Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 19 of 64
Found at i:2557967 original size:45 final size:45
Alignment explanation
Indices: 2557881--2557967 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
2557871 AAGCTAAATT
* * * * *
2557881 TAATTTAATTAATATAAATTAATGTTAAAAGTAAATCTAATTTAA
1 TAATCTAATTAATAAAAAATAATATTAAAAGTAAATATAATTTAA
*
2557926 TAATCTAATTAATAAAAAATAATATTAACA-TAAATTATAATT
1 TAATCTAATTAATAAAAAATAATATTAAAAGTAAA-TATAATT
2557968 ATTAAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 4 0.11
45 31 0.89
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (45 bp):
TAATCTAATTAATAAAAAATAATATTAAAAGTAAATATAATTTAA
Found at i:2558211 original size:13 final size:13
Alignment explanation
Indices: 2558193--2558218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2558183 TTATTTCCAT
2558193 AATATTATAATTA
1 AATATTATAATTA
2558206 AATATTATAATTA
1 AATATTATAATTA
2558219 GTACTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATTATAATTA
Found at i:2560434 original size:23 final size:24
Alignment explanation
Indices: 2560386--2560447 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
2560376 ATATTATTGA
*
2560386 ATTAATTAA-ATTAAAATCAAAGT
1 ATTAATTAATATTATAATCAAAGT
** *
2560409 ATTTTTTAATATTATAAT-AAATT
1 ATTAATTAATATTATAATCAAAGT
2560432 ATTAATTAATATTATA
1 ATTAATTAATATTATA
2560448 TAATTCATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 25 0.78
24 7 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTAATTAATATTATAATCAAAGT
Found at i:2560644 original size:34 final size:34
Alignment explanation
Indices: 2560581--2560667 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
2560571 AATAATAATC
2560581 AATT-AATTAAATGAATTATTACCTTATTAAGATG
1 AATTAAATTAAATGAATTATTACCTTATTAA-ATG
* * *
2560615 AATTAAATTAAATTAA-TATTA-TTTAATTAATTG
1 AATTAAATTAAATGAATTATTACCTT-ATTAAATG
*
2560648 AATTAATATTAAATAAATTA
1 AATTAA-ATTAAATGAATTA
2560668 ATATCATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
33 10 0.22
34 23 0.51
35 12 0.27
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (34 bp):
AATTAAATTAAATGAATTATTACCTTATTAAATG
Found at i:2560799 original size:9 final size:9
Alignment explanation
Indices: 2560764--2560811 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
2560754 TATTTGATTG
*
2560764 AATAAATAA
1 AATAATTAA
*
2560773 AATAATATTA
1 AATAAT-TAA
*
2560783 ATTAATTAA
1 AATAATTAA
2560792 AATAATTAA
1 AATAATTAA
2560801 AATTAATTAA
1 AA-TAATTAA
2560811 A
1 A
2560812 TACACAAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AATAATTAA
Found at i:2563258 original size:36 final size:37
Alignment explanation
Indices: 2563185--2563257 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
2563175 TAGCCAATAA
* **
2563185 TATCTTCTAATCTGTTGGTAAGACTTTTTATTAAAAAT
1 TATCTTCCAATCTCCTGGTAAGAC-TTTTATTAAAAAT
2563223 TATCTTCCAATCTCCTGGTAAGA-TTTTATGTAAAA
1 TATCTTCCAATCTCCTGGTAAGACTTTTAT-TAAAA
2563258 TAAAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 5 0.16
38 20 0.65
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (37 bp):
TATCTTCCAATCTCCTGGTAAGACTTTTATTAAAAAT
Found at i:2563757 original size:44 final size:42
Alignment explanation
Indices: 2563701--2563795 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
2563691 TTTCCTCTCC
*
2563701 TTTTTT-TCTCAAGAGTTTTTGTATAATCTTTTTTC-CCCATTT
1 TTTTTTCTCTCAAGAGCTTTTGTATAAT-TTTTTTCTCCC-TTT
* *
2563743 TTCTTTTCTCTCAAGAGCTTTTGTATAGTTTTTTTCTCTCTTT
1 TT-TTTTCTCTCAAGAGCTTTTGTATAATTTTTTTCTCCCTTT
2563786 TTTTTTCTCT
1 TTTTTTCTCT
2563796 TTTGTGTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 10 0.21
43 16 0.34
44 21 0.45
ACGTcount: A:0.13, C:0.18, G:0.07, T:0.62
Consensus pattern (42 bp):
TTTTTTCTCTCAAGAGCTTTTGTATAATTTTTTTCTCCCTTT
Found at i:2564161 original size:23 final size:23
Alignment explanation
Indices: 2564124--2564174 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2564114 ATGATTTATG
* *
2564124 ATAAAAAATTTAAAACCAAATAA
1 ATAAAAAATTAAAAAACAAATAA
* *
2564147 ATAAAAGATTAAAAAATAAATAA
1 ATAAAAAATTAAAAAACAAATAA
2564170 ATAAA
1 ATAAA
2564175 TAAGACAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAAAAATTAAAAAACAAATAA
Found at i:2567873 original size:26 final size:26
Alignment explanation
Indices: 2567835--2567892 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
2567825 AGATGATGAA
*
2567835 ATGGATTACATTATGGGAAACAATGC
