignment explanation
Indices: 84718548--84718725 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84718538 TAAATTGTAC
84718548 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84718575 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84718601 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84718629 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84718657 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84718684 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84718711 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84718726 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84718662 original size:82 final size:81
Alignment explanation
Indices: 84718549--84718704 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84718539 AAATTGTACA
* *
84718549 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84718613 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84718630 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84718695 TGCGAGTTGA
65 TGCGAATTGA
84718705 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84718716 original size:82 final size:81
Alignment explanation
Indices: 84718545--84718725 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84718535 GATTAAATTG
* *
84718545 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84718610 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84718626 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84718690 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84718708 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84718726 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84726597 original size:27 final size:27
Alignment explanation
Indices: 84726566--84726743 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
84726556 TAAATTGTAC
84726566 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
84726593 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84726619 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
84726647 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
84726675 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
84726702 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84726729 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84726744 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84726680 original size:82 final size:81
Alignment explanation
Indices: 84726567--84726722 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
84726557 AAATTGTACA
* *
84726567 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
84726631 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
84726648 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
84726713 TGCGAGTTGA
65 TGCGAATTGA
84726723 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:84726734 original size:82 final size:81
Alignment explanation
Indices: 84726563--84726743 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
84726553 GATTAAATTG
* *
84726563 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
84726628 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
84726644 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
84726708 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
84726726 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
84726744 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:84736535 original size:21 final size:22
Alignment explanation
Indices: 84736506--84736555 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
84736496 CGGCCTGTAG
* *
84736506 CACGAGCGTGTCCC-AAGGTCA
1 CACGGGCGTGTCCCTAAGGCCA
*
84736527 CACGGGCGTGTCCCTCAGGCCA
1 CACGGGCGTGTCCCTAAGGCCA
84736549 CACGGGC
1 CACGGGC
84736556 ATGTGTGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.18, C:0.38, G:0.32, T:0.12
Consensus pattern (22 bp):
CACGGGCGTGTCCCTAAGGCCA
Found at i:84748792 original size:22 final size:22
Alignment explanation
Indices: 84748764--84748808 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
84748754 ATTATGATGA
84748764 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
84748786 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
84748808 T
1 T
84748809 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:84751069 original size:27 final size:27
Alignment explanation
Indices: 84751030--84751101 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
84751020 GCATAGAGAG
** *
84751030 AGTCCATCGGGACATTAAA-AGTGGGGC
1 AGTCCATTAGGACATTAAACA-CGGGGC
* *
84751057 AGTCCATTAGGACAATAAACACGGGGT
1 AGTCCATTAGGACATTAAACACGGGGC
84751084 AGTCCATTAGGACATTAA
1 AGTCCATTAGGACATTAA
84751102 GCATGGGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (27 bp):
AGTCCATTAGGACATTAAACACGGGGC
Found at i:84753123 original size:89 final size:89
Alignment explanation
Indices: 84753010--84753185 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 89
84753000 CACCAAACAA
* *
84753010 CATAACAGGGAGTTCAAGCGAGCCATGTCAGGAAGCCTATAAGAGCTTATATTAGGATGCTCTCC
1 CATAACAGGGAGTTCAAGCGAGCCATGTCAGGAAACCTATAAGAGCTTATATTAGGATGCTCACC
*
84753075 TAGAGCTGCATTTGTGACCGCAAG
66 TAGAGCTACATTTGTGACCGCAAG
84753099 CATAACAGGGAGTTCAAGCGAGCCATGTCAGGAAACCTATAAGAGCTTATATTAGGATGCTCACC
1 CATAACAGGGAGTTCAAGCGAGCCATGTCAGGAAACCTATAAGAGCTTATATTAGGATGCTCACC
* *
84753164 TAGAGCTACTTTTGTGTCCGCA
66 TAGAGCTACATTTGTGACCGCA
84753186 TTATATACCG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (89 bp):
CATAACAGGGAGTTCAAGCGAGCCATGTCAGGAAACCTATAAGAGCTTATATTAGGATGCTCACC
TAGAGCTACATTTGTGACCGCAAG
Found at i:84755356 original size:40 final size:40
Alignment explanation
Indices: 84755301--84755404 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
84755291 TACTCGAATG
* *
84755301 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
*
84755341 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
* *
84755381 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
84755405 CTTGTGCGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGCGACC
Found at i:84763393 original size:40 final size:40
Alignment explanation
Indices: 84763299--84763443 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
84763289 TACTCGAATG
*
84763299 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
84763340 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
84763380 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
84763420 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
84763444 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:84773896 original size:14 final size:14
Alignment explanation
Indices: 84773879--84773905 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84773869 AAAAATGAGT
84773879 ATAAATAAATAAAA
