Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 12 of 190
Found at i:1875248 original size:21 final size:21
Alignment explanation
Indices: 1875203--1875261 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1875193 CTTATGATAT
* * *
1875203 AATTTTGATAACTTTTGATAC
1 AATTTTGATAACTTTTAACAA
*
1875224 AATTTTGATAATTTTTAACAA
1 AATTTTGATAACTTTTAACAA
*
1875245 AATTTTAATAAACTTTT
1 AATTTTGAT-AACTTTT
1875262 GATATCATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (21 bp):
AATTTTGATAACTTTTAACAA
Found at i:1875530 original size:21 final size:21
Alignment explanation
Indices: 1875464--1875559 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1875454 TTGATAACCT
*
1875464 TTGATA-AACTTTTGGTAA-TT
1 TTGATACAA-TTTTGGTAACTA
*
1875484 TTAATACAATTTTGGTAACT-
1 TTGATACAATTTTGGTAACTA
*
1875504 TATGATATAATTTTGGTAACTA
1 T-TGATACAATTTTGGTAACTA
* * *
1875526 TTGATACAATATCGGTAACCA
1 TTGATACAATTTTGGTAACTA
1875547 TTGATACAATTTT
1 TTGATACAATTTT
1875560 TATAATCTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.24
21 47 0.75
22 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGATACAATTTTGGTAACTA
Found at i:1876036 original size:22 final size:22
Alignment explanation
Indices: 1875973--1876141 Score: 128
Period size: 22 Copynumber: 7.7 Consensus size: 22
1875963 GATATACAGC
* *
1875973 TAAATTATCAATGATTTATTA-
1 TAAATTATTAATGATTTACTAT
* * *
1875994 CAAATTAATATTGATTTACTAT
1 TAAATTATTAATGATTTACTAT
* *
1876016 TAATTTA-TAATTAGTTTACTAT
1 TAAATTATTAATGA-TTTACTAT
*
1876038 TAAATTATTGATGATTTACTAT
1 TAAATTATTAATGATTTACTAT
* * * **
1876060 TAAATAACTGATGATTTGTTAT
1 TAAATTATTAATGATTTACTAT
*
1876082 AAAATT-TTAATTGATTTACTAT
1 TAAATTATTAA-TGATTTACTAT
* * *
1876104 TAATTTATCAATAATTTACTAT
1 TAAATTATTAATGATTTACTAT
* *
1876126 AAAATTATCAATGATT
1 TAAATTATTAATGATT
1876142 AATTAATTTA
Statistics
Matches: 114, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
21 22 0.19
22 85 0.75
23 7 0.06
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTATTAATGATTTACTAT
Found at i:1876141 original size:66 final size:67
Alignment explanation
Indices: 1875973--1876130 Score: 153
Period size: 66 Copynumber: 2.4 Consensus size: 67
1875963 GATATACAGC
* * * * * ** *
1875973 TAAATTATCAATGATTTATTACAAATTAA-TATTGATTTACTAT-TAATTTATAATTAGTTTACT
1 TAAATTATCAATAATTTACTATAAAATAACTAATGATTTGTTATAAAATTTATAATTAGTTTACT
1876036 AT
66 AT
** * * *
1876038 TAAATTATTGATGATTTACTATTAAATAACTGATGATTTGTTATAAAATTT-TAATT-GATTTAC
1 TAAATTATCAATAATTTACTATAAAATAACTAATGATTTGTTATAAAATTTATAATTAG-TTTAC
1876101 TAT
65 TAT
*
1876104 TAATTTATCAATAATTTACTATAAAAT
1 TAAATTATCAATAATTTACTATAAAAT
1876131 TATCAATGAT
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
65 24 0.32
66 45 0.61
67 5 0.07
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (67 bp):
TAAATTATCAATAATTTACTATAAAATAACTAATGATTTGTTATAAAATTTATAATTAGTTTACT
AT
Found at i:1876454 original size:22 final size:22
Alignment explanation
Indices: 1876429--1876479 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
1876419 AATAACACAA
1876429 TTATTATTGATTTATTACTAAG-
1 TTATTATT-ATTTATTACTAAGT
1876451 TTATTTATTATTTATTACTAAGT
1 TTA-TTATTATTTATTACTAAGT
1876474 TTATTA
1 TTATTA
1876480 ATTAATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (22 bp):
TTATTATTATTTATTACTAAGT
Found at i:1876478 original size:19 final size:21
Alignment explanation
Indices: 1876432--1876490 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1876422 AACACAATTA
*
1876432 TTATTGATTTATTACTAAGTTAT
1 TTATTAATTTATTACTAAG-T-T
1876455 TTATT-ATTTATTACTAAG-T
1 TTATTAATTTATTACTAAGTT
*
1876474 TTATTAATTAATTACTA
1 TTATTAATTTATTACTA
1876491 TTAAACTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.18
20 10 0.29
22 13 0.38
23 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATTAATTTATTACTAAGTT
Found at i:1876802 original size:22 final size:21
Alignment explanation
Indices: 1876777--1876856 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
1876767 CCCTGTAGTG
1876777 ATTACATTATCACTAATTTACT
1 ATTA-ATTATCACTAATTTACT
* *
1876799 ATTAAATTATCATTAATTTATT
1 ATT-AATTATCACTAATTTACT
* * *
1876821 ATTAAGTTATCAATTATTAACT
1 ATTAA-TTATCACTAATTTACT
*
1876843 ACTAAGTTATCACT
1 ATTAA-TTATCACT
1876857 TTTTTTATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.04
22 45 0.94
23 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTAATTATCACTAATTTACT
Found at i:1879952 original size:95 final size:96
Alignment explanation
Indices: 1879769--1879963 Score: 293
Period size: 95 Copynumber: 2.0 Consensus size: 96
1879759 AGGAAACAAG
1879769 AAAATAAAATAAAATTACAACTCAAAATTTTCTTGCATTATTAATTAGTGTCATTTCTAGAATTT
1 AAAATAAAATAAAATTACAACTCAAAATTTTCTTGC-----T-ATTAGTGTCATTTCTAGAATTT
* *
1879834 TGTCAGTTGATATTATAAATTAGATTATATTTTAGTA
60 TGTCAGCTGATATTATAAATTAGAATATATTTTAGTA
* *
1879871 AAAATAAAATGAAATTACAACTCAAAATTTTCTTGC-ATTAGTGTCATTTCTATAATTTTGTCAG
1 AAAATAAAATAAAATTACAACTCAAAATTTTCTTGCTATTAGTGTCATTTCTAGAATTTTGTCAG
1879935 CTGATATTATAAATTAGAATATATTTTAG
66 CTGATATTATAAATTAGAATATATTTTAG
1879964 AGGTTGATAC
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
95 54 0.61
102 35 0.39
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (96 bp):
AAAATAAAATAAAATTACAACTCAAAATTTTCTTGCTATTAGTGTCATTTCTAGAATTTTGTCAG
CTGATATTATAAATTAGAATATATTTTAGTA
Found at i:1880124 original size:21 final size:21
Alignment explanation
Indices: 1880098--1880188 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
1880088 TAACATTTTA
1880098 TAACTTTTGATA-AATTTTTGG
1 TAACTTTTGATACAA-TTTTGG
** *
1880119 TAAC-TTCAATACAATTTTAG
1 TAACTTTTGATACAATTTTGG
* * *
1880139 TAACTTATGATATAATTTTGA
1 TAACTTTTGATACAATTTTGG
*
1880160 TAACTTTTGATACAATTTTGA
1 TAACTTTTGATACAATTTTGG
*
1880181 TAATTTTT
1 TAACTTTT
1880189 AACAAAATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
20 14 0.25
21 42 0.75
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (21 bp):
TAACTTTTGATACAATTTTGG
Found at i:1880178 original size:11 final size:10
Alignment explanation
Indices: 1880146--1880214 Score: 57
Period size: 11 Copynumber: 6.5 Consensus size: 10
1880136 TAGTAACTTA
1880146 TGATATAATTT
1 TGATA-AATTT
*
1880157 TGATAACTTT
1 TGATAAATTT
1880167 TGATACAATTT
1 TGATA-AATTT
*
1880178 TGATAATTTT
1 TGATAAATTT
* *
1880188 TAACAAAATTT
1 TGA-TAAATTT
*
1880199 TAATAAACTTT
1 TGATAAA-TTT
1880210 TGATA
1 TGATA
1880215 TCATTTCTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
10 18 0.38
11 29 0.62
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (10 bp):
TGATAAATTT
Found at i:1880197 original size:21 final size:21
Alignment explanation
Indices: 1880152--1880210 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1880142 CTTATGATAT
* * *
1880152 AATTTTGATAACTTTTGATAC
1 AATTTTGATAACTTTTAACAA
*
1880173 AATTTTGATAATTTTTAACAA
1 AATTTTGATAACTTTTAACAA
*
1880194 AATTTTAATAAACTTTT
1 AATTTTGAT-AACTTTT
1880211 GATATCATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 25 0.81
22 6 0.19
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (21 bp):
AATTTTGATAACTTTTAACAA
Found at i:1880479 original size:21 final size:21
Alignment explanation
Indices: 1880413--1880508 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1880403 TTGATAACCT
*
1880413 TTGATA-AACTTTTGGTAA-TT
1 TTGATACAA-TTTTGGTAACTA
*
1880433 TTAATACAATTTTGGTAACT-
1 TTGATACAATTTTGGTAACTA
*
1880453 TATGATATAATTTTGGTAACTA
1 T-TGATACAATTTTGGTAACTA
* * *
1880475 TTGATACAATATCGGTAACCA
1 TTGATACAATTTTGGTAACTA
1880496 TTGATACAATTTT
1 TTGATACAATTTT
1880509 TATAATCTTG
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.24
21 47 0.75
22 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (21 bp):
TTGATACAATTTTGGTAACTA
Found at i:1881015 original size:22 final size:22
Alignment explanation
Indices: 1880922--1881092 Score: 114
Period size: 22 Copynumber: 7.7 Consensus size: 22
1880912 GATATACAGC
* *
1880922 TAAATTATCAATGATTTATTA-
1 TAAATTATTAATGATTTACTAT
* * *
1880943 CAAATTAATATTGATTTAACTAT
1 TAAATTATTAATGATTT-ACTAT
* *
1880966 TAATTTA-TAATTAGTTTACTAAT
1 TAAATTATTAATGA-TTTACT-AT
*
1880989 TAAATTATTGATGATTTACTAT
1 TAAATTATTAATGATTTACTAT
* * * **
1881011 TAAATAACTGATGATTTGTTAT
1 TAAATTATTAATGATTTACTAT
*
1881033 AAAATT-TTAATTGATTTACTAT
1 TAAATTATTAA-TGATTTACTAT
* * *
1881055 TAATTTATCAATAATTTACTAT
1 TAAATTATTAATGATTTACTAT
* *
1881077 AAAATTATCAATGATT
1 TAAATTATTAATGATT
1881093 AATTAATTTA
Statistics
Matches: 114, Mismatches: 29, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
21 15 0.13
22 70 0.61
23 25 0.22
24 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (22 bp):
TAAATTATTAATGATTTACTAT
Found at i:1881405 original size:22 final size:22
Alignment explanation
Indices: 1881380--1881430 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
1881370 AATAACACAA
1881380 TTATTATTGATTTATTACTAAG-
1 TTATTATT-ATTTATTACTAAGT
1881402 TTATTTATTATTTATTACTAAGT
1 TTA-TTATTATTTATTACTAAGT
1881425 TTATTA
1 TTATTA
1881431 ATTAATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (22 bp):
TTATTATTATTTATTACTAAGT
Found at i:1881429 original size:19 final size:21
Alignment explanation
Indices: 1881383--1881441 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
1881373 AACACAATTA
*
1881383 TTATTGATTTATTACTAAGTTAT
1 TTATTAATTTATTACTAAG-T-T
1881406 TTATT-ATTTATTACTAAG-T
1 TTATTAATTTATTACTAAGTT
*
1881425 TTATTAATTAATTACTA
1 TTATTAATTTATTACTA
1881442 TTAAACTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.18
20 10 0.29
22 13 0.38
23 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATTAATTTATTACTAAGTT
Found at i:1881758 original size:22 final size:21
Alignment explanation
Indices: 1881733--1881812 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
1881723 CCCTGTAGTG
1881733 ATTACATTATCACTAATTTACT
1 ATTA-ATTATCACTAATTTACT
* *
1881755 ATTAAATTATCATTAATTTATT
1 ATT-AATTATCACTAATTTACT
* * *
1881777 ATTAAGTTATCAATTATTAACT
1 ATTAA-TTATCACTAATTTACT
*
1881799 ACTAAGTTATCACT
1 ATTAA-TTATCACT
1881813 TTTTTTATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.04
22 45 0.94
23 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTAATTATCACTAATTTACT
Found at i:1885010 original size:20 final size:20
Alignment explanation
Indices: 1884981--1885030 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
1884971 TTTGCAAAAT
*
1884981 TTTTGTTAACTTCA-ATACAA
1 TTTTGGTAACTT-AGATACAA
*
1885001 TTTTGGTAACTTATGATATAA
1 TTTTGGTAACTTA-GATACAA
1885022 TTTTGGTAA
1 TTTTGGTAA
1885031 TCATTGATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 11 0.42
21 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (20 bp):
TTTTGGTAACTTAGATACAA
Found at i:1885046 original size:21 final size:21
Alignment explanation
Indices: 1884995--1885046 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1884985 GTTAACTTCA
*
1884995 ATACAATTTTGGTAACTTATG
1 ATACAATTTTGGTAACATATG