1 ATGGATTACATTATGGGAAACAATAC
*
2567861 ATGGATTATATTATGGGAAACAATAC
1 ATGGATTACATTATGGGAAACAATAC
2567887 ATGGAT
1 ATGGAT
2567893 CTTAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (26 bp):
ATGGATTACATTATGGGAAACAATAC
Found at i:2579165 original size:26 final size:27
Alignment explanation
Indices: 2579111--2579166 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
2579101 AACTTAATTG
2579111 AATGTGGGCAAACATCATTTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
*
2579138 AATGTGGGCTAACATCA-TTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
2579164 AAT
1 AAT
2579167 ACCTTGATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (27 bp):
AATGTGGGCAAACATCATTTAATACTA
Found at i:2582412 original size:13 final size:13
Alignment explanation
Indices: 2582394--2582426 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2582384 TTTGTGATTT
2582394 AAAAAATATTTTA
1 AAAAAATATTTTA
*
2582407 AAAAAAGATTTTA
1 AAAAAATATTTTA
2582420 AAAAAAT
1 AAAAAAT
2582427 GTAGGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:2583280 original size:14 final size:14
Alignment explanation
Indices: 2583248--2583319 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
2583238 TTTTTAATAC
2583248 TATAA-TAA-ATTA
1 TATAATTAATATTA
2583260 T-TAATTAATATTA
1 TATAATTAATATTA
*
2583273 TATAATTAAT-CTA
1 TATAATTAATATTA
*
2583286 TTTCAA-TAATA-T-
1 TAT-AATTAATATTA
*
2583298 TATAATTAGTATTA
1 TATAATTAATATTA
*
2583312 TTTAATTA
1 TATAATTA
2583320 GATAAGTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
11 5 0.11
12 10 0.21
13 15 0.32
14 17 0.36
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (14 bp):
TATAATTAATATTA
Found at i:2583333 original size:39 final size:40
Alignment explanation
Indices: 2583251--2583344 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 40
2583241 TTAATACTAT
* *
2583251 AATAA-ATTATTAATTAATATTATATAATTAATCTATTTC
1 AATAATATTATTAATTAATATTATATAATTAATCAAGTTC
* * *
2583290 AATAATATTA-TAATTAGTATTATTTAATTAGAT-AAGTTG
1 AATAATATTATTAATTAATATTATATAATTA-ATCAAGTTC
*
2583329 AATAATTTTCATTAAT
1 AATAATATT-ATTAAT
2583345 CAAAATAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
39 34 0.76
40 7 0.16
41 4 0.09
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (40 bp):
AATAATATTATTAATTAATATTATATAATTAATCAAGTTC
Found at i:2583471 original size:34 final size:34
Alignment explanation
Indices: 2583408--2583494 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
2583398 AATAATAATC
2583408 AATT-AATTAAATGAATTATTACCTTATTAAGATG
1 AATTAAATTAAATGAATTATTACCTTATTAA-ATG
* * *
2583442 AATTAAATTAAATTAA-TATTA-TTTAATTAATTG
1 AATTAAATTAAATGAATTATTACCTT-ATTAAATG
*
2583475 AATTAATATTAAATAAATTA
1 AATTAA-ATTAAATGAATTA
2583495 ATATCATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
33 10 0.22
34 23 0.51
35 12 0.27
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (34 bp):
AATTAAATTAAATGAATTATTACCTTATTAAATG
Found at i:2584599 original size:18 final size:18
Alignment explanation
Indices: 2584576--2584612 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2584566 AATTCTTCTC
2584576 ACTATCAATCTCAAAATA
1 ACTATCAATCTCAAAATA
2584594 ACTATCAATCTCAAAATA
1 ACTATCAATCTCAAAATA
2584612 A
1 A
2584613 AAGACATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (18 bp):
ACTATCAATCTCAAAATA
Found at i:2584996 original size:2 final size:2
Alignment explanation
Indices: 2584989--2585015 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2584979 CGTTTAAAAG
2584989 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2585016 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2585020 original size:2 final size:2
Alignment explanation
Indices: 2585015--2585039 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2585005 TATATATATA
2585015 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2585040 TTACCAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2585067 original size:2 final size:2
Alignment explanation
Indices: 2585060--2585084 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2585050 ATGAAATCAA
2585060 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2585085 AAAAAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2586154 original size:36 final size:37
Alignment explanation
Indices: 2586081--2586153 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
2586071 TAGCCAATAA