1 ATAAATAAATAAAA
84773893 ATAAATAAATAAA
1 ATAAATAAATAAA
84773906 TAAAAACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATAAATAAATAAAA
Found at i:84777935 original size:20 final size:20
Alignment explanation
Indices: 84777907--84777945 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84777897 ATCAACTTTC
84777907 TCTTAAATTTAC-TCAAAAAA
1 TCTTAAA-TTACTTCAAAAAA
*
84777927 TCTTCAATTACTTCAAAAA
1 TCTTAAATTACTTCAAAAA
84777946 TCAGCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
TCTTAAATTACTTCAAAAAA
Found at i:84780341 original size:24 final size:24
Alignment explanation
Indices: 84780311--84780386 Score: 125
Period size: 24 Copynumber: 3.2 Consensus size: 24
84780301 TTAAAACTTT
* **
84780311 TATTTTTTTAAAGTTATTTAAAAA
1 TATTTTTTGAAAGAAATTTAAAAA
84780335 TATTTTTTGAAAGAAATTTAAAAA
1 TATTTTTTGAAAGAAATTTAAAAA
84780359 TATTTTTTGAAAGAAATTTAAAAA
1 TATTTTTTGAAAGAAATTTAAAAA
84780383 TATT
1 TATT
84780387 ATTATACTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
TATTTTTTGAAAGAAATTTAAAAA
Found at i:84780728 original size:21 final size:21
Alignment explanation
Indices: 84780702--84780742 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
84780692 TTAAGAGATA
**
84780702 TTACTTAAATCGTTGTATCTC
1 TTACTTAAATAATTGTATCTC
*
84780723 TTACTTTAATAATTGTATCT
1 TTACTTAAATAATTGTATCT
84780743 ATTTAAGACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (21 bp):
TTACTTAAATAATTGTATCTC
Found at i:84792118 original size:13 final size:13
Alignment explanation
Indices: 84792100--84792126 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84792090 GTCAACATAG
84792100 AACCAAATGACAT
1 AACCAAATGACAT
84792113 AACCAAATGACAT
1 AACCAAATGACAT
84792126 A
1 A
84792127 GATCAAGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (13 bp):
AACCAAATGACAT
Found at i:84795380 original size:40 final size:40
Alignment explanation
Indices: 84795296--84795479 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
84795286 TTGAATGCTG
* * * *
84795296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
84795335 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
84795376 TCCGGGTCAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
84795416 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
84795456 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84795480 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:84797368 original size:46 final size:46
Alignment explanation
Indices: 84797275--84797444 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 46
84797265 CGTAGTCGAC
* * * * *
84797275 GCATGTCCCAGATATGTCTAACACTGGCT-TACTTCTCGA-GACAGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCT-C-TCTCAATGACCGAT
84797321 GCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATG-CCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGACCGAT
* * * *
84797367 GCCATGTCCCAGACATGGTCCTACACTGGCTCTC-AT-AATGTGAACGAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCAA--TGACCGAT
* *
84797415 GCATGTCCCAGACATATCTTACATTAGCTC
1 GCATGTCCCAGACATGTCTTACACTAGCTC
84797445 ACAATAACCC
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 49 0.48
47 32 0.31
48 20 0.19
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGACCGAT
Found at i:84809743 original size:27 final size:27
Alignment explanation
Indices: 84809703--84809843 Score: 187
Period size: 27 Copynumber: 5.2 Consensus size: 27
84809693 AGGAAGCGTC
*
84809703 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
84809730 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
84809756 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAAATATCTGAT
* * *
84809784 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
84809811 CTGGTGGCTCTGCCAC-AATATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
84809838 CTGGTG
1 CTGGTG
84809844 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.08
27 89 0.91
28 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:84809764 original size:54 final size:54
Alignment explanation
Indices: 84809700--84809843 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
84809690 TAGAGGAAGC
84809700 GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
* *
84809754 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
* *
84809808 GTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAAATATCTG-ATCTGGTG
84809844 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 7 0.08
54 77 0.92
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:84809854 original size:27 final size:26
Alignment explanation
Indices: 84809703--84809861 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 26
84809693 AGGAAGCGTC
* * *
84809703 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
* *
84809730 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * *
84809757 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
84809784 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
84809811 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
84809838 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
84809862 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 11 0.10
27 103 0.90
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:84809855 original size:81 final size:80
Alignment explanation
Indices: 84809703--84809861 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
84809693 AGGAAGCGTC
*
84809703 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
84809768 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * * *
84809784 CTGGTGGCTCTGCCATATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTA
*
84809847 TCGTCACAATATCTG
65 T-GCCACAATATCTG
84809862 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 15 0.22
81 54 0.78
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:84814704 original size:20 final size:20
Alignment explanation
Indices: 84814687--84814726 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
84814677 ATTTTTTCTC
84814687 TTGATTTTAAGCTTTTTCCT
1 TTGATTTTAAGCTTTTTCCT
*
84814707 TTGATTTTCAGCTTTTTCCT
1 TTGATTTTAAGCTTTTTCCT
84814727 CTGAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.60
Consensus pattern (20 bp):
TTGATTTTAAGCTTTTTCCT
Found at i:84814723 original size:21 final size:21
Alignment explanation
Indices: 84814678--84814728 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
84814668 ACAAATCCGA
84814678 TTTTTTCTCTTGATTTTAAGC
1 TTTTTTCTCTTGATTTTAAGC
* *
84814699 TTTTTCCT-TTGATTTTCAGC
1 TTTTTTCTCTTGATTTTAAGC
*
84814719 TTTTTCCTCT
1 TTTTTTCTCT
84814729 GAAAAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.10, C:0.20, G:0.08, T:0.63
Consensus pattern (21 bp):
TTTTTTCTCTTGATTTTAAGC
Done.