*
1885016 ATATAATTTTGGTAATCAT-TG
1 ATACAATTTTGGTAA-CATATG
*
1885037 ATACATTTTT
1 ATACAATTTT
1885047 TATAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (21 bp):
ATACAATTTTGGTAACATATG
Found at i:1885217 original size:3 final size:3
Alignment explanation
Indices: 1885209--1885263 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
1885199 TTTATACTAA
1885209 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
1885255 ACT AAT AAT
1 AAT AAT AAT
1885264 TTAATTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1885372 original size:21 final size:21
Alignment explanation
Indices: 1885306--1885401 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1885296 TTGATAACCT
*
1885306 TTGATA-AACTTTTGGTAA-TT
1 TTGATACAA-TTTTGGTAACTA
*
1885326 TTAATACAATTTTGGTAACT-
1 TTGATACAATTTTGGTAACTA
*
1885346 TATGATATAATTTTGGTAACTA
1 T-TGATACAATTTTGGTAACTA
* * *
1885368 TTGATACGATATCGGTAACTA
1 TTGATACAATTTTGGTAACTA
1885389 TTGATACAATTTT
1 TTGATACAATTTT
1885402 TATAATCTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 15 0.24
21 46 0.74
22 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (21 bp):
TTGATACAATTTTGGTAACTA
Found at i:1885853 original size:22 final size:22
Alignment explanation
Indices: 1885819--1885866 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1885809 TTATCAATGA
* *
1885819 TTTATTACAAATTAATATTTGG
1 TTTACTACAAATTAATAATTGG
* *
1885841 TTTACTACTAATTTATAATTGG
1 TTTACTACAAATTAATAATTGG
1885863 TTTA
1 TTTA
1885867 ATATTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (22 bp):
TTTACTACAAATTAATAATTGG
Found at i:1885914 original size:22 final size:22
Alignment explanation
Indices: 1885863--1885920 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1885853 TTATAATTGG
* **
1885863 TTTAATATTAAATTGTTGATGA
1 TTTATTATTAAATTACTGATGA
1885885 TTTATTATTAAATTACTGATGA
1 TTTATTATTAAATTACTGATGA
* *
1885907 TTTGTTATAAAATT
1 TTTATTATTAAATT
1885921 TTAATTGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTATTATTAAATTACTGATGA
Found at i:1885970 original size:22 final size:22
Alignment explanation
Indices: 1885928--1885970 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1885918 ATTTTAATTG
* *
1885928 ATTTACTATTAATTTAGCAATA
1 ATTTACTATAAAATTAGCAATA
*
1885950 ATTTACTATAAAATTATCAAT
1 ATTTACTATAAAATTAGCAAT
1885971 GATTAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTACTATAAAATTAGCAATA
Found at i:1886079 original size:6 final size:6
Alignment explanation
Indices: 1886068--1886130 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
1886058 ATTTTCTTCA
*
1886068 TTTTAT TTTTAT TTTTATT TTTGTAT TTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT
* *
1886118 TATTAT TATTAT T
1 TTTTAT TTTTAT T
1886131 ATTTTATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.10
6 30 0.60
7 13 0.26
8 2 0.04
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:1886087 original size:26 final size:25
Alignment explanation
Indices: 1886052--1886137 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 25
1886042 GGTAAGTATA
1886052 TATTTTATTTTCT-TCATTTT-ATTTT
1 TATTTTATTTT-TGT-ATTTTAATTTT
1886077 TATTTTTATTTTTGTATTTTACATTTT
1 TA-TTTTATTTTTGTATTTTA-ATTTT
* *
1886104 TATTTTATTTTTATTATTATT-ATTAT
1 TATTTTATTTTT-GTATT-TTAATTTT
1886130 TATTTTAT
1 TATTTTAT
1886138 ATATGTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
25 8 0.15
26 32 0.60
27 11 0.21
28 2 0.04
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (25 bp):
TATTTTATTTTTGTATTTTAATTTT
Found at i:1886126 original size:9 final size:8
Alignment explanation
Indices: 1886056--1886181 Score: 50
Period size: 9 Copynumber: 15.5 Consensus size: 8
1886046 AGTATATATT
*
1886056 TTATTTTC
1 TTATTTTA
1886064 TTCATTTTA
1 TT-ATTTTA
* *
1886073 TTTTTATTT
1 TTATT-TTA
1886082 TTATTTT-
1 TTATTTTA
1886089 TGTATTTTA
1 T-TATTTTA
*
1886098 -CA-TTT-
1 TTATTTTA
1886103 TTATTTTA
1 TTATTTTA
*
1886111 TTTTTATTA
1 TTATT-TTA
1886120 TTATTATTA
1 TTATT-TTA
1886129 TTATTTTA
1 TTATTTTA
*
1886137 TATATGTATA
1 T-TAT-TTTA
1886147 TATATTTT-
1 T-TATTTTA
* *
1886155 TTCTTTTC
1 TTATTTTA
1886163 TT-TTATTA
1 TTATT-TTA
1886171 TTATTTT-
1 TTATTTTA
1886178 TTAT
1 TTAT
1886182 CTTAGGCATT
Statistics
Matches: 93, Mismatches: 12, Indels: 27
0.70 0.09 0.20
Matches are distributed among these distances:
6 4 0.04
7 16 0.17
8 29 0.31
9 36 0.39
10 8 0.09
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (8 bp):
TTATTTTA
Found at i:1886178 original size:12 final size:12
Alignment explanation
Indices: 1886070--1886178 Score: 64
Period size: 12 Copynumber: 8.7 Consensus size: 12
1886060 TTTCTTCATT
*
1886070 TTATTTTTATTT
1 TTATTTTTATTA
1886082 TTATTTTTGTATT-
1 TTA-TTTT-TATTA
1886095 TTACATTTTTATT-
1 TT--ATTTTTATTA
1886108 TTATTTTTATTA
1 TTATTTTTATTA
*
1886120 TTATTATTATTA
1 TTATTTTTATTA
*
1886132 TT-TTATATATGTA
1 TTATT-TTTAT-TA
*
1886145 TATATATTTT-TTC
1 T-TAT-TTTTATTA
*
1886158 TTTTCTTTTATTA
1 TTAT-TTTTATTA
1886171 TTATTTTT
1 TTATTTTT
1886179 TATCTTAGGC
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
11 11 0.14
12 29 0.38
13 22 0.29
14 10 0.13
15 4 0.05
16 1 0.01
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:1886294 original size:22 final size:20
Alignment explanation
Indices: 1886269--1886362 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 20
1886259 ATTTATGTAA
1886269 TTATCTGTT-ATTTAATTTTAAT
1 TTATCTGTTAATTT--TTTT-AT
1886291 TTATCTGTTAATTTTTTTAT
1 TTATCTGTTAATTTTTTTAT
* *
1886311 TTATCTTATTTATTTTCGTTTGATT
1 TTATC-TGTTAATTTT--TTT-A-T
* * *
1886336 TTTTCTTTTATTTTTTTTAT
1 TTATCTGTTAATTTTTTTAT
1886356 TTATCTG
1 TTATCTG
1886363 GCTGGAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
20 13 0.22
21 13 0.22
22 12 0.21
23 7 0.12
24 8 0.14
25 5 0.09
ACGTcount: A:0.18, C:0.06, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATCTGTTAATTTTTTTAT
Found at i:1887207 original size:12 final size:13
Alignment explanation
Indices: 1887186--1887301 Score: 50
Period size: 14 Copynumber: 8.9 Consensus size: 13
1887176 TTTTTTTAAA
1887186 ATTTATTT-TATTT
1 ATTTATTTAT-TTT
1887199 ATTTATTTATTTAT
1 ATTTATTTATTT-T
**
1887213 ATTTA-TTAGATT
1 ATTTATTTATTTT
*
1887225 AGGTTTATTTAATGTT
1 A--TTTATTT-ATTTT
*
1887241 CTTTATCTTTATTTT
1 ATTTA--TTTATTTT
1887256 A-TT-TTTATTTT
1 ATTTATTTATTTT
*
1887267 -TGT-TTTACTTTT
1 ATTTATTTA-TTTT
*
1887279 CTTTATTTA-TTT
1 ATTTATTTATTTT
1887291 ATTT-TTTATTT
1 ATTTATTTATTT
1887302 CTCATTTTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
11 17 0.21
12 14 0.17
13 16 0.20
14 21 0.26
15 6 0.08
16 6 0.08
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:1887217 original size:18 final size:17
Alignment explanation
Indices: 1887186--1887219 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
1887176 TTTTTTTAAA
1887186 ATTTATTTTATTTATTT
1 ATTTATTTTATTTATTT
1887203 ATTTATTTATATTTATT
1 ATTTATTT-TATTTATT
1887220 AGATTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTATTTTATTTATTT
Found at i:1887262 original size:11 final size:11
Alignment explanation
Indices: 1887242--1887320 Score: 54
Period size: 11 Copynumber: 6.7 Consensus size: 11
1887232 TTTAATGTTC
*
1887242 TTTATCTTTAT
1 TTTATTTTTAT
1887253 TTTATTTTTAT
1 TTTATTTTTAT
1887264 TTT-TGTTTTACT
1 TTTAT-TTTTA-T
*
1887276 TTTCTTTATT-T
1 TTTATTT-TTAT
1887287 ATTTATTTTTTAT
1 -TTTA-TTTTTAT
1887300 TTCTCATTTTTAT
1 TT-T-ATTTTTAT
*
1887313 TTTGTTTT
1 TTTATTTT
1887321 ATTATTCTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
10 1 0.02
11 23 0.41
12 14 0.25
13 17 0.30
14 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1887287 original size:25 final size:24
Alignment explanation
Indices: 1887248--1887323 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
1887238 GTTCTTTATC
1887248 TTTATTT-T-ATTTTTATTTTTGT
1 TTTATTTCTCATTTTTATTTTTGT
*
1887270 TTTACTTT-TCTTTATTTATTTATT-T
1 TTTA-TTTCTCATT-TTTATTT-TTGT
1887295 TTTATTTCTCATTTTTA-TTTTGT
1 TTTATTTCTCATTTTTATTTTTGT
1887318 TTTATT
1 TTTATT
1887324 ATTCTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.13
23 13 0.28
24 9 0.20
25 16 0.35
26 2 0.04
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (24 bp):
TTTATTTCTCATTTTTATTTTTGT
Found at i:1887320 original size:23 final size:22
Alignment explanation
Indices: 1887248--1887333 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 22
1887238 GTTCTTTATC
1887248 TTTATTTT-ATTTTTATTTTTGT
1 TTTATTTTCATTTTTA-TTTTGT
* *
1887270 TTTACTTTTCTTTATTTATTTATTT
1 TTTA-TTTTCATT-TTTATTT-TGT
1887295 TTTATTTCTCATTTTTATTTTGT
1 TTTATTT-TCATTTTTATTTTGT
1887318 TTTATTATTCTATTTT
1 TTTATT-TTC-ATTTT
1887334 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.08
23 14 0.26
24 21 0.40
25 14 0.26
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTATTTTCATTTTTATTTTGT
Found at i:1887328 original size:25 final size:24
Alignment explanation
Indices: 1887249--1887333 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
1887239 TTCTTTATCT
*
1887249 TTATTTTATTTTTATTTTTGTTTTA
1 TTATTCTATTTTTA-TTTTGTTTTA
*
1887274 CTT-TTCT-TTATTTA-TTTATTTT-
1 -TTATTCTATT-TTTATTTTGTTTTA
1887296 TTATTTCTCATTTTTATTTTGTTTTA
1 TTA-TTCT-ATTTTTATTTTGTTTTA
1887322 TTATTCTATTTT
1 TTATTCTATTTT
1887334 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
21 2 0.04
23 11 0.22
24 11 0.22
25 20 0.41
26 5 0.10
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.76
Consensus pattern (24 bp):
TTATTCTATTTTTATTTTGTTTTA
Found at i:1887471 original size:60 final size:56
Alignment explanation
Indices: 1887348--1887630 Score: 359
Period size: 60 Copynumber: 4.8 Consensus size: 56
1887338 AAATAAAAAT
1887348 AAAAAAATATATATTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATAT-T-TTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAAATTTC
1887408 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAAGTTTCC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAAAA-TTT-C
*
1887468 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAAATTTC
* ** *
1887526 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAAT--ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAAAAAATTTC
*
1887586 AAAAGAATATTTTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAA-AA-A-TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
1887631 GCACAAAAAC
Statistics
Matches: 204, Mismatches: 6, Indels: 26
0.86 0.03 0.11
Matches are distributed among these distances:
58 43 0.21
59 21 0.10
60 125 0.61
61 13 0.06
62 1 0.00
63 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (56 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATTTC
Found at i:1887484 original size:118 final size:117
Alignment explanation
Indices: 1887348--1887630 Score: 435
Period size: 120 Copynumber: 2.4 Consensus size: 117
1887338 AAATAAAAAT
1887348 AAAAAAATATATATTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