* * *
2586081 TATCTTCTAATCTGTTGGTAAGATTTTTTATTAAAAAT
1 TATCCTCTAATCTCTTGATAAGA-TTTTTATTAAAAAT
2586119 TATCCTCTAATCTCTTGATAAGA-TTTTATGTAAAA
1 TATCCTCTAATCTCTTGATAAGATTTTTAT-TAAAA
2586154 TAAAAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 6 0.19
37 5 0.16
38 20 0.65
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.47
Consensus pattern (37 bp):
TATCCTCTAATCTCTTGATAAGATTTTTATTAAAAAT
Found at i:2587057 original size:23 final size:23
Alignment explanation
Indices: 2587020--2587070 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2587010 ATGATTTATG
* *
2587020 ATAAAAAATTTAAAACCAAATAA
1 ATAAAAAATTAAAAAACAAATAA
* *
2587043 ATAAAAGATTAAAAAATAAATAA
1 ATAAAAAATTAAAAAACAAATAA
2587066 ATAAA
1 ATAAA
2587071 TAAGACAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAAAAATTAAAAAACAAATAA
Found at i:2590769 original size:26 final size:26
Alignment explanation
Indices: 2590731--2590788 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
2590721 AGATGATGAA
*
2590731 ATGGATTACATTATGGGAAACAATGC
1 ATGGATTACATTATGGGAAACAATAC
*
2590757 ATGGATTATATTATGGGAAACAATAC
1 ATGGATTACATTATGGGAAACAATAC
2590783 ATGGAT
1 ATGGAT
2590789 CTTAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (26 bp):
ATGGATTACATTATGGGAAACAATAC
Found at i:2602048 original size:27 final size:27
Alignment explanation
Indices: 2602018--2602074 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
2602008 AACTTAATTG
2602018 AATGTGGGCAAACATCATTTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
*
2602045 AATGTGGGCTAACATCATTTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
2602072 AAT
1 AAT
2602075 ACCTTGATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
AATGTGGGCAAACATCATTTAATACTA
Found at i:2604370 original size:32 final size:32
Alignment explanation
Indices: 2604329--2604393 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
2604319 AGGTTTAACC
2604329 AAGTAATAACCTAACTTGCATAACAAGAAATA
1 AAGTAATAACCTAACTTGCATAACAAGAAATA
2604361 AAGTAATAACCTAACTTGCATAACAAGAAATA
1 AAGTAATAACCTAACTTGCATAACAAGAAATA
2604393 A
1 A
2604394 TTTAGCTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (32 bp):
AAGTAATAACCTAACTTGCATAACAAGAAATA
Found at i:2607228 original size:23 final size:24
Alignment explanation
Indices: 2607202--2607267 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
2607192 TGTTTTGACT
*
2607202 TTATTTTTCTTATTTTATTTA-TG
1 TTATTTTTCTTATTTTATTTACTC
2607225 TTATTTTGT-TTATTTTTATTTACTC
1 TTATTTT-TCTTA-TTTTATTTACTC
2607250 TTATTATTTCTTATTTTA
1 TTATT-TTTCTTATTTTA
2607268 AATTGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 10 0.27
24 10 0.27
25 12 0.32
26 5 0.14
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (24 bp):
TTATTTTTCTTATTTTATTTACTC
Found at i:2612800 original size:42 final size:41
Alignment explanation
Indices: 2612739--2612822 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
2612729 AACACAATAT
* * *
2612739 TTTCAATTGGAACTGTTCTTTCTCGTATAATAGTGTTTATA
1 TTTCAATCGGAACGGTTCTTTCTCATATAATAGTGTTTATA
2612780 TTTCAATCGGAACGGTTTCTTTCTCATATAATAGTGTTTATA
1 TTTCAATCGGAACGG-TTCTTTCTCATATAATAGTGTTTATA
2612822 T
1 T
2612823 AAAGAAGCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 13 0.33
42 26 0.67
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (41 bp):
TTTCAATCGGAACGGTTCTTTCTCATATAATAGTGTTTATA
Found at i:2615295 original size:9 final size:9
Alignment explanation
Indices: 2615281--2615318 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
2615271 TTCTTATTTA
2615281 TTTTTATCT
1 TTTTTATCT
2615290 TTTTTATCT
1 TTTTTATCT
2615299 CTTTTTATTCT
1 -TTTTTA-TCT
2615310 TTTTTATCT
1 TTTTTATCT
2615319 CTCTTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 12 0.44
10 12 0.44
11 3 0.11
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTATCT
Found at i:2615296 original size:19 final size:20
Alignment explanation
Indices: 2615274--2615318 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2615264 TCCCAAATTC
*
2615274 TTATTTATTTTTA-TCTTTT
1 TTATCTATTTTTATTCTTTT
*
2615293 TTATCTCTTTTTATTCTTTT
1 TTATCTATTTTTATTCTTTT
2615313 TTATCT
1 TTATCT
2615319 CTCTTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTATCTATTTTTATTCTTTT
Found at i:2615303 original size:11 final size:11
Alignment explanation
Indices: 2615287--2615325 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
2615277 TTTATTTTTA
2615287 TCTTTTTTATC
1 TCTTTTTTATC
2615298 TC-TTTTTAT-
1 TCTTTTTTATC
2615307 TCTTTTTTATC
1 TCTTTTTTATC
2615318 TCTCTTTT
1 TCT-TTTT
2615326 CATCCTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.08
10 14 0.56
11 5 0.20
12 4 0.16
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTTTTATC
Found at i:2615310 original size:20 final size:19
Alignment explanation
Indices: 2615281--2615325 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
2615271 TTCTTATTTA
2615281 TTTTTATCTTTTTTATCTC
1 TTTTTATCTTTTTTATCTC
2615300 TTTTTATTCTTTTTTATCTC
1 TTTTTA-TCTTTTTTATCTC
2615320 TCTTTT
1 T-TTTT
2615326 CATCCTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATCTTTTTTATCTC
Found at i:2615333 original size:11 final size:11
Alignment explanation
Indices: 2615281--2615333 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
2615271 TTCTTATTTA
2615281 TTTTTAT-CT-
1 TTTTTATCCTC
2615290 TTTTTAT-CTC
1 TTTTTATCCTC
*
2615300 TTTTTATTCT-
1 TTTTTATCCTC
2615310 TTTTTATCTCTC
1 TTTTTATC-CTC
*
2615322 TTTTCATCCTC
1 TTTTTATCCTC
2615333 T
1 T
2615334 AACTTCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 9 0.24
10 14 0.37
11 8 0.21
12 7 0.18
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATCCTC
Found at i:2616307 original size:30 final size:30
Alignment explanation
Indices: 2616271--2616329 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
2616261 GTTTAGATAT
2616271 AAACCAAATATGATATAAAATGATTATTAC
1 AAACCAAATATGATATAAAATGATTATTAC
2616301 AAACCAAATATGATATAAAATGATTATTA
1 AAACCAAATATGATATAAAATGATTATTA
2616330 TCCTATCCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (30 bp):
AAACCAAATATGATATAAAATGATTATTAC
Found at i:2628597 original size:52 final size:51
Alignment explanation
Indices: 2628540--2628671 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 51
2628530 GATTTTTTAG
**
2628540 ATTTAATTCCAGAATCAATTGGCATTAAAAATGAT-GTGGAGAGATTGTCGAA
1 ATTTAATTCCAGAATCAATTCACATTAAAAATGATAG-GGAGAGATT-TCGAA
* * * * *
2628592 ATTTAATTCTATAATCAATTCACATT-AAATTGATAGGGAGAGATTTTGGA
1 ATTTAATTCCAGAATCAATTCACATTAAAAATGATAGGGAGAGATTTCGAA
* * **
2628642 ATTTGATTTCAGAATCAATTTTCATTAAAA
1 ATTTAATTCCAGAATCAATTCACATTAAAA
2628672 CGAAAATAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
50 23 0.35
51 19 0.29
52 23 0.35
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (51 bp):
ATTTAATTCCAGAATCAATTCACATTAAAAATGATAGGGAGAGATTTCGAA
Found at i:2629193 original size:23 final size:24
Alignment explanation
Indices: 2629167--2629232 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 24
2629157 TGTTTTGACT
*
2629167 TTATTTTTCTTATTTTATTTA-TG
1 TTATTTTTCTTATTTTATTTACTC
2629190 TTATTTTGT-TTATTTTTATTTACTC
1 TTATTTT-TCTTA-TTTTATTTACTC
2629215 TTATTATTTCTTATTTTA
1 TTATT-TTTCTTATTTTA
2629233 AATTGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 10 0.27
24 10 0.27
25 12 0.32
26 5 0.14
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (24 bp):
TTATTTTTCTTATTTTATTTACTC
Found at i:2636596 original size:356 final size:353
Alignment explanation
Indices: 2636023--2636828 Score: 967
Period size: 356 Copynumber: 2.3 Consensus size: 353
2636013 CTGCAACTGC
* *
2636023 CTTTAGTAATTATATACAAACTGTAATAGGAATTATTAAGAGTG--TCTATATTAAATATACGCC
1 CTTTAGTAATTATATACAAACTGTGATAGGAATTATTAA-AG-GCATCTATTTTAAATATACGCC
* * * *
2636086 TTCAATAACAGTGTT-CAATTTGTGTGGCAATATATAAAAGGCATTTTATAGTAGAAGATGCCTT
64 TTCAATAACAATGTTACAATTTGTGTGGCAATATATAAAAGGCATTTTACAATAAAAGATGCCTT
* * * *
2636150 TAATAATTTCCAAAATATTTAGTGAGAAAATTTTGAAAGCGTTTGTTATTTACAAATGCCTTCAG
129 TAATAATTTCCAAAATATTAAATGAGAAAATTTTGAAAGCGTCTGTTATTAACAAATGCCTTCAG
2636215 TAATGGATTACTAAGTTTAAAGGTATATTGAATGTGC-C-TTTTCTAACAAACACCTTCCATTAC
194 TAATGGATTACTAAGTTTAAAGGTATATTGAA-G-GCACTTTTTCTAACAAACACCTTCCATTAC
* * * * * *
2636278 CATCGTGGTATATTAAAGGTGTTTTATAATAAAAGACGCTTTTAATAATCCT-GTAAAATTTTTT
257 CA---T--AACATTAAAGGTGTGTCATAATAAAAGACGCCTTTAATAAT-CTAGAAAAATTTTTT
* *
2636342 -TA-AGGAAATTAGTGAAAGCT-TTGTTTTCTGAAATTAA
316 GTATAGGAAATTAGTGAAAG-TGTTATTTTCTGAAA-CAA
* *
2636379 CTTTAGTAATTATATAGAAACTGTGATAGAAATTATTAAAGGCATCTATTTTAAATATACGCCTT
1 CTTTAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTATTTTAAATATACGCCTT
* * *
2636444 CAATAACAATATTACAATTTGTGTGG-AGGTATATAGAAGGCATTTTACAATAAAAGATGCCTTT
66 CAATAACAATGTTACAATTTGTGTGGCA-ATATATAAAAGGCATTTTACAATAAAAGATGCCTTT