1 AAAAAAATAT-T-TTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
*
1887413 AAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAAGTTTCC
64 AATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAAAAAAAGTTT-C
*
1887468 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAA
**
1887533 TAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
66 T-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAAAAAGTTTC
*
1887586 AAAAGAATATTTTTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCT
1 AAAA-AA-A-TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCT
1887631 GCACAAAAAC
Statistics
Matches: 153, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
118 59 0.39
119 13 0.08
120 72 0.47
121 9 0.06
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (117 bp):
AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAA
TAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAAAAAGTTTC
Found at i:1891593 original size:16 final size:15
Alignment explanation
Indices: 1891568--1891610 Score: 70
Period size: 16 Copynumber: 2.9 Consensus size: 15
1891558 TGGATGAAAA
1891568 ATGAGAAAAAAAATG
1 ATGAGAAAAAAAATG
1891583 ATGATGAAAAAAAATG
1 ATGA-GAAAAAAAATG
1891599 ATGA-AAAAAAAA
1 ATGAGAAAAAAAA
1891611 GAAAGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 15 0.56
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (15 bp):
ATGAGAAAAAAAATG
Found at i:1891607 original size:13 final size:12
Alignment explanation
Indices: 1891564--1891637 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 12
1891554 ACAATGGATG
1891564 AAAAATGAGAAAA
1 AAAAATGAG-AAA
1891577 AAAATGATGATGAAA
1 AAAA--ATGA-GAAA
1891592 AAAAATGATGAAA
1 AAAAATGA-GAAA
*
1891605 AAAAAAGAAAGAATGA
1 AAAAATG--AGAA--A
1891621 AAAAATGAGAAA
1 AAAAATGAGAAA
1891633 AAAAA
1 AAAAA
1891638 GGATATTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
12 6 0.12
13 19 0.37
14 7 0.13
15 12 0.23
16 8 0.15
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (12 bp):
AAAAATGAGAAA
Found at i:1892976 original size:42 final size:42
Alignment explanation
Indices: 1892868--1893457 Score: 684
Period size: 42 Copynumber: 14.0 Consensus size: 42
1892858 GTCAAAGAGT
* * *
1892868 AATTTACTTT-CCAAAGTTGTGGTGTCTCTGTTTAGAAGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
1892909 AATTTACTTTTCCCAAAGTCTTGGTGCCTCTGTTTAGAGGAGA
1 AATTTAC-TTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1892952 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
1892994 AATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAAAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * *
1893035 AATTTACTTTTTCCAAAAGTCATGGTGCCTCTATTTAAAGGAGC
1 AATTTAC--TTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
** * * *
1893079 AATTTACTTTCTAAAAGTCATGGTGCTTCTATTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
1893121 AATTTACTTTTCAAAAGTCATGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
1893163 AATTTACTTTTCAAAAGTCATGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*** **
1893205 AATTTACTTTTTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAT
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
1893247 AATTTACTTTTCAAAAGTCGTGGTGTCTCTGTTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
1893289 AATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* *
1893331 AATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
1 AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * * *
1893372 AATTTATTCTTT-TCAAAGTTGTTGAGCCTCTGATTAGAGGAGC
1 AATTTA--CTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * * * * **
1893415 CATTTATGTTTCTCAAAGTCATTGAGCCTCTGCCTAGAGGAGC
1 AATTTA-CTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1893458 TTTGATCAAA
Statistics
Matches: 497, Mismatches: 44, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
41 79 0.16
42 286 0.58
43 98 0.20
44 34 0.07
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
AATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:1893223 original size:126 final size:125
Alignment explanation
Indices: 1892868--1893457 Score: 772
Period size: 126 Copynumber: 4.7 Consensus size: 125
1892858 GTCAAAGAGT
* * * * * *
1892868 AATTTACTTTCCAAAGTTGTGGTGTCTCTGTTTAGAAGAGCAATTTACTTTTCCCAAAGTCTTGG
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAAGTCATGG
* ** *
1892933 TGCCTCTGTTTAGAGGAGAAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
65 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
*
1892994 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAATTTACTTTTTCCAAAAGTCATG
1 AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTT-CAAAAGTCATG
* * * * * *
1893059 GTGCCTCTATTTAAAGGAGCAATTTACTTTCTAAAAGTCATGGTGCTTCTATTTAGAGGAGC
64 GTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
*
1893121 AATTTACTTTTCAAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCATGG
1 AATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCATGG
* *
1893186 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAT
65 TGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
* *
1893247 AATTTACTTTTCAAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCTC-AAAGTCGTG
1 AATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAAGTCATG
*
1893311 GTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
64 GTGCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
* * * * * *
1893372 AATTTATTCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA-TGTTTCTCAAAGTCA
1 AATTTA--CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT-TTTC-AAAAGTCA
* * **
1893436 TTGAGCCTCTGCCTAGAGGAGC
62 TGGTGCCTCTGTTTAGAGGAGC
1893458 TTTGATCAAA
Statistics
Matches: 415, Mismatches: 41, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
125 38 0.09
126 227 0.55
127 116 0.28
128 34 0.08
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (125 bp):
AATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCATGGT
GCCTCTGTTTAGAGGAGCAATTTACTTTCTAAAAGTCGTGGTGCCTCTGTTTAGAGGAAC
Found at i:1893671 original size:18 final size:18
Alignment explanation
Indices: 1893648--1893711 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
1893638 TAAGTCTATA
1893648 TATTTT-TTTTCTTCATTT
1 TATTTTATTTT-TTCATTT
*
1893666 TATTTTCTTTTTT-ATTT
1 TATTTTATTTTTTCATTT
*
1893683 T-TTTTA-TTTTACATTTT
1 TATTTTATTTTTTCA-TTT
1893700 TATTTTATTTTT
1 TATTTTATTTTT
1893712 ATTTTTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 4 0.10
16 5 0.13
17 9 0.23
18 13 0.33
19 8 0.21
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (18 bp):
TATTTTATTTTTTCATTT
Found at i:1893676 original size:5 final size:5
Alignment explanation
Indices: 1893675--1893733 Score: 50
Period size: 5 Copynumber: 11.2 Consensus size: 5
1893665 TTATTTTCTT
*
1893675 TTTTA TTTT- TTTTA TTTTACA TTTTTA TTTTA TTTTTA TTTT- TATTA
1 TTTTA TTTTA TTTTA TTTT--A -TTTTA TTTTA -TTTTA TTTTA TTTTA
1893722 TTATTA TTTTA T
1 TT-TTA TTTTA T
1893734 ATATGTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
4 7 0.16
5 22 0.49
6 11 0.24
7 1 0.02
8 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:1893678 original size:21 final size:21
Alignment explanation
Indices: 1893652--1893733 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
1893642 TCTATATATT
*
1893652 TTTTTTCTTCATTTTATTTTC
1 TTTTTTATTCATTTTATTTTC
**
1893673 TTTTTTATTTTTTTTATTTTAC
1 TTTTTTATTCATTTTATTTT-C
* *
1893695 ATTTTTATTTTATTTTTATTTT-
1 TTTTTTA-TTCA-TTTTATTTTC
*
1893717 TATTATTATT-ATTTTAT
1 T-TTTTTATTCATTTTAT
1893734 ATATGTATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
20 6 0.12
21 18 0.36
22 9 0.18
23 8 0.16
24 9 0.18
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTATTCATTTTATTTTC
Found at i:1893683 original size:6 final size:6
Alignment explanation
Indices: 1893663--1893726 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
1893653 TTTTTCTTCA
*
1893663 TTTTAT TTTCT-T TTTTA- -TTT-T TTTTAT TTTACAT TTTTA- TTTTAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT
*
1893708 TTTTAT TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT T
1893727 ATTTTATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
4 3 0.06
5 9 0.19
6 30 0.62
7 6 0.12
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:1893907 original size:20 final size:21
Alignment explanation
Indices: 1893864--1893912 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
1893854 ATTTATGTAA
*
1893864 TTATCTGTTATTTAATTTTAAT
1 TTATCTGTTAATT-ATTTTAAT
*
1893886 TTATCTGTTAATT-TTTTGAT
1 TTATCTGTTAATTATTTTAAT
1893906 TTATCTG
1 TTATCTG
1893913 ATTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
22 12 0.48
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.63
Consensus pattern (21 bp):
TTATCTGTTAATTATTTTAAT
Found at i:1893921 original size:20 final size:20
Alignment explanation
Indices: 1893873--1893921 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1893863 ATTATCTGTT
*
1893873 ATTTAATTTTAATTTATCTG
1 ATTTATTTTTAATTTATCTG
* *
1893893 -TTAATTTTTTGATTTATCTG
1 ATTTA-TTTTTAATTTATCTG
1893913 ATTTATTTT
1 ATTTATTTT
1893922 CGTTTGATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTAATTTATCTG
Found at i:1894253 original size:24 final size:23
Alignment explanation
Indices: 1894213--1894264 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
1894203 AATCGAAAAT
*
1894213 AATTTTTTTAGAGATTTTTGGCGAA
1 AATTTTTTTAGAAATTTTT-G-GAA
1894238 AATTTTTTT-GAAATTTTTGGAA
1 AATTTTTTTAGAAATTTTTGGAA
1894260 AATTT
1 AATTT
1894265 CCAGATTCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 1 0.04
24 8 0.31
25 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (23 bp):
AATTTTTTTAGAAATTTTTGGAA
Found at i:1894794 original size:4 final size:4
Alignment explanation
Indices: 1894787--1894887 Score: 57
Period size: 4 Copynumber: 24.0 Consensus size: 4
1894777 TTTTTTTTTA
* *
1894787 ATTT ATTTT ATTT ATTT ATTT A-TT -TTT ATTT ATTA AATT AGGTTT ATTT
1 ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A--TTT ATTT
* *
1894836 AATGTT CTTT ATCTTT ATTT -TTGT -TTT ATTT CTTT ATTT ATTT ATTTT
1 -AT-TT ATTT A--TTT ATTT ATT-T ATTT ATTT ATTT ATTT ATTT A-TTT
1894884 ATTT
1 ATTT
1894888 CTATTATTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
3 7 0.09
4 50 0.65
5 11 0.14
6 9 0.12
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:1894801 original size:9 final size:9
Alignment explanation
Indices: 1894782--1894913 Score: 71
Period size: 8 Copynumber: 14.9 Consensus size: 9
1894772 AGGTTTTTTT
1894782 TTTTAATTTA
1 TTTT-ATTTA
1894792 TTTTATTTA
1 TTTTATTTA
1894801 -TTTATTTA
1 TTTTATTTA
1894809 TTTTTATTTA
1 -TTTTATTTA
* *
1894819 -TTAAATTA
1 TTTTATTTA
*
1894827 GGTTTATTTAA
1 -TTTTATTT-A
* *
1894838 TGTTCTTTA
1 TTTTATTTA
1894847 TCTTTATTT-
1 T-TTTATTTA
*
1894856 TTGT-TTTA
1 TTTTATTTA
*
1894864 -TTTCTTTA
1 TTTTATTTA
1894872 -TTTATTTA
1 TTTTATTTA
*
1894880 TTTTATTTC
1 TTTTATTTA