* *
2636508 AATAA-TTCTCAAAATATTAAATG-GAAAAATTTTGAAGGTGTCTGTTATTAACAAATG-CTTCA
130 AATAATTTC-CAAAATATTAAATGAG-AAAATTTTGAAAGCGTCTGTTATTAACAAATGCCTTCA
* *
2636570 GTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAATAAACAGCTTCCATTACC
193 GTAATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAACAAACACCTTCCATTACC
* *
2636635 ATAACATTGAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCTAGAAAAATTTTTTGTATTGG
258 ATAACATTAAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCTAGAAAAATTTTTTGTATAGG
** * * **
2636700 ATTTTATTGAAAGTGTTATTTTCTGTAACCG
323 AAATTAGTGAAAGTGTTATTTTCTGAAACAA
* * * *
2636731 CTTTCAATAATTA-ACTACAAACTATGATAGGAATTATTAAAGGCATCT-TTCTTAGATATATGC
1 CTTT-AGTAATTATA-TACAAACTGTGATAGGAATTATTAAAGGCATCTATT-TTAAATATACGC
* * *
2636794 CTTCAACAACAATGTTAGAATTTGTGTGGCGATAT
63 CTTCAATAACAATGTTACAATTTGTGTGGCAATAT
2636829 GTTCAAGGCG
Statistics
Matches: 388, Mismatches: 46, Indels: 35
0.83 0.10 0.07
Matches are distributed among these distances:
350 2 0.01
351 46 0.12
352 10 0.03
353 100 0.26
354 3 0.01
355 4 0.01
356 135 0.35
357 88 0.23
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (353 bp):
CTTTAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTATTTTAAATATACGCCTT
CAATAACAATGTTACAATTTGTGTGGCAATATATAAAAGGCATTTTACAATAAAAGATGCCTTTA
ATAATTTCCAAAATATTAAATGAGAAAATTTTGAAAGCGTCTGTTATTAACAAATGCCTTCAGTA
ATGGATTACTAAGTTTAAAGGTATATTGAAGGCACTTTTTCTAACAAACACCTTCCATTACCATA
ACATTAAAGGTGTGTCATAATAAAAGACGCCTTTAATAATCTAGAAAAATTTTTTGTATAGGAAA
TTAGTGAAAGTGTTATTTTCTGAAACAA
Found at i:2657021 original size:27 final size:27
Alignment explanation
Indices: 2656991--2657047 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
2656981 AACTTAATTG
2656991 AATGTGGGCAAACATCATTTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
*
2657018 AATGTGGGCTAACATCATTTAATACTA
1 AATGTGGGCAAACATCATTTAATACTA
2657045 AAT
1 AAT
2657048 ACCTTGATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (27 bp):
AATGTGGGCAAACATCATTTAATACTA
Found at i:2662055 original size:25 final size:25
Alignment explanation
Indices: 2662027--2662089 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
2662017 CAAATGCTTC
*
2662027 AAGATTAGACCCTCTATCATACTTT
1 AAGATTAGACCCTCCATCATACTTT
*
2662052 AAGATTAGACCTTCCATCATACTTT
1 AAGATTAGACCCTCCATCATACTTT
*
2662077 AAGATTATACCCT
1 AAGATTAGACCCT
2662090 TCTTCATGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (25 bp):
AAGATTAGACCCTCCATCATACTTT
Found at i:2679540 original size:42 final size:42
Alignment explanation
Indices: 2679489--2679573 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
2679479 ATAGCTTCAT
2679489 TATTGTTTATATAATGTAATTAACACTTGCATAAAATAGGAA
1 TATTGTTTATATAATGTAATTAACACTTGCATAAAATAGGAA
2679531 TATTGTTTATATAATGTAATTAACACTTGCATAAAATAGGAA
1 TATTGTTTATATAATGTAATTAACACTTGCATAAAATAGGAA
2679573 T
1 T
2679574 GATAATTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (42 bp):
TATTGTTTATATAATGTAATTAACACTTGCATAAAATAGGAA
Found at i:2681562 original size:10 final size:10
Alignment explanation
Indices: 2681549--2681578 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2681539 ATCGAGCTTT
2681549 TATATTTTAA
1 TATATTTTAA
2681559 TATATTTTAA
1 TATATTTTAA
2681569 T-TATTTTAA
1 TATATTTTAA
2681578 T
1 T
2681579 TAATAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:2681575 original size:9 final size:9
Alignment explanation
Indices: 2681551--2681580 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2681541 CGAGCTTTTA
2681551 TATTTTAAT
1 TATTTTAAT
2681560 ATATTTTAAT
1 -TATTTTAAT
2681570 TATTTTAAT
1 TATTTTAAT
2681579 TA
1 TA
2681581 ATAATCTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:2683039 original size:13 final size:13
Alignment explanation
Indices: 2683017--2683060 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2683007 AGAAATAAGG
* *
2683017 AAGAAGAAGAAGA
1 AAGAAAAAGAATA
2683030 AAGAAAAAGAAAATA
1 AAGAAAAAG--AATA
2683045 AAGAAAAAGAATA
1 AAGAAAAAGAATA
2683058 AAG
1 AAG
2683061 GTGTATGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (13 bp):
AAGAAAAAGAATA
Found at i:2684574 original size:79 final size:79
Alignment explanation
Indices: 2684442--2684595 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
2684432 TGATGACTGC
* * *
2684442 ATACATTTTGAAGGCTGCCAATTGATGAAGGAATTTTTTCACTTTGGTCACTAGCGTGCTTAAGA
1 ATACATTTTAAAGGCTGCCAATTGATGAAGGAATTTTTTCACCTTGGTCACTAGCGTGCTCAAGA
*
2684507 GCCCACTGAACTAT
66 ACCCACTGAACTAT
* *
2684521 ATACATTTTAAAGGTTGCCAATTGATGAAGGAATTTTTTCACCTTGGTTACTAGCGTGCTCAAGA
1 ATACATTTTAAAGGCTGCCAATTGATGAAGGAATTTTTTCACCTTGGTCACTAGCGTGCTCAAGA
*
2684586 ACCCATTGAA
66 ACCCACTGAA
2684596 TAATAGTATA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (79 bp):
ATACATTTTAAAGGCTGCCAATTGATGAAGGAATTTTTTCACCTTGGTCACTAGCGTGCTCAAGA
ACCCACTGAACTAT
Found at i:2692582 original size:184 final size:184
Alignment explanation
Indices: 2692091--2693053 Score: 1216
Period size: 186 Copynumber: 5.2 Consensus size: 184
2692081 AGTGAAGGTG
* * * ***
2692091 TTTTTTGAGAATAAATACGTTCAATAATTTTCTTTTAAAATTTTTGAGATTATTAAAGATGTCTT
1 TTTTTTGAGAACAAATACCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAAAGGCATCTT
* * * * * *
2692156 CCAGTGAAAAATG-CTTTCAATATTCCACAACTTAAATTTTAAGACAGTTAGTAAAGGCATTTAT
65 CCAGTGAAAAACGCCTTT-AATTTTTCACAACTCAAATTTTAAGA-GGTTAGTGAAGGCATTTAT
* * **
2692220 TCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGCACATAACAATTGAAGGCA
128 TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
* * **
2692277 TTTTTTGAGAACAAATGCCTTTAATAATTTTCGCTTAAAATTTTTGGGATTATTAAAGGCATCTT
1 TTTTTTGAGAACAAATACCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAAAGGCATCTT
* * * *
2692342 TCAGTGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGCGTTTATT
65 CCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGA-GGTTAGTGAAGGCATTTATT
* * * * *
2692407 CTAGAAAAATACCTTCACTAATTCCTTTTAATTTATGTACATAATAATTAAAGGTA
129 CTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
* * *
2692463 TTTTTTGAGAACAAACACCTTCAATAA-TTCTTTTAAATTTTTTGGGATTATTAAAGGCATCTTT
1 TTTTTTGAGAACAAATACCTTCAATAATTTCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTC
* * *
2692527 TAGTAAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTTAGTGAAGGCATTTATTC
66 CAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGAGG-TTAGTGAAGGCATTTATTC
* ** *
2692592 TAGAAAAATGCCTTCACTAATAGCTTCTAATTTACATACATAATTATTGAAGGCA
130 TAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
* ** * * * * * *
2692647 TTTTTTTAGAACAAATTTCTTTAACAATTTTGTTTTAAAAATTTTGAGATTATTAAAGGCGTCTT
1 TTTTTTGAGAACAAATACCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAAAGGCATCTT
* * * * *
2692712 CCAGTGAAAAACGCCTTTAATTTTTTACAACTCAAATTTTAAAATGTTTAATGAAGGCGTTTATT
65 CCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGA-GGTTAGTGAAGGCATTTATT
**
2692777 CTAGAAAAATACCTTCACTAATT-CTCTCTAATTTACGTACATAATTATTGAAGGTG
129 CTAGAAAAATACCTTCACTAATTCCT-TCTAATTTACGTACATAATTATTGAAGGCA
* *
2692833 TTTTTT-AGAATAAAGT-CCTTCAATAATTTCTTCTTAAAATTTTTGGGATTATTAAAGGTATCT
1 TTTTTTGAGAACAAA-TACCTTCAATAATTTCTT-TTAAAATTTTTGGGATTATTAAAGGCATCT
* * * *
2692896 TCCAATGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAGTGGTTAGTGAAGGCATTTATT
64 TCCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTAGTGAAGGCATTTATT
2692961 CTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
129 CTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
* * *
2693017 TTTTTTGAGAACAAACACCTTCACTAATTCCTTTTAA
1 TTTTTTGAGAACAAATACCTTCAATAATTTCTTTTAA
2693054 TTTTTATATA
Statistics
Matches: 668, Mismatches: 98, Indels: 24
0.85 0.12 0.03
Matches are distributed among these distances:
183 2 0.00
184 240 0.36
185 104 0.16
186 318 0.48
187 4 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (184 bp):
TTTTTTGAGAACAAATACCTTCAATAATTTCTTTTAAAATTTTTGGGATTATTAAAGGCATCTTC
CAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTAGTGAAGGCATTTATTCT
AGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCA
Found at i:2692811 original size:370 final size:370
Alignment explanation
Indices: 2692085--2693031 Score: 1346
Period size: 370 Copynumber: 2.6 Consensus size: 370
2692075 ATGGTTAGTG
* * * *
2692085 AAGGTGTTTTTTGAGAATAAATACGTTCAATAATTTTCTTTTAAAATTTTTGAGATTATTAAAGA
1 AAGGTGTTTTTTGAGAATAAACACCTTCAATAA-TTTCTTTTAAAATTTTTGGGATTATTAAAGG
* * * * * *
2692150 TGTCTTCCAGTGAAAAATG-CTTTCAATATTCCACAACTTAAATTTTAAGACAGTTAGTAAAGGC
65 TATCTTCCAGTGAAAAATGCCTTT-AATTTTTCACAACTCAAATTTTAAGA-GGTTAGTGAAGGC
* **
2692214 ATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGCACATAACAATTGAAGGCATT
128 ATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATT
* * * *
2692279 TTTTGAGAACAAATGCCTTTAATAATTTTCGCTTAAAATTTTTGGGATTATTAAAGGCATCTTTC