* *
1894889 TATTATTTG
1 TTTTATTTA
1894898 TTTTA-TTA
1 TTTTATTTA
*
1894906 TTCTATTT
1 TTTTATTT
1894914 TCTTTTAAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 21
0.71 0.14 0.16
Matches are distributed among these distances:
7 5 0.05
8 33 0.35
9 28 0.30
10 27 0.29
11 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:1894814 original size:14 final size:13
Alignment explanation
Indices: 1894778--1894820 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
1894768 CTACAGGTTT
1894778 TTTTTTTTAATTTA
1 TTTTTTTT-ATTTA
*
1894792 TTTTATTTATTTA
1 TTTTTTTTATTTA
1894805 TTTATTTTTATTTA
1 TTT-TTTTTATTTA
1894819 TT
1 TT
1894821 AAATTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTATTTA
Found at i:1894971 original size:56 final size:55
Alignment explanation
Indices: 1894918--1895061 Score: 151
Period size: 55 Copynumber: 2.7 Consensus size: 55
1894908 CTATTTTCTT
*
1894918 TTAAATAAAA-AAAAAAAAAATATCTTTGGGGAAAAGTTGAAAGTATTAATTTTCC
1 TTAAATAAAATAAAAAAAAAATAT-TTTGAGGAAAAGTTGAAAGTATTAATTTTCC
*** * *
1894973 TTAAATAAAATTTCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAA--ATCC
1 TTAAATAAAATAAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATTAATTTTCC
*
1895026 TT-GA-AAAA-AAAAAAAAAAT-TTTTG-GGAAAAAGTTGA
1 TTAAATAAAATAAAAAAAAAATATTTTGAGG-AAAAGTTGA
1895062 TGGGAAAAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
48 2 0.03
49 14 0.18
50 8 0.10
51 4 0.05
52 1 0.01
53 5 0.06
55 33 0.43
56 10 0.13
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (55 bp):
TTAAATAAAATAAAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATTAATTTTCC
Found at i:1895070 original size:15 final size:14
Alignment explanation
Indices: 1895048--1895075 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1895038 AAAAAATTTT
1895048 TGGGAAAAAGTTGA
1 TGGGAAAAAGTTGA
1895062 TGGGAAAAAGTTGA
1 TGGGAAAAAGTTGA
1895076 AAAGTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (14 bp):
TGGGAAAAAGTTGA
Found at i:1896200 original size:22 final size:22
Alignment explanation
Indices: 1896181--1896254 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
1896171 AGTGATTACA
1896181 TTATCACTAATTTATTATTAAG
1 TTATCACTAATTTATTATTAAG
*
1896203 TTATCATTAATTTATTATTAAG
1 TTATCACTAATTTATTATTAAG
* * * * *
1896225 TTATCAATTATTAACTACTAAG
1 TTATCACTAATTTATTATTAAG
1896247 TTATCACT
1 TTATCACT
1896255 TTTTTTATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (22 bp):
TTATCACTAATTTATTATTAAG
Found at i:1896206 original size:11 final size:11
Alignment explanation
Indices: 1896192--1896228 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1896182 TATCACTAAT
1896192 TTATTATTAAG
1 TTATTATTAAG
* *
1896203 TTATCATTAAT
1 TTATTATTAAG
1896214 TTATTATTAAG
1 TTATTATTAAG
1896225 TTAT
1 TTAT
1896229 CAATTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:1896567 original size:22 final size:22
Alignment explanation
Indices: 1896542--1896602 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
1896532 GATTAATAAT
1896542 TAAGTTATCAATTATTTACTAC
1 TAAGTTATCAATTATTTACTAC
*
1896564 TAAGTTTTCAATTATTTACTAC
1 TAAGTTATCAATTATTTACTAC
* * *
1896586 GAAGTTATTAATAATTT
1 TAAGTTATCAATTATTT
1896603 GCGATTAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (22 bp):
TAAGTTATCAATTATTTACTAC
Found at i:1896631 original size:22 final size:21
Alignment explanation
Indices: 1896613--1896715 Score: 109
Period size: 22 Copynumber: 4.7 Consensus size: 21
1896603 GCGATTAAGC
1896613 TATGAATGATTTATTATTAAAT
1 TATG-ATGATTTATTATTAAAT
* *
1896635 TAGTGATGATTTACTACTAAAT
1 TA-TGATGATTTATTATTAAAT
1896657 TATTGATGATTTATTA-TAAAGT
1 TA-TGATGATTTATTATTAAA-T
* *
1896679 TATGATGATTTACTATTAATT
1 TATGATGATTTATTATTAAAT
*
1896700 TATCAATGATTTATTA
1 TAT-GATGATTTATTA
1896716 AAAAGTTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
21 20 0.29
22 47 0.68
23 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (21 bp):
TATGATGATTTATTATTAAAT
Found at i:1896692 original size:43 final size:43
Alignment explanation
Indices: 1896617--1896724 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
1896607 TTAAGCTATG
*
1896617 AATGATTTATTATTAAA-TTAGTGATGATTTACTACTAAATTATT
1 AATGATTTATTA-TAAAGTTA-TGATGATTTACTACTAAATTATC
* * *
1896661 GATGATTTATTATAAAGTTATGATGATTTACTATTAATTTATC
1 AATGATTTATTATAAAGTTATGATGATTTACTACTAAATTATC
*
1896704 AATGATTTATTAAAAAGTTAT
1 AATGATTTATTATAAAGTTAT
1896725 TAATGATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 43 0.75
44 14 0.25
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (43 bp):
AATGATTTATTATAAAGTTATGATGATTTACTACTAAATTATC
Found at i:1896724 original size:22 final size:21
Alignment explanation
Indices: 1896617--1896732 Score: 92
Period size: 22 Copynumber: 5.3 Consensus size: 21
1896607 TTAAGCTATG
1896617 AATGATTTATTATTAAA-TTAGT
1 AATGATTTATTA-TAAAGTTA-T
* *
1896639 GATGATTTACTACTAAA-TTATT
1 AATGATTTATTA-TAAAGTTA-T
*
1896661 GATGATTTATTATAAAGTTAT
1 AATGATTTATTATAAAGTTAT
* * * *
1896682 GATGATTTACTATTAATTTAT
1 AATGATTTATTATAAAGTTAT
*
1896703 CAATGATTTATTAAAAAGTTATT
1 -AATGATTTATTATAAAGTTA-T
1896726 AATGATT
1 AATGATT
1896733 AACTAATTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
21 23 0.29
22 54 0.69
23 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
AATGATTTATTATAAAGTTAT
Found at i:1896755 original size:52 final size:52
Alignment explanation
Indices: 1896686--1896789 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
1896676 AGTTATGATG
* * *
1896686 ATTTACTATTAATTTATCAATGATTTATTAA-AAAGTTATTAATGATTAACTA
1 ATTTACTACTAAATTATCAATGATTTA-TAACAAAGTTATTAATAATTAACTA
* * *
1896738 ATTTACTACTAAATTATCACTGATTTATAACTAAGTTATTAATAATTTACTA
1 ATTTACTACTAAATTATCAATGATTTATAACAAAGTTATTAATAATTAACTA
1896790 CTACGTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 3 0.07
52 42 0.93
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (52 bp):
ATTTACTACTAAATTATCAATGATTTATAACAAAGTTATTAATAATTAACTA
Found at i:1896836 original size:22 final size:22
Alignment explanation
Indices: 1896738--1896833 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
1896728 TGATTAACTA
*
1896738 ATTTACTACTAAATTATCACTG
1 ATTTACTACTAAATTATCAATG
* * *
1896760 ATTTA-TAACTAAGTTATTAATA
1 ATTTACT-ACTAAATTATCAATG
** *
1896782 ATTTACTACTACGTTATTAATG
1 ATTTACTACTAAATTATCAATG
*
1896804 ATTTACTATTAAATTATCAATG
1 ATTTACTACTAAATTATCAATG
1896826 ATTTACTA
1 ATTTACTA
1896834 TTATATTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTACTACTAAATTATCAATG
Found at i:1896875 original size:183 final size:184
Alignment explanation
Indices: 1896555--1897195 Score: 546
Period size: 183 Copynumber: 3.5 Consensus size: 184
1896545 GTTATCAATT
* * * * * * * *
1896555 ATTTACTACTAAGTTTTCAATTATTTACTACGAAGTTATTAATAATTTGCGATTAAGCTATGAAT
1 ATTTACTACTAAATTATCAATGATTTACTACTAAGTTATTAATAATTTACTACTAAGTTATGAAT
* * * * *
1896620 GATTTATTATTAAATTAGT-GATGATTTACTACTAAATTATTGATGATTTATTATAAAGTTATGA
66 GATTTATTATTAAATTA-TCAATGATTTACTATTAAATTATTGATGATTTACTATTAAGTTATAA
*
1896684 -TGATTTACTA-TTAATTTATCAATGATTTATTAAAAAGTTATTAATGATTAACTA
130 TTGATTTACTACTTAATTTATCAATGATTTATTAAAAA-TTATCAATGATTAACTA
* * *
1896738 ATTTACTACTAAATTATCACTGATTTA-TAACTAAGTTATTAATAATTTACTACTACGTTATTAA
1 ATTTACTACTAAATTATCAATGATTTACT-ACTAAGTTATTAATAATTTACTACTAAGTTATGAA
* * * * * *
1896802 TGATTTACTATTAAATTATCAATGATTTACTATTATATT-TTTATGTATTTAGTATTACG-TATC
65 TGATTTATTATTAAATTATCAATGATTTACTATTAAATTATTGATG-ATTTACTATTAAGTTATA
* * * * * * *
1896865 ATTAATTTACTACTTAATTT-TTAATTATTTGTTACAAAATTATCAAGTTATCAA-TG
129 ATTGATTTACTACTTAATTTATCAATGATTTATTA-AAAATTATCAA-TGATTAACTA
* * * * * * * * * *
1896921 ATTAACAATTAAGTTATCAATTATTTACTATTAAGTTATTAGTTATTTTCTACTAATTTATGAAT
1 ATTTACTACTAAATTATCAATGATTTACTACTAAGTTATTAATAATTTACTACTAAGTTATGAAT
* * * * * * *
1896986 GATTTGTGATTAAGTTATAAATGATTTACCATTAAATTATTGATAATTTACTACTAAGTTATTAA
66 GATTTATTATTAAATTATCAATGATTTACTATTAAATTATTGATGATTTACTATTAAGTTA-TAA
* * * *
1897051 TGATGTTTTA-TAAAGTTATAATTTACCAATGATTTACTAAAGAATTATCAATGATTAACTA
130 T--TGATTTACT--A-CT-TAATTTATCAATGATTTATTAAA-AATTATCAATGATTAACTA
* * * * * * *
1897112 ATTTATTACCAAATTATTACTGATTTA-TAACTAAGTTATTAATAATTTAATACTACGTTATTAA
1 ATTTACTACTAAATTATCAATGATTTACT-ACTAAGTTATTAATAATTTACTACTAAGTTATGAA
*
1897176 TGATTTATTATTAAGTTATC
65 TGATTTATTATTAAATTATC
1897196 TGTCATAACG
Statistics
Matches: 352, Mismatches: 85, Indels: 34
0.75 0.18 0.07
Matches are distributed among these distances:
182 11 0.03
183 212 0.60
184 23 0.07
185 3 0.01
186 1 0.00
187 5 0.01
188 1 0.00
189 1 0.00
190 14 0.04
191 81 0.23
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (184 bp):
ATTTACTACTAAATTATCAATGATTTACTACTAAGTTATTAATAATTTACTACTAAGTTATGAAT
GATTTATTATTAAATTATCAATGATTTACTATTAAATTATTGATGATTTACTATTAAGTTATAAT
TGATTTACTACTTAATTTATCAATGATTTATTAAAAATTATCAATGATTAACTA
Found at i:1896966 original size:22 final size:22
Alignment explanation
Indices: 1896909--1897054 Score: 114
Period size: 22 Copynumber: 6.6 Consensus size: 22
1896899 CAAAATTATC
* * *
1896909 AAGTTATCAATGATTAACAATT
1 AAGTTATTAATGATTTACTATT
* *
1896931 AAGTTATCAATTATTTACTATT
1 AAGTTATTAATGATTTACTATT
* * * *
1896953 AAGTTATTAGTTATTTTCTACT
1 AAGTTATTAATGATTTACTATT
* * *
1896975 AATTTATGAATGATTT-GTGATT
1 AAGTTATTAATGATTTACT-ATT
* *
1896997 AAGTTATAAATGATTTACCATT
1 AAGTTATTAATGATTTACTATT
* * * *
1897019 AAATTATTGATAATTTACTACT
1 AAGTTATTAATGATTTACTATT
1897041 AAGTTATTAATGAT
1 AAGTTATTAATGAT
1897055 GTTTTATAAA
Statistics
Matches: 96, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 1 0.01
22 95 0.99
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (22 bp):
AAGTTATTAATGATTTACTATT
Found at i:1897003 original size:66 final size:66
Alignment explanation
Indices: 1896928--1897071 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 66
1896918 ATGATTAACA
* * * * * * *
1896928 ATTAAGTTATCAATTATTTACTATTAAGTTATT-AGTTATTTTCTACTAATTTATGAATGATTTG
1 ATTAAGTTATAAATGATTTACCATTAAATTATTGA-TAATTTACTACTAAGTTATGAATGATTTG
1896992 TG
65 TG
*
1896994 ATTAAGTTATAAATGATTTACCATTAAATTATTGATAATTTACTACTAAGTTATTAATGATGTT-
1 ATTAAGTTATAAATGATTTACCATTAAATTATTGATAATTTACTACTAAGTTATGAATGAT-TTG
*
1897058 TT
65 TG
*
1897060 ATAAAGTTATAA
1 ATTAAGTTATAA
1897072 TTTACCAATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
66 63 0.95
67 3 0.05
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (66 bp):
ATTAAGTTATAAATGATTTACCATTAAATTATTGATAATTTACTACTAAGTTATGAATGATTTGT
G
Found at i:1897137 original size:22 final size:22
Alignment explanation
Indices: 1897112--1897194 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
1897102 TGATTAACTA
* * *
1897112 ATTTATTACCAAATTATTACTG
1 ATTTATTACTAAGTTATTAATG
* *
1897134 ATTTATAACTAAGTTATTAATA
1 ATTTATTACTAAGTTATTAATG
* *
1897156 ATTTAATACTACGTTATTAATG
1 ATTTATTACTAAGTTATTAATG
*
1897178 ATTTATTATTAAGTTAT
1 ATTTATTACTAAGTTAT
1897195 CTGTCATAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTATTACTAAGTTATTAATG
Found at i:1897139 original size:11 final size:11
Alignment explanation
Indices: 1897108--1897185 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
1897098 TCAATGATTA
1897108 ACTAATTTATT
1 ACTAATTTATT
* *
1897119 ACCAAATTATT
1 ACTAATTTATT
* *
1897130 ACTGATTTATA
1 ACTAATTTATT
*
1897141 ACTAAGTTATT
1 ACTAATTTATT
* *
1897152 AATAATTTAAT
1 ACTAATTTATT
**
1897163 ACTACGTTATT
1 ACTAATTTATT
* *
1897174 AATGATTTATT
1 ACTAATTTATT
1897185 A
1 A
1897186 TTAAGTTATC
Statistics
Matches: 47, Mismatches: 20, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (11 bp):
ACTAATTTATT
Found at i:1897783 original size:57 final size:57
Alignment explanation
Indices: 1897718--1897914 Score: 220
Period size: 57 Copynumber: 3.7 Consensus size: 57
1897708 TGTTTAAAGA
**
1897718 AAAATTGATACTTTCAACTTTTTTTCAAAAATACTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAGCTTATTTTCAAGG
*
1897775 AAAATTGATACTTTCAACTTTT--TC-----T-C----AAAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAGCTTATTTTCAAGG
* * ** **
1897820 AAAATTAATACTTTCAACTTTTCCTCAAAATTTTTTTTAGAAAAATTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAGCTTATTTTCAAGG
*
1897877 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTT
1897915 TTTGAAAAAC
Statistics
Matches: 119, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
45 39 0.33
47 2 0.02
49 1 0.01
50 1 0.01
52 1 0.01
55 2 0.02
57 73 0.61
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAGCTTATTTTCAAGG
Found at i:1897808 original size:45 final size:45
Alignment explanation
Indices: 1897758--1897849 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
1897748 ATACTTTTAG
* *
1897758 AAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAA
1 AAAGCTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAA
1897803 AAAGCTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAA
1 AAAGCTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAA
1897848 AA
1 AA
1897850 TTTTTTTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (45 bp):
AAAGCTTATTTTCAAGGAAAATTAATACTTTCAACTTTTCCTCAA
Found at i:1897835 original size:102 final size:102
Alignment explanation
Indices: 1897718--1897907 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
1897708 TGTTTAAAGA
* ** **
1897718 AAAATTGATACTTTCAACTTTTTTTCAAAAATACTTTTAGAAAGCTTATTTTCAAGGAAAATTGA
1 AAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAAATTATTTTCAAGGAAAATTGA
*
1897783 TACTTTCAACTTTTTCTCAAAAAGCTTATTTTCAAGG
66 TACTTTCAACTTTTCCTCAAAAAGCTTATTTTCAAGG
* **
1897820 AAAATTAATACTTTCAACTTTTCCTCAAAATTTTTTTTAGAAAAATTATTTTCAAGGAAAATTGA
1 AAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAAATTATTTTCAAGGAAAATTGA
1897885 TACTTTCAACTTTTCCTCAAAAA
66 TACTTTCAACTTTTCCTCAAAAA
1897908 TATTTTTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (102 bp):
AAAATTAATACTTTCAACTTTTCCTCAAAAATACTTTTAGAAAAATTATTTTCAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAAGCTTATTTTCAAGG
Found at i:1897942 original size:5 final size:5
Alignment explanation
Indices: 1897932--1897986 Score: 69
Period size: 5 Copynumber: 10.8 Consensus size: 5
1897922 AACTTCAAAG
1897932 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAAT AAAGA- AAAAT ATAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT A-AAAT
1897978 AAAAT AAAA
1 AAAAT AAAA
1897987 AGTATTAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 5 0.11
5 29 0.64
6 11 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1897952 original size:9 final size:9
Alignment explanation
Indices: 1897932--1897985 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
1897922 AACTTCAAAG
1897932 AAAATAAAAT
1 AAAAT-AAAT
1897942 AAAATAAAT
1 AAAATAAAT
*
1897951 AAAATAAAA
1 AAAATAAAT
*
1897960 ATAAAGAAA-
1 A-AAATAAAT
*
1897969 AATATAAAT
1 AAAATAAAT
1897978 AAAATAAA
1 AAAATAAA
1897986 AAGTATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 5 0.14
9 21 0.57
10 11 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:1897972 original size:16 final size:15
Alignment explanation
Indices: 1897932--1897986 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
1897922 AACTTCAAAG
1897932 AAAATAAAAT-AAAAT
1 AAAA-AAAATAAAAAT
*
1897947 AAATAAAATAAAAAT
1 AAAAAAAATAAAAAT
*
1897962 AAAGAAAAATATAAAT
1 AAA-AAAAATAAAAAT
1897978 AAAATAAAA
1 AAAA-AAAA
1897987 AGTATTAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 5 0.15
15 12 0.35
16 17 0.50
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:1897983 original size:27 final size:25
Alignment explanation
Indices: 1897932--1897987 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
1897922 AACTTCAAAG
*
1897932 AAAATAAAATAAAATAAATAAAATA
1 AAAATAAAAAAAAATAAATAAAATA
1897957 AAAATAAAGAAAAATATAAATAAAATA
1 AAAATAAA-AAAAA-ATAAATAAAATA
1897984 AAAA
1 AAAA
1897988 GTATTAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 8 0.29
26 4 0.14
27 16 0.57
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAATAAAAAAAAATAAATAAAATA
Found at i:1898049 original size:12 final size:10
Alignment explanation
Indices: 1897938--1898079 Score: 72
Period size: 9 Copynumber: 14.4 Consensus size: 10
1897928 AAAGAAAATA
1897938 AAATAA-AAT
1 AAATAATAAT
1897947 AAATAA-AAT
1 AAATAATAAT
1897956 AAA-AATAA-
1 AAATAATAAT
*
1897964 AGAAAAAT-AT
1 A-AATAATAAT
1897974 AAATAA-AAT
1 AAATAATAAT
*
1897983 AAA-AAGTATT
1 AAATAA-TAAT
* **
1897993 AAACAATTCT
1 AAATAATAAT
*
1898003 AATCTAATCAAT
1 AA-ATAAT-AAT
1898015 AAATAATAAT
1 AAATAATAAT
1898025 -AATAATAAT
1 AAATAATAAT
1898034 -AATAAATGAAT
1 AAAT-AAT-AAT
1898045 AAAT-A-AAT
1 AAATAATAAT
1898053 AAATAAATAAT
1 AAAT-AATAAT
1898064 AAATAGATAAAT
1 AAATA-AT-AAT
1898076 AAAT
1 AAAT
1898080 GAAAAGAAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 33
0.72 0.06 0.22
Matches are distributed among these distances:
8 12 0.11
9 38 0.36
10 22 0.21
11 21 0.20
12 13 0.12
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:1898049 original size:15 final size:14
Alignment explanation
Indices: 1898012--1898077 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 14
1898002 TAATCTAATC
1898012 AATAAATAAT-AAT
1 AATAAATAATAAAT
1898025 AAT-AATAAT-AAT
1 AATAAATAATAAAT
*
1898037 AAATGAATAAATAAAT
1 -AATAAAT-AATAAAT
1898053 AAATAAATAATAAAT
1 -AATAAATAATAAAT
1898068 AGATAAATAA
1 A-ATAAATAA
1898078 ATGAAAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
12 9 0.19
13 6 0.13
14 4 0.09
15 18 0.38
16 10 0.21
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAATAATAAAT
Found at i:1898051 original size:4 final size:4
Alignment explanation
Indices: 1898012--1898079 Score: 69
Period size: 4 Copynumber: 18.8 Consensus size: 4
1898002 TAATCTAATC
*
1898012 AATA AAT- AAT- AAT- AAT- AAT- AAT- AATA AATG AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
1898054 AATA AAT- AATA AATA GATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
1898080 GAAAAGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 21 0.36
4 37 0.64
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:1898952 original size:20 final size:20
Alignment explanation
Indices: 1898886--1898979 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
1898876 AAATCAAATC
*
1898886 AAATAAATAATGTTAATAGAT
1 AAATAAA-AATATTAATAGAT
* * * *
1898907 AATTAAAAGAAACTAATTAAAT
1 AAATAAAA-ATATTAA-TAGAT
1898929 AAATAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
* *
1898949 AAATAATAATAATAATAGAT
1 AAATAAAAATATTAATAGAT
*
1898969 AAATAATAATA
1 AAATAAAAATA
1898980 AATACATACA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 34 0.57
21 15 0.25
22 11 0.18
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:1898973 original size:34 final size:33
Alignment explanation
Indices: 1898935--1899058 Score: 114
Period size: 34 Copynumber: 3.8 Consensus size: 33
1898925 AAATAAATAA
*
1898935 AAATATTAATAGATAAATAATAATAATAATAGAT
1 AAATAATAATA-ATAAATAATAATAATAATAGAT
* * *
1898969 AAATAATAATAAATACATACAT-ATACTAACAGAT
1 AAATAATAAT-AATAAATA-ATAATAATAATAGAT
*
1899003 AAATAATAATAAT-AAT-A-AATATATATTA-AT
1 AAATAATAATAATAAATAATAATA-ATAATAGAT
*
1899033 AAATAGTAATAATAAATAAATAATAA
1 AAATAATAATAATAAAT-AATAATAA
1899059 ATACATAAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
30 18 0.25
31 6 0.08
32 2 0.03
33 5 0.07
34 39 0.53
35 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (33 bp):
AAATAATAATAATAAATAATAATAATAATAGAT
Found at i:1898980 original size:20 final size:20
Alignment explanation
Indices: 1898924--1899058 Score: 107
Period size: 20 Copynumber: 6.7 Consensus size: 20
1898914 AGAAACTAAT
* *
1898924 TAAATAAATAAAAATATTAA
1 TAAATAAATAATAATAATAA
*
1898944 TAGATAAATAATAATAATAA
1 TAAATAAATAATAATAATAA
*
1898964 TAGATAAATAATAAT-A-AA
1 TAAATAAATAATAATAATAA
* * * *
1898982 TACATACAT-ATACTAACAGA
1 TAAATAAATAATAATAATA-A
1899002 TAAAT-AATAATAATAATAAA
1 TAAATAAATAATAATAAT-AA
* *
1899022 TATATATTAATAAATAGTAATAA
1 TA-A-ATAAAT-AATAATAATAA
1899045 TAAATAAATAATAA
1 TAAATAAATAATAA
1899059 ATACATAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
17 4 0.04
18 10 0.11
19 4 0.04
20 50 0.54
21 7 0.08
22 3 0.03
23 7 0.08
24 8 0.09
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
TAAATAAATAATAATAATAA
Found at i:1899059 original size:54 final size:54
Alignment explanation
Indices: 1898924--1899066 Score: 132
Period size: 54 Copynumber: 2.6 Consensus size: 54
1898914 AGAAACTAAT
* * * *
1898924 TAAATAAATAAAAAT-ATTAATAGATAAATAATAATAATAATAGATAAATAATAA
1 TAAATAAATACATATAATAAATA-ATAAATAATAATAATAATAAATAAATAATAA
* * * * *
1898978 TAAATACATACATATACTAACA-GATAAATAATAATAATAATAAATATATATTAA
1 TAAATAAATACATATAATAA-ATAATAAATAATAATAATAATAAATAAATAATAA
1899032 TAAATAGTAATA-ATA-AATAAATAATAAATACATAA
1 TAAATA--AATACATATAATAAATAATAAATA-ATAA
1899067 GATATAAAAG
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
53 1 0.01
54 57 0.80
55 9 0.13
56 4 0.06
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (54 bp):
TAAATAAATACATATAATAAATAATAAATAATAATAATAATAAATAAATAATAA
Found at i:1899099 original size:7 final size:6
Alignment explanation
Indices: 1899040--1899130 Score: 62
Period size: 7 Copynumber: 14.2 Consensus size: 6
1899030 AATAAATAGT
* *
1899040 AATAATA AATAAA TAATAAA TACATAAGA TATAAA AGA-AAA AA-AGA
1 AATAA-A AATAAA -AATAAA -A-ATAA-A AATAAA A-ATAAA AATAAA
1899086 AA-AAA AATATAA AATAAA AATAAA AATATAA AATACAA AATAAA A
1 AATAAA AATA-AA AATAAA AATAAA AATA-AA AATA-AA AATAAA A
1899131 TGGGCCTACC
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
5 9 0.12
6 22 0.31
7 36 0.50
8 4 0.06
9 1 0.01
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:1899104 original size:12 final size:12
Alignment explanation
Indices: 1899040--1899131 Score: 51
Period size: 13 Copynumber: 7.2 Consensus size: 12
1899030 AATAAATAGT
*
1899040 AATAATAAATAAA
1 AATAAAAAAT-AA
*