193 TTTTGAGAACAAATGCCTTTAACAATTTTCGCTTAAAAATTTTGAGATTATTAAAGGCATCTTCC
* *
2692344 AGTGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAGATGGTTAGTGAAGGCGTTTATTCT
258 AGTGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAAATGGTTAATGAAGGCGTTTATTCT
* *
2692409 AGAAAAATACCTTCACTAATTCCTTTTAATTTATGTACATAATAATTA
323 AGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
* * * *
2692457 AAGGTATTTTTTGAGAACAAACACCTTCAATAA-TTCTTTTAAATTTTTTGGGATTATTAAAGGC
1 AAGGTGTTTTTTGAGAATAAACACCTTCAATAATTTCTTTTAAAATTTTTGGGATTATTAAAGGT
** *
2692521 ATCTTTTAGTAAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTTAGTGAAGGCAT
66 ATCTTCCAGTGAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGAGG-TTAGTGAAGGCAT
** *
2692586 TTATTCTAGAAAAATGCCTTCACTAATAGCTTCTAATTTACATACATAATTATTGAAGGCATTTT
130 TTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTT
* ** * *
2692651 TTTAGAACAAATTTCTTTAACAATTTT-GTTTTAAAAATTTTGAGATTATTAAAGGCGTCTTCCA
195 TTGAGAACAAATGCCTTTAACAATTTTCG-CTTAAAAATTTTGAGATTATTAAAGGCATCTTCCA
* * * *
2692715 GTGAAAAACGCCTTTAATTTTTTACAACTCAAATTTTAAAATGTTTAATGAAGGCGTTTATTCTA
259 GTGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAAATGGTTAATGAAGGCGTTTATTCTA
* *
2692780 GAAAAATACCTTCACTAATT-CTCTCTAATTTACGTACATAATTATTG
324 GAAAAATACCTTCACTAATTCCT-TCTAATTTACGTACATAATAATTA
**
2692827 AAGGTGTTTTTT-AGAATAAAGTCCTTCAATAATTTCTTCTTAAAATTTTTGGGATTATTAAAGG
1 AAGGTGTTTTTTGAGAATAAACACCTTCAATAATTTCTT-TTAAAATTTTTGGGATTATTAAAGG
* ** * *
2692891 TATCTTCCAATGAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAGTGGTTAGTGAAGGCAT
65 TATCTTCCAGTGAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTAGTGAAGGCAT
*
2692956 TTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTT
130 TTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTT
2693021 TTGAGAACAAA
195 TTGAGAACAAA
2693032 CACCTTCACT
Statistics
Matches: 508, Mismatches: 61, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
369 21 0.04
370 387 0.76
371 71 0.14
372 29 0.06
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (370 bp):
AAGGTGTTTTTTGAGAATAAACACCTTCAATAATTTCTTTTAAAATTTTTGGGATTATTAAAGGT
ATCTTCCAGTGAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGAGGTTAGTGAAGGCATT
TATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGCATTTTT
TGAGAACAAATGCCTTTAACAATTTTCGCTTAAAAATTTTGAGATTATTAAAGGCATCTTCCAGT
GAAAAACACCTTCAATTTTTCACAACTCAAATTTTAAAATGGTTAATGAAGGCGTTTATTCTAGA
AAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATAATTA
Found at i:2693067 original size:62 final size:62
Alignment explanation
Indices: 2692947--2693071 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
2692937 AAGTGGTTAG
* *
2692947 TGAAGGCATTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
1 TGAAGGCATTTATTCTAGAAAAACACCTTCACTAATTCCTTCTAATTTACATACATAATTAT
* ** *
2693009 TGAAGGCATTT-TT-TGAGAACAAACACCTTCACTAATTCCTTTTAATTTTTATATATAATTAT
1 TGAAGGCATTTATTCT-AGAA-AAACACCTTCACTAATTCCTTCTAATTTACATACATAATTAT
2693071 T
1 T
2693072 AAAGATGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 1 0.02
61 6 0.11
62 48 0.87
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (62 bp):
TGAAGGCATTTATTCTAGAAAAACACCTTCACTAATTCCTTCTAATTTACATACATAATTAT
Found at i:2693560 original size:28 final size:28
Alignment explanation
Indices: 2693528--2693582 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
2693518 AATAATGTGG
* *
2693528 TTTGCTAAACCTTGTTGTGTGATATTAT
1 TTTGCTAAACCGTATTGTGTGATATTAT
**
2693556 TTTGCTAAATGGTATTGTGTGATATTA
1 TTTGCTAAACCGTATTGTGTGATATTA
2693583 GTATGCTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (28 bp):
TTTGCTAAACCGTATTGTGTGATATTAT
Found at i:2695074 original size:21 final size:21
Alignment explanation
Indices: 2695026--2695075 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2695016 ATTGAGCAAT
2695026 AACAGCAATGAATTAATGACC
1 AACAGCAATGAATTAATGACC
** ** *
2695047 AGGAGCAATGCCTTAATGAGC
1 AACAGCAATGAATTAATGACC
2695068 AACAGCAA
1 AACAGCAA
2695076 AGACTCACTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAGCAATGAATTAATGACC
Found at i:2696851 original size:35 final size:35
Alignment explanation
Indices: 2696789--2696858 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
2696779 ATATATAAAC
* *
2696789 CAAATGTTTTATGGGCATAACTATACAACTTACTT
1 CAAATGTTTTATAGGCATAACTATACAACTGACTT
* *
2696824 CAAATGTTTTCTAGGCATAAAC-CTACAACTGACTT