1899053 TAATAAATACATAA
1 -AATAAA-AAATAA
* * *
1899067 GATATAAAAGAA
1 AATAAAAAATAA
*
1899079 AA-AAAGAAAAAA
1 AATAAA-AAATAA
*
1899091 AATATAAAATAAA
1 AATAAAAAAT-AA
1899104 AATAAAAATATAA
1 AATAAAAA-ATAA
*
1899117 AATACAAAATAA
1 AATAAAAAATAA
1899129 AAT
1 AAT
1899132 GGGCCTACCC
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
11 2 0.03
12 22 0.37
13 24 0.40
14 9 0.15
15 3 0.05
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:1899110 original size:19 final size:20
Alignment explanation
Indices: 1899088--1899130 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
1899078 AAAAAAGAAA
1899088 AAAAATATAAAATA-AAAAT
1 AAAAATATAAAATACAAAAT
1899107 AAAAATATAAAATACAAAAT
1 AAAAATATAAAATACAAAAT
1899127 AAAA
1 AAAA
1899131 TGGGCCTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATATAAAATACAAAAT
Found at i:1899405 original size:42 final size:42
Alignment explanation
Indices: 1899310--1899698 Score: 481
Period size: 42 Copynumber: 9.4 Consensus size: 42
1899300 TTGATCAAAA
* * *
1899310 CTCCTCTAAGCAAAGGCTCAACGACTTTGAAAAACATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG--AAA-ATAAATAAAG
* * * * *
1899355 CTCTTCTAATTAAAAGCTTAACGACTTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* * *
1899397 CTCCTCTAATCAAAGACTCAACAACTTTGAAAATAAAT---G
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
1899436 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
1899476 CTCATCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
*
1899518 CTCCTCTAATCAGAGGCTCAACGACTTTAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* * *
1899560 CTCCTTTAATCAGAGGTTCAACGACTTTAAAAATAAAT--AG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
*
1899600 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
1899642 CTCCTTTAATCAGAGGCTCAACGACTTTGAAAATAAAT--TG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
*
1899682 CTCCTCTAATCAAAGGC
1 CTCCTCTAATCAGAGGC
1899699 ATCACAACTT
Statistics
Matches: 309, Mismatches: 30, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
39 37 0.12
40 90 0.29
42 155 0.50
43 3 0.01
45 24 0.08
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.25
Consensus pattern (42 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
Found at i:1899551 original size:82 final size:81
Alignment explanation
Indices: 1899310--1899708 Score: 471
Period size: 82 Copynumber: 4.8 Consensus size: 81
1899300 TTGATCAAAA
* * * * * * * *
1899310 CTCCTCTAAGCAAAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCTTCTAATTAAAAGCTTA
1 CTCCTCTAATCAGAGGCTCAACGACTTTG--AAA-AT-AA-ATAGCTCCTCTAATCAGAGGCTCA
*
1899375 ACGACTTTGAAAATAAATAAAG
61 ACAACTTTGAAAATAAAT-AAG
* * *
1899397 CTCCTCTAATCAAAGACTCAACAACTTTGAAAATAAAT-GCTCCTCTAATCAGAGGCTCAACAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAGCTCCTCTAATCAGAGGCTCAACAAC
*
1899461 TTTGAAAATAAAT-GG
66 TTTGAAAATAAATAAG
* * *
1899476 CTCATCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT--AGCTCCTCTAATCAGAGGCTCAACA
*
1899541 ACTTTAAAAATAAATAAAG
64 ACTTTGAAAATAAAT-AAG
* * *
1899560 CTCCTTTAATCAGAGGTTCAACGACTTTAAAAATAAATAGCTCCTCTAATCAGAGGCTCAACAAC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAGCTCCTCTAATCAGAGGCTCAACAAC
1899625 TTTGAAAATAAATAAAG
66 TTTGAAAATAAAT-AAG
* * *
1899642 CTCCTTTAATCAGAGGCTCAACGACTTTGAAAATAAATTGCTCCTCTAATCAAAGGCATC-ACAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAGCTCCTCTAATCAGAGGC-TCAACAA
1899706 CTT
65 CTT
1899709 AAAAAAAAGG
Statistics
Matches: 278, Mismatches: 28, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
79 36 0.13
81 33 0.12
82 140 0.50
83 4 0.01
84 36 0.13
85 3 0.01
87 26 0.09
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (81 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAGCTCCTCTAATCAGAGGCTCAACAAC
TTTGAAAATAAATAAG
Found at i:1899716 original size:124 final size:122
Alignment explanation
Indices: 1899310--1899714 Score: 508
Period size: 124 Copynumber: 3.3 Consensus size: 122
1899300 TTGATCAAAA
* * * * * * * * *
1899310 CTCCTCTAAGCAAAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCTTCTAATTAAAAGCTTA
1 CTCCTCTAATCAGAGGCTCAACAACTTT--AAAA-AT-AA-ATAGCTCATCTAATCAGAGGCTCA
* * * *
1899375 ACGACTTTGAAAATAAATAAAGCTCCTCTAATCAAAGACTCAACAACTTTGAAAATAAA-TG
61 ACAACTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATTG
* *
1899436 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATGGCTCATCTAATCAGAGGCTCAACAAC
1 CTCCTCTAATCAGAGGCTCAACAACTTTAAAAATAAATAGCTCATCTAATCAGAGGCTCAACAAC
* *
1899501 TTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTAAAAATAAATAAAG
66 TTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT--TG
* * * *
1899560 CTCCTTTAATCAGAGGTTCAACGACTTTAAAAATAAATAGCTCCTCTAATCAGAGGCTCAACAAC
1 CTCCTCTAATCAGAGGCTCAACAACTTTAAAAATAAATAGCTCATCTAATCAGAGGCTCAACAAC
*
1899625 TTTGAAAATAAATAAAGCTCCTTTAATCAGAGGCTCAACGACTTTGAAAATAAATTG
66 TTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATTG
* *
1899682 CTCCTCTAATCAAAGGCATC-ACAACTTAAAAAA
1 CTCCTCTAATCAGAGGC-TCAACAACTTTAAAAA
1899715 AAGGCTCCTT
Statistics
Matches: 244, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
121 71 0.29
122 28 0.11
123 4 0.02
124 116 0.48
126 25 0.10
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (122 bp):
CTCCTCTAATCAGAGGCTCAACAACTTTAAAAATAAATAGCTCATCTAATCAGAGGCTCAACAAC
TTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATTG
Found at i:1900747 original size:7 final size:7
Alignment explanation
Indices: 1900735--1900773 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
1900725 ATTCACTTTT
1900735 TTTTTCA
1 TTTTTCA
*
1900742 TTTTTCC
1 TTTTTCA
1900749 TTTTTCA
1 TTTTTCA
*
1900756 -TTTTCT
1 TTTTTCA
1900762 TTTTTCA
1 TTTTTCA
1900769 TTTTT
1 TTTTT
1900774 TTCAAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:1900752 original size:14 final size:14
Alignment explanation
Indices: 1900735--1900773 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
1900725 ATTCACTTTT
1900735 TTTTTCATTTTTCC
1 TTTTTCATTTTTCC
*
1900749 TTTTTCA-TTTTCT
1 TTTTTCATTTTTCC
1900762 TTTTTCATTTTT
1 TTTTTCATTTTT
1900774 TTCAAGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCATTTTTCC
Found at i:1900765 original size:20 final size:20
Alignment explanation
Indices: 1900736--1900773 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1900726 TTCACTTTTT
*
1900736 TTTTCATTTTTCCTTTTTCA
1 TTTTCATTTTTCATTTTTCA
*
1900756 TTTTCTTTTTTCATTTTT
1 TTTTCATTTTTCATTTTT
1900774 TTCAAGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCATTTTTCATTTTTCA
Found at i:1911384 original size:30 final size:30
Alignment explanation
Indices: 1911349--1911439 Score: 75
Period size: 30 Copynumber: 3.0 Consensus size: 30
1911339 AGAAAGCTTA
1911349 TTTTCAAGGAAAATTGATACTTTTAACTTT
1 TTTTCAAGGAAAATTGATACTTTTAACTTT
* *
1911379 TTTTCAA--AAATATT--T-TTTTTGAAAAACTTA
1 TTTTCAAGGAAA-ATTGATACTTTT----AACTTT
*
1911409 TTTTCAAGGAAAATTGATACTTTCAACTTT
1 TTTTCAAGGAAAATTGATACTTTTAACTTT
1911439 T
1 T
1911440 CCTCAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 20
0.65 0.07 0.28
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 3 0.07
29 3 0.07
30 25 0.54
31 3 0.07
32 3 0.07
33 1 0.02
34 3 0.07
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (30 bp):
TTTTCAAGGAAAATTGATACTTTTAACTTT
Found at i:1911485 original size:59 final size:59
Alignment explanation
Indices: 1911240--1911578 Score: 449
Period size: 57 Copynumber: 5.8 Consensus size: 59
1911230 GCTTTTGTTA
* * * *
1911240 CAAGAAAAATTTATACTTTTAACTTTT--TCCAAAATA-TTTTTTAGAAA-CTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* * *
1911295 TAAGAAAAATTGATACTTTCAAGTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* ** * *
1911353 CAAGGAAAATTGATACTTTTAACTTTTTTTCAAAAATATTTTTTTTGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAG-AAAGCTTATTTT
*
1911413 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* *
1911472 CAAGGAAACTTGATACTTTCAACTTTTCCTC-AAAAT-TTTTTTTAGAAATCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
* * * *
1911529 CAAAGAAAATTGATACTTTCAACTTTTCCTGAAAAAAATTTTTTTTGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAA
1911579 AACTTTAAAG
Statistics
Matches: 252, Mismatches: 25, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.09
57 66 0.26
58 49 0.19
59 59 0.23
60 55 0.22
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAGCTTATTTT
Found at i:1911543 original size:176 final size:173
Alignment explanation
Indices: 1911240--1911583 Score: 492
Period size: 176 Copynumber: 2.0 Consensus size: 173
1911230 GCTTTTGTTA
* * * *
1911240 CAAGAAAAATTTATACTTTTAACTTTTTCCAAAATATTTTTTAGAAACTTATTTTTAAGAAAAAT
1 CAAGAAAAATTGATACTTTCAACTTTTTCAAAAATATTTTTTAGAAACTTATTTTCAAGAAAAAT
* *
1911305 TGATACTTTCAAGTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGGAAAATTGATACT
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAAGAAAATTGATACT
* ** *
1911370 TTTAACTTTTTTTCAAAAATATTTTTTTTGAAAAACTTATTTT
131 TTCAACTTTTCCTCAAAAAAATTTTTTTTGAAAAACTTATTTT
* * *
1911413 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTTCAAGGA
1 CAAGAAAAATTGATACTTTCAACTTTT--TCAAAAATA-TTTTTTAGAAA-CTTATTTTCAAGAA
* * *
1911478 AACTTGATACTTTCAACTTTTCCTC-AAAATTTTTTTTAGAAATCTTATTTTCAAAGAAAATTGA
62 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAAGAAAATTGA
*
1911542 TACTTTCAACTTTTCCTGAAAAAAATTTTTTTTGAAAAACTT
127 TACTTTCAACTTTTCCTCAAAAAAATTTTTTTTGAAAAACTT
1911584 TAAAGAAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
173 24 0.16
175 8 0.05
176 83 0.55
177 35 0.23
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (173 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCAAAAATATTTTTTAGAAACTTATTTTCAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAAGAAAATTGATACT
TTCAACTTTTCCTCAAAAAAATTTTTTTTGAAAAACTTATTTT
Found at i:1911564 original size:116 final size:115
Alignment explanation
Indices: 1911240--1911578 Score: 477
Period size: 116 Copynumber: 2.9 Consensus size: 115
1911230 GCTTTTGTTA
* * * *
1911240 CAAGAAAAATTTATACTTTTAACTTTTTC-CAAAATATTTTTTAGAAACTTATTTT-TAAGAAAA
1 CAAGGAAAATTGATACTTTTAACTTTTTCTCAAAATTTTTTTTAGAAACTTATTTTCAAAG-AAA
* *
1911303 ATTGATACTTTCAAGTTTTCCTCAAAAATA-TTTTTTAGAAAGCTTATTTT
65 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTT
* * *
1911353 CAAGGAAAATTGATACTTTTAACTTTTTTTCAAAAATATTTTTTTTGAAAAACTTATTTTCAAGG
1 CAAGGAAAATTGATACTTTTAACTTTTTCTC--AAA-ATTTTTTTT-AGAAACTTATTTTCAAAG
1911418 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTT
62 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTT
* * *
1911472 CAAGGAAACTTGATACTTTCAACTTTTCCTCAAAATTTTTTTTAGAAATCTTATTTTCAAAGAAA
1 CAAGGAAAATTGATACTTTTAACTTTTTCTCAAAATTTTTTTTAGAAA-CTTATTTTCAAAGAAA
* *
1911537 ATTGATACTTTCAACTTTTCCTGAAAAAAATTTTTTTTGAAA
65 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA
1911579 AACTTTAAAG
Statistics
Matches: 201, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
113 26 0.13
114 1 0.00
115 4 0.02
116 67 0.33
117 11 0.05
118 44 0.22
119 48 0.24
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (115 bp):
CAAGGAAAATTGATACTTTTAACTTTTTCTCAAAATTTTTTTTAGAAACTTATTTTCAAAGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAGCTTATTTT
Found at i:1911599 original size:5 final size:5
Alignment explanation
Indices: 1911589--1911650 Score: 65
Period size: 5 Copynumber: 11.8 Consensus size: 5
1911579 AACTTTAAAG
1911589 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAATT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA-T -AAAAT -AAAAT AAA-AT
1911637 AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAA
1911651 AGTATTAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 5 0.10
5 29 0.58
6 11 0.22
7 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1912011 original size:22 final size:22
Alignment explanation
Indices: 1911972--1912016 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1911962 TTTTTCAGAA
* *
1911972 TTCCCTTCTACTCTTCTCTCTC
1 TTCCCTTCTACTCCTCTCCCTC
**
1911994 TTCCCTTCTTTTCCTCTCCCTC
1 TTCCCTTCTACTCCTCTCCCTC
1912016 T
1 T
1912017 CTCTAAATAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (22 bp):
TTCCCTTCTACTCCTCTCCCTC
Found at i:1912565 original size:4 final size:4
Alignment explanation
Indices: 1912549--1912724 Score: 90
Period size: 4 Copynumber: 45.5 Consensus size: 4
1912539 AATTAAAAGA
* * *
1912549 AAAT AATT AAAT AAAT AAA- AATAT TAAT AGAT AAAT -AAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
1912594 -AAT AGAT AAAT -AAT -AAT ATAT AAAT AGAT AAAT -AAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
1912637 ACAT ATAT ATACT -AAC AGAT AAAT -AAT AAAAT AAAT AAAT AAAT ATTAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A--AAT
*
1912687 AAAT AGTAAT -AAT AAAT AAAT AAAT -AAT AAAT ACAT AA
1 AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1912725 GATACAAAGA
Statistics
Matches: 134, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
3 36 0.27
4 86 0.64
5 5 0.04
6 7 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:1912576 original size:42 final size:40
Alignment explanation
Indices: 1912513--1912724 Score: 132
Period size: 42 Copynumber: 5.2 Consensus size: 40
1912503 AAAGAAAATC
* *
1912513 AAATCAAATAAAAAATGTTAATAGATAATTAAAAGAAAATAATT
1 AAAT-AAAT-AAAAATATTAATAGATAAATAAAA-AAAATAA-T
* *
1912557 AAATAAATAAAAATATTAATAGATAAATAATAATAATAAT
1 AAATAAATAAAAATATTAATAGATAAATAAAAAAAATAAT
* * * * *
1912597 AGATAAATAATAATA-T-ATAAATAGAT--AAATAATAAT
1 AAATAAATAAAAATATTAATAGATAAATAAAAAAAATAAT
* * * * *
1912633 AAATACATATATATACTAACAGATAAATAATAAAATAAATAAAT
1 AAATAAATAAAAATATTAATAGATAAAT-A-AAAA-AAAT-AAT
* * *
1912677 AAAT-ATTAATAAATAGTAATA-ATAAAT-AAATAAATAAT
1 AAATAAATAA-AAATATTAATAGATAAATAAAAAAAATAAT
*
1912715 AAATACATAA
1 AAATAAATAA
1912725 GATACAAAGA
Statistics
Matches: 131, Mismatches: 27, Indels: 25
0.72 0.15 0.14
Matches are distributed among these distances:
36 19 0.15
37 1 0.01
38 22 0.17
39 8 0.06
40 17 0.13
41 6 0.05
42 24 0.18
43 15 0.11
44 19 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (40 bp):
AAATAAATAAAAATATTAATAGATAAATAAAAAAAATAAT
Found at i:1912590 original size:14 final size:13
Alignment explanation
Indices: 1912549--1912724 Score: 101
Period size: 14 Copynumber: 12.7 Consensus size: 13
1912539 AATTAAAAGA
*
1912549 AAATAATTA-AAT
1 AAATAATAATAAT
*
1912561 AAATAAAAAT-AT
1 AAATAATAATAAT
*
1912573 TAATAGATAAATAAT
1 AAATA-AT-AATAAT
1912588 -AATAATAATAGAT
1 AAATAATAATA-AT
1912601 AAATAATAATATAT
1 AAATAATAATA-AT
1912615 AAATAGATAAATAAT
1 AAATA-AT-AATAAT
1912630 -AATAAATACAT-AT
1 AAAT-AATA-ATAAT
* * *
1912643 ATATACTAACAGAT
1 AAATAATAATA-AT
1912657 AAATAATAAAATAAAT
1 AAATAAT--AAT-AAT
*
1912673 AAATAAATATTAAT
1 AAAT-AATAATAAT
*
1912687 AAATAGTAATAAT
1 AAATAATAATAAT
1912700 AAATAAATAAATAAT
1 AAAT-AAT-AATAAT
1912715 AAATACATAA
1 AAATA-ATAA
1912725 GATACAAAGA
Statistics
Matches: 129, Mismatches: 15, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
12 18 0.14
13 22 0.17
14 52 0.40
15 21 0.16
16 12 0.09
17 4 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:1912704 original size:31 final size:30
Alignment explanation
Indices: 1912655--1912712 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
1912645 ATACTAACAG
1912655 ATAAATAATAAAATAAATAAATAAATATTA
1 ATAAATAATAAAATAAATAAATAAATATTA
*
1912685 ATAAATAGTAATAATAAATAAATAAATA
1 ATAAATAATAA-AATAAATAAATAAATA
1912713 ATAAATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (30 bp):
ATAAATAATAAAATAAATAAATAAATATTA
Found at i:1912757 original size:28 final size:25
Alignment explanation
Indices: 1912721--1912780 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 25
1912711 TAATAAATAC
*
1912721 ATAAGATACAAAGAAAAAAGAAAAAAA
1 ATAAAATACAAA-AAAAAA-AAAAAAA
* *
1912748 TATAAAATACAAAATAAAAAATAAAA
1 -ATAAAATACAAAAAAAAAAAAAAAA
1912774 ATAAAAT
1 ATAAAAT
1912781 GGGTCTACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 5 0.17
28 11 0.38
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (25 bp):
ATAAAATACAAAAAAAAAAAAAAAA
Found at i:1912763 original size:14 final size:13
Alignment explanation
Indices: 1912694--1912779 Score: 57
Period size: 14 Copynumber: 6.0 Consensus size: 13
1912684 AATAAATAGT
1912694 AATAATAAATAAATA
1 AATAA-AAATAAA-A
1912709 AATAATAAATACATAA
1 AATAA-AAATA-A-AA
*
1912725 GATACAAAGA-AAAA
1 AATA-AAA-ATAAAA
* *
1912739 AGAAAAAAATATAA
1 A-ATAAAAATAAAA
1912753 AATACAAAATAAAA
1 AATA-AAAATAAAA
1912767 AATAAAAATAAAA
1 AATAAAAATAAAA
1912780 TGGGTCTACC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
13 12 0.21
14 21 0.36
15 14 0.24
16 8 0.14
17 3 0.05
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:1912982 original size:22 final size:22
Alignment explanation
Indices: 1912848--1913275 Score: 184
Period size: 22 Copynumber: 19.9 Consensus size: 22
1912838 TACATTATCA
*
1912848 ATTTACTACTAAATTATCAATG
1 ATTTACTATTAAATTATCAATG
* *
1912870 A-TTACTATTATAGTT-T-TATG
1 ATTTACTATTA-AATTATCAATG
* ** * *
1912890 TATTTAGTATTATGTTATCATTA
1 -ATTTACTATTAAATTATCAATG
* * *
1912913 ATTTACTACTT-AATTTTTAATT
1 ATTTACTA-TTAAATTATCAATG
* * ***
1912935 ATTTATTATAAAATTATCACCA
1 ATTTACTATTAAATTATCAATG
*
1912957 ATTTACCATTAAATTATCAATG
1 ATTTACTATTAAATTATCAATG
** * *
1912979 ATTTACTACCAAATTATTATTG
1 ATTTACTATTAAATTATCAATG
* * *
1913001 A-TTAATTTTAAATTATAAATG
1 ATTTACTATTAAATTATCAATG
* *
1913022 ATTTACTATTAAGTTATCACT-
1 ATTTACTATTAAATTATCAATG
* * *
1913043 AATTACCTATTATATTATTAATG
1 ATTTA-CTATTAAATTATCAATG
*
1913066 ATTTACTATTAAATTAT-AGT-
1 ATTTACTATTAAATTATCAATG
* *
1913086 ATTTACTTTTAAATTTTCAATG
1 ATTTACTATTAAATTATCAATG
* * * *
1913108 GTTAACTACTAAATTATCAATT
1 ATTTACTATTAAATTATCAATG
* *
1913130 ATTTACTTTTAATTTAT-AATTG
1 ATTTACTATTAAATTATCAA-TG
* * **
1913152 ATTTACTACTAATTTATTTATG
1 ATTTACTATTAAATTATCAATG
* *
1913174 ATTTACTACT--A-TA--AATT
1 ATTTACTATTAAATTATCAATG
* * * *
1913191 AATTACTATTAAACTGA-AATTG
1 ATTTACTATTAAA-TTATCAATG
* *
1913213 ATTTACTATTAAGTTATCATTG
1 ATTTACTATTAAATTATCAATG
* * * * *
1913235 ATTTATTACTAACTTGTCAATA
1 ATTTACTATTAAATTATCAATG
* *
1913257 ATTAACTACTAAATTATCA
1 ATTTACTATTAAATTATCA
1913276 TTTATTTTTT
Statistics
Matches: 294, Mismatches: 92, Indels: 40
0.69 0.22 0.09
Matches are distributed among these distances:
17 10 0.03
19 3 0.01
20 18 0.06
21 42 0.14
22 213 0.72
23 8 0.03
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAATTATCAATG
Found at i:1913124 original size:64 final size:65
Alignment explanation
Indices: 1912841--1913184 Score: 209
Period size: 66 Copynumber: 5.3 Consensus size: 65
1912831 AAGTGTCTAC
* * * * *
1912841 ATTATCAAT--TT-ACTACTAAATTATCAATGA-TTACTATTATAGTT-TTATGTATTTAGTATT
1 ATTATCAATGATTAACTACTAAATTATTAATGATTTACTTTTA-AATTATAATG-ATTTACTATT
*
1912901 AT
64 AA
* * * * * * * * *** *
1912903 GTTATCATTAATTTACTACTTAATTTTTAATTATTTA-TTATAAAATTATCACCAATTTACCATT
1 ATTATCAATGATTAACTACTAAATTATTAATGATTTACTT-TTAAATTAT-AATGATTTACTATT
1912967 AA
64 AA
* * * *
1912969 ATTATCAATGATTTACTACCAAATTATTATTGA-TTAATTTTAAATTATAAATGATTTACTATTA
1 ATTATCAATGATTAACTACTAAATTATTAATGATTTACTTTTAAATTAT-AATGATTTACTATTA
1913033 A
65 A
* * * * * * * * *
1913034 GTTATCACTAATTACCTATTATATTATTAATGATTTACTATTAAATTATAGT-ATTTACTTTTAA
1 ATTATCAATGATTAACTACTAAATTATTAATGATTTACTTTTAAATTATAATGATTTACTATTAA
* * * * * *
1913098 ATTTTCAATGGTTAACTACTAAATTATCAATTATTTACTTTTAATTTATAATTGATTTACTACTA
1 ATTATCAATGATTAACTACTAAATTATTAATGATTTACTTTTAAATTATAA-TGATTTACTATTA
1913163 A
65 A
* ** *
1913164 TTTATTTATGATTTACTACTA
1 ATTATCAATGATTAACTACTA
1913185 TAAATTAATT
Statistics
Matches: 207, Mismatches: 64, Indels: 18
0.72 0.22 0.06
Matches are distributed among these distances:
62 7 0.03
64 51 0.25
65 69 0.33
66 80 0.39
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (65 bp):
ATTATCAATGATTAACTACTAAATTATTAATGATTTACTTTTAAATTATAATGATTTACTATTAA
Found at i:1913339 original size:66 final size:66
Alignment explanation
Indices: 1913208--1913357 Score: 160
Period size: 66 Copynumber: 2.3 Consensus size: 66
1913198 ATTAAACTGA
* * *
1913208 AATTGATTTACTATTAAGTTATCATTGATTTATTACTAACTTGTCAATAATTAACTACTAAATTA
1 AATTAATTTACTATTAAGTTATCATTGATTTAGTACTAACTTGTCAATAATTAACAACTAAATTA
1913273 T
66 T
* * ** * * * * *
1913274 CATTTATTTTTTATTAAGTTATCCTTGATTTAGTACTATA-TTGT-TATGCATTTACAACTATAT
1 AATTAATTTACTATTAAGTTATCATTGATTTAGTACTA-ACTTGTCAAT-AATTAACAACTAAAT
1913337 TAT
64 TAT
1913340 AATTAATTTACTATTAAG
1 AATTAATTTACTATTAAG
1913358 GTATTATGCA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
65 2 0.03
66 64 0.96
67 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (66 bp):
AATTAATTTACTATTAAGTTATCATTGATTTAGTACTAACTTGTCAATAATTAACAACTAAATTA
T
Found at i:1913440 original size:22 final size:22
Alignment explanation
Indices: 1913415--1913472 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1913405 TCAATTATTG
*
1913415 ACTACTAAATTATCATTAATCT
1 ACTACTAAGTTATCATTAATCT
* *
1913437 ACTATTAAGTTATCATTAATTT
1 ACTACTAAGTTATCATTAATCT
*
1913459 ACTGCTAAGTTATC
1 ACTACTAAGTTATC
1913473 GATAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (22 bp):
ACTACTAAGTTATCATTAATCT
Found at i:1913449 original size:44 final size:43
Alignment explanation
Indices: 1913401--1913492 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
1913391 TTACTAAAAG
1913401 GTTATCAATT-ATTGACTACTAAATTATC-ATTAATCTACTATTAA
1 GTTATC-ATTAATTGACTACTAAATTATCGA-TAAT-TACTATTAA
* * * *
1913445 GTTATCATTAATTTACTGCTAAGTTATCGATAATTATTATTAA
1 GTTATCATTAATTGACTACTAAATTATCGATAATTACTATTAA
1913488 GTTAT
1 GTTAT
1913493 ATTTAATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 16 0.38
44 25 0.60
45 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.46
Consensus pattern (43 bp):
GTTATCATTAATTGACTACTAAATTATCGATAATTACTATTAA
Found at i:1914685 original size:16 final size:16
Alignment explanation
Indices: 1914664--1914695 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1914654 TGAATTAATC
*
1914664 AATTCAAACTTCAAAT
1 AATTCAAAATTCAAAT
1914680 AATTCAAAATTCAAAT
1 AATTCAAAATTCAAAT
1914696 TGGGTATAAA
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:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTCAAAATTCAAAT
Found at i:1916863 original size:17 final size:17
Alignment explanation
Indices: 1916831--1916862 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1916821 ACACTTTTTT
1916831 AGTTTACTAATAAAAAG
1 AGTTTACTAATAAAAAG
1916848 AGTTTA-TAATAAAAA
1 AGTTTACTAATAAAAA
1916863 AATACATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
AGTTTACTAATAAAAAG
Found at i:1923349 original size:16 final size:17
Alignment explanation
Indices: 1923328--1923363 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1923318 AGTATACCTC
*
1923328 AAATAAT-TATTAATAA
1 AAATAATATAATAATAA
1923344 AAATAATATAATAATAA
1 AAATAATATAATAATAA
1923361 AAA
1 AAA
1923364 CCCCTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATAATATAATAATAA
Found at i:1925847 original size:22 final size:22
Alignment explanation
Indices: 1925822--1925871 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1925812 AAAAAGTAGT
*
1925822 TTTGTAAAAAAATTGACATTAA
1 TTTGCAAAAAAATTGACATTAA
*
1925844 TTTGCAAAAAAATTGATATTAA
1 TTTGCAAAAAAATTGACATTAA
1925866 -TTGCAA
1 TTTGCAA
1925872 TTATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
TTTGCAAAAAAATTGACATTAA
Found at i:1926644 original size:193 final size:195
Alignment explanation
Indices: 1926315--1926704 Score: 615
Period size: 193 Copynumber: 2.0 Consensus size: 195
1926305 TTTTTATTTA
* *
1926315 TTAAAAAAAATTATTCTCGAGAAAAATAAGTCAAAACCTTTTTATTGAAATAATTCTTAAAATGT
1 TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATGCTTAAAATGT
* * *
1926380 TCCAGTACGTTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACT
66 TCCAGCACATTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACA
* * *
1926445 CGGAATACTTTTAGAATCTCATCTTT-GGAGG-CTCGAATTTATTTTTCGTAAGAAA-ATGTCAT
131 CGGAATACTTTTAGAATCTCATCTTTGGGAGGTCT-AAATTTACTTTTCGTAAAAAATATGTCAT
1926507 G
195 G
* * *
1926508 TTAAAAAAATTTATTCTCGAGAAAAATAAATTAAAATCTTTTTATTGAAATAATGCTTAAAATGT
1 TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATGCTTAAAATGT
* *
1926573 TCCAGCACATTGGTAACATTAAAAGAACTCTTTCTCACCTAGAGATTTCTTAAAGCATTTCTACA
66 TCCAGCACATTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACA
*
1926638 CGGAATACTTTTAGAATCTTATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAATTATGTCAT
131 CGGAATACTTTTAGAATCTCATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAA-TATGTCAT
1926703 G
195 G
1926704 T
1 T
1926705 ATGCAATGCA
Statistics
Matches: 179, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
193 145 0.81
194 23 0.13
195 2 0.01
196 9 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (195 bp):
TTAAAAAAAATTATTCTCGAGAAAAATAAATCAAAACCTTTTTATTGAAATAATGCTTAAAATGT
TCCAGCACATTGGTAACATTAAAAGAACTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACA
CGGAATACTTTTAGAATCTCATCTTTGGGAGGTCTAAATTTACTTTTCGTAAAAAATATGTCATG
Found at i:1926775 original size:12 final size:12
Alignment explanation
Indices: 1926758--1926788 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1926748 TTTTCGAAAA
1926758 TTTTATTAATTG
1 TTTTATTAATTG
*
1926770 TTTTATTAATTT
1 TTTTATTAATTG
1926782 TTTTATT
1 TTTTATT
1926789 TTAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTATTAATTG
Found at i:1929428 original size:12 final size:12
Alignment explanation
Indices: 1929411--1929436 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1929401 CTTCTGCTAG
1929411 AAAATTTTAAAT
1 AAAATTTTAAAT
1929423 AAAATTTTAAAT
1 AAAATTTTAAAT
1929435 AA
1 AA
1929437 TGACAATGTT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTTTAAAT
Found at i:1934511 original size:21 final size:20
Alignment explanation
Indices: 1934483--1934629 Score: 84
Period size: 21 Copynumber: 7.0 Consensus size: 20
1934473 ATAATATAAG
1934483 TAAATTTTGATAACTTTTGA
1 TAAATTTTGATAACTTTTGA
*
1934503 TAAATTTTTGGTAAC--TTGAA
1 TAAA-TTTTGATAACTTTTG-A
* * *
1934523 AACAATTTTGGTAACTTATGA
1 TA-AATTTTGATAACTTTTGA
* * * *
1934544 TATAATTTCGGTAACTATTAA
1 TA-AATTTTGATAACTTTTGA
*
1934565 TATAATTTTGATAATCATTT-A
1 TA-AATTTTGATAA-CTTTTGA
*
1934586 TACAATTTTGATAATTTTTGA
1 TA-AATTTTGATAACTTTTGA
* *
1934607 CAAAATTTTAATAACCTTTTGA
1 -TAAATTTTGATAA-CTTTTGA
1934629 T
1 T
1934630 GTCATTTCTA
Statistics
Matches: 98, Mismatches: 20, Indels: 17
0.73 0.15 0.13
Matches are distributed among these distances:
19 3 0.03
20 19 0.19
21 64 0.65
22 12 0.12
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (20 bp):
TAAATTTTGATAACTTTTGA
Found at i:1934530 original size:41 final size:42
Alignment explanation
Indices: 1934485--1934578 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
1934475 AATATAAGTA
* *
1934485 AATTTTGATAACTTTTGATA-AATTTTTGGTAACT-TGAAAAC
1 AATTTTGATAACTTATGATATAA-TTTCGGTAACTATGAAAAC
* * * *
1934526 AATTTTGGTAACTTATGATATAATTTCGGTAACTATTAATAT
1 AATTTTGATAACTTATGATATAATTTCGGTAACTATGAAAAC
1934568 AATTTTGATAA
1 AATTTTGATAA
1934579 TCATTTATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 28 0.64
42 16 0.36
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (42 bp):
AATTTTGATAACTTATGATATAATTTCGGTAACTATGAAAAC
Found at i:1934875 original size:21 final size:22
Alignment explanation
Indices: 1934833--1934919 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 22
1934823 TTTGAAAAAT
*
1934833 TTTTGGTAACTTCA--ATAAAA
1 TTTTGGTAACTTCATGATATAA
1934853 TTTTGGTAACTT-ATGATATAA
1 TTTTGGTAACTTCATGATATAA
* ** *
1934874 TTTGGGTAA-TTGTTGATACAA
1 TTTTGGTAACTTCATGATATAA
1934895 TTTTGGTAAC--CATTGATATAA
1 TTTTGGTAACTTCA-TGATATAA
1934916 TTTT
1 TTTT
1934920 AATAATCTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.02
20 14 0.26
21 39 0.72
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (22 bp):
TTTTGGTAACTTCATGATATAA
Found at i:1934876 original size:42 final size:43
Alignment explanation
Indices: 1934808--1934919 Score: 99
Period size: 42 Copynumber: 2.7 Consensus size: 43
1934798 ATAATATAAG
* * * *
1934808 TAAAA-TTTGATAACTTTTGA-AAAATTTTTGGTAACT-TCAA
1 TAAAATTTTGGTAACTTATGATATAATTTTGGGTAACTGTCAA
* **
1934848 TAAAATTTTGGTAACTTATGATATAA-TTTGGGTAATTGTTGA
1 TAAAATTTTGGTAACTTATGATATAATTTTGGGTAACTGTCAA
* *
1934890 TACAATTTTGGTAAC-CATTGATATAATTTT
1 TAAAATTTTGGTAACTTA-TGATATAATTTT
1934920 AATAATCTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
40 5 0.09
41 23 0.40
42 27 0.47
43 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (43 bp):
TAAAATTTTGGTAACTTATGATATAATTTTGGGTAACTGTCAA
Found at i:1934933 original size:325 final size:326
Alignment explanation
Indices: 1934305--1934954 Score: 982
Period size: 325 Copynumber: 2.0 Consensus size: 326
1934295 TGCATTGGTA
* * ** *
1934305 TCATTTTTAGAATCTTGTCAGCCGATTCTATTAATTAGATAATATTTTAGAAGTTGATACATACA
1 TCATTTCTAGAATCTTGTCAGCCAATTAAATAAATTAGATAATATTTTAGAAGTTGATACATACA
* * * * *
1934370 TAATGCACATGTAATTTTTATCTTTAGAAATTTATGTTAATAAATGATTTTTATATACTATAATA
66 TAATGCACAAGTAATTCTTATCTTTAGAAATTCATGTCAATAAATAATTTTTATATACTATAATA
* *
1934435 ATAATAATAAATACTAATAATTTAATTTAAATTTTGATATAATATAAGTAAATTTTGATAACTTT
131 ATAATAATAAATACTAATAATTCAATTTAAATTTTGATATAATATAAGTAAAATTTGATAACTTT
* *
1934500 TGATAAATTTTTGGTAACTTGAAAACAATTTTGGTAACTTATGATATAATTTCGGTAACTATTAA
196 TGAAAAATTTTTGGTAACTTCAAAACAATTTTGGTAACTTATGATATAATTTCGGTAACTATTAA
* * * * * *
1934565 TATAATTTTGATAATCATTTATACAATTTTGATAATTTTTGACAAAATTTTAATAACCTTTTGAT
261 TACAATTTTGATAACCATTGATACAATTTTAATAATCTTTGACAAAATTTTAATAACCTCTTGAT
1934630 G
326 G
* * *
1934631 TCATTTCTAGAATCTTGTCAGCCAATTAAATAAATTAGATTATATTTTAGAACG-TGATACGTGC
1 TCATTTCTAGAATCTTGTCAGCCAATTAAATAAATTAGATAATATTTTAGAA-GTTGATACATAC
1934695 ATAATGCACAAGTAATTCTTATCTTTAGAAATTCATGTCAATAAATAATTTTT-TATACTATAAT
65 ATAATGCACAAGTAATTCTTATCTTTAGAAATTCATGTCAATAAATAATTTTTATATACTATAAT
*
1934759 AATAATAATAAATACTAATAATTCAATTTTAATTTTGATATAATATAAGTAAAATTTGATAACTT
130 AATAATAATAAATACTAATAATTCAATTTAAATTTTGATATAATATAAGTAAAATTTGATAACTT
* * *
1934824 TTGAAAAATTTTTGGTAACTTCAATAA-AATTTTGGTAACTTATGATATAATTTGGGTAATTGTT
195 TTGAAAAATTTTTGGTAACTTCAA-AACAATTTTGGTAACTTATGATATAATTTCGGTAACTATT
* * * *
1934888 GATACAATTTTGGTAACCATTGATATAATTTTAATAATCTTTGACAATATTTTAATAACCTCTTG
259 AATACAATTTTGATAACCATTGATACAATTTTAATAATCTTTGACAAAATTTTAATAACCTCTTG
1934953 AT
324 AT
1934955 ATAATTTTAG
Statistics
Matches: 291, Mismatches: 31, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
325 186 0.64
326 104 0.36
327 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (326 bp):
TCATTTCTAGAATCTTGTCAGCCAATTAAATAAATTAGATAATATTTTAGAAGTTGATACATACA
TAATGCACAAGTAATTCTTATCTTTAGAAATTCATGTCAATAAATAATTTTTATATACTATAATA
ATAATAATAAATACTAATAATTCAATTTAAATTTTGATATAATATAAGTAAAATTTGATAACTTT
TGAAAAATTTTTGGTAACTTCAAAACAATTTTGGTAACTTATGATATAATTTCGGTAACTATTAA
TACAATTTTGATAACCATTGATACAATTTTAATAATCTTTGACAAAATTTTAATAACCTCTTGAT
G
Found at i:1934961 original size:22 final size:21
Alignment explanation
Indices: 1934886--1934963 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
1934876 TGGGTAATTG
* ** *
1934886 TTGATACAATTTTGGTAACCA
1 TTGATATAATTTTAATAACCT
*
1934907 TTGATATAATTTTAATAATCT
1 TTGATATAATTTTAATAACCT
*
1934928 TTGACA-ATATTTTAATAACCT
1 TTGATATA-ATTTTAATAACCT
1934949 CTTGATATAATTTTA
1 -TTGATATAATTTTA
1934964 GTTATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.02
21 33 0.72
22 11 0.24
23 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (21 bp):
TTGATATAATTTTAATAACCT
Found at i:1935143 original size:12 final size:12
Alignment explanation
Indices: 1935126--1935150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1935116 AATTTATAAT
1935126 TTTTTTATTAAA
1 TTTTTTATTAAA
1935138 TTTTTTATTAAA
1 TTTTTTATTAAA
1935150 T
1 T
1935151 AAATTTATGG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTATTAAA
Found at i:1935363 original size:22 final size:21
Alignment explanation
Indices: 1935335--1935485 Score: 115
Period size: 22 Copynumber: 6.9 Consensus size: 21
1935325 TGATATACAG
*
1935335 CTAAATTATCAACGATTTATTA
1 CTAAATTAT-AATGATTTATTA
* * *
1935357 CTAAATTAATATTAATTTACTA
1 CTAAATT-ATAATGATTTATTA
*
1935379 CTAATTTATGAATGATTTATTA
1 CTAAATTAT-AATGATTTATTA
* *
1935401 CTAATTTATAATTAGTTTATTA
1 CTAAATTATAATGA-TTTATTA
* *
1935423 TTAAATTATTAATGATTTACTA
1 CTAAATTA-TAATGATTTATTA
* * *
1935445 TTAAATTATTGATGATTTGTTA
1 CTAAATTA-TAATGATTTATTA
1935467 -TAAAGTTATAACTGATTTA
1 CTAAA-TTATAA-TGATTTA
1935486 CTATTAATTT
Statistics
Matches: 105, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
21 12 0.11
22 86 0.82
23 7 0.07
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (21 bp):
CTAAATTATAATGATTTATTA
Done.