1 CAAATGTTTTATAGGCAT-AACTATACAACTGACTT
2696859 GACATATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (35 bp):
CAAATGTTTTATAGGCATAACTATACAACTGACTT
Found at i:2697521 original size:243 final size:242
Alignment explanation
Indices: 2697223--2697696 Score: 611
Period size: 244 Copynumber: 1.9 Consensus size: 242
2697213 TTAGCAACAA
* * **
2697223 AACGCCTTAAATAATCCCTAACAAAATGTTATTGAAGGTATTTTTTACCAAAATCGCCTTCAATA
1 AACGCCTTAAATAATCCATAACAAAATGTTATTGAAGGTATTTTTGAAAAAAATCGCCTTCAATA
* * * *
2697288 ATCCCACCCA-AAATTTTATTGTGTGAAATATTAAAGGTATTTTGGGCAAAAAATGCCTTCAAGA
66 ATCCCA-CCATAAA-TTTATCGTCTGAAATATTAAAGGCATTTTGAGCAAAAAATGCCTTCAAGA
* *
2697352 ATCCGTTTCCAACTTTT-TTGTATGGATTATTAAAGGCA-TTTTAAAAAAAA-T-CATCTTCAAT
129 ATCCATTT-AAACTTTTGTT-TATGGATTATTAAAGGCATTTTTAAAAAAAACTGC-T-TTCAAT
2697413 AATACCAACTAAAAATTAATTGAATGGATTATTA-AAGGCGTTTTCCTAATGGT
190 AATACCAACTAAAAATTAATTGAATGGATTA-TAGAAGGCGTTTTCCTAATGGT
*
2697466 AACGCCTTGAATAATCCATAACAAAATGTTATTGAA-GTCATTTTTGAAAAAAATCGCCTTCAAT
1 AACGCCTTAAATAATCCATAACAAAATGTTATTGAAGGT-ATTTTTGAAAAAAATCGCCTTCAAT
** *
2697530 AATCTGACCATTCAAATTTATCGTCTGAAATATTAAAGGCATTTTGAGCCAAAAATGCCTTCAAG
65 AATCCCACCA-T-AAATTTATCGTCTGAAATATTAAAGGCATTTTGAGCAAAAAATGCCTTCAAG
* * * * *
2697595 AATCTATTTAAACTTTTGTTTATGGATTATTGAAGGCATTTTTGACAAAAACTGCTTTTAATAAT
128 AATCCATTTAAACTTTTGTTTATGGATTATTAAAGGCATTTTTAAAAAAAACTGCTTTCAATAAT
* * *
2697660 CCCAACTAAAAATTTATTGATTGGATTATAGAAGGCG
193 ACCAACTAAAAATTAATTGAATGGATTATAGAAGGCG
2697697 AGTTCGATTA
Statistics
Matches: 200, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
242 5 0.03
243 87 0.44
244 102 0.51
245 5 0.03
246 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (242 bp):
AACGCCTTAAATAATCCATAACAAAATGTTATTGAAGGTATTTTTGAAAAAAATCGCCTTCAATA
ATCCCACCATAAATTTATCGTCTGAAATATTAAAGGCATTTTGAGCAAAAAATGCCTTCAAGAAT
CCATTTAAACTTTTGTTTATGGATTATTAAAGGCATTTTTAAAAAAAACTGCTTTCAATAATACC
AACTAAAAATTAATTGAATGGATTATAGAAGGCGTTTTCCTAATGGT
Found at i:2698692 original size:87 final size:87
Alignment explanation
Indices: 2698594--2698769 Score: 352
Period size: 87 Copynumber: 2.0 Consensus size: 87
2698584 GATATATAAT
2698594 TATTCAATTTTTTATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGT
1 TATTCAATTTTTTATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGT
2698659 AAATAAAGTTTTAAAGGTTAAA
66 AAATAAAGTTTTAAAGGTTAAA
2698681 TATTCAATTTTTTATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGT
1 TATTCAATTTTTTATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGT
2698746 AAATAAAGTTTTAAAGGTTAAA
66 AAATAAAGTTTTAAAGGTTAAA
2698768 TA
1 TA
2698770 ACACTAAAAT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (87 bp):
TATTCAATTTTTTATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGT
AAATAAAGTTTTAAAGGTTAAA
Found at i:2698805 original size:87 final size:87
Alignment explanation
Indices: 2698606--2698790 Score: 266
Period size: 87 Copynumber: 2.1 Consensus size: 87
2698596 TTCAATTTTT
* *
2698606 TATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGTAAATAAAGTTTT
1 TATTACATAAAATTCTAAATAATTTAATATAAAATAATGTATCACTACTTAGTAAATAAAGTTTT
* ****
2698671 AAAGGTTAAATATTCAATTTTT
66 AAAGGTTAAATATACAATAAAA
* *
2698693 TATTCCATAAAATTCTATATAATTTAATATAAAATAATGTATCACTACTTAGTAAATAAAGTTTT
1 TATTACATAAAATTCTAAATAATTTAATATAAAATAATGTATCACTACTTAGTAAATAAAGTTTT
*
2698758 AAAGGTTAAATA-ACACTAAAA
66 AAAGGTTAAATATACAATAAAA
2698779 TA-TACATAAAAT
1 TATTACATAAAAT
2698791 ATTTTCAAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
85 9 0.10
86 5 0.05
87 77 0.85
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (87 bp):
TATTACATAAAATTCTAAATAATTTAATATAAAATAATGTATCACTACTTAGTAAATAAAGTTTT
AAAGGTTAAATATACAATAAAA
Found at i:2699005 original size:21 final size:21
Alignment explanation
Indices: 2698980--2699019 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2698970 TTCACTAATT
2698980 TTAATTTTATCATAATAATAA
1 TTAATTTTATCATAATAATAA
2699001 TTAATTTTATCATAATAAT
1 TTAATTTTATCATAATAAT
2699020 TGTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTTTATCATAATAATAA
Found at i:2700250 original size:50 final size:50
Alignment explanation
Indices: 2700191--2700291 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
2700181 GGCAAAAAAA
2700191 AAATTAATTCAGTTAAAAAGTATTAGTATTTTATAATTTATCTATATCCT
1 AAATTAATTCAGTTAAAAAGTATTAGTATTTTATAATTTATCTATATCCT
2700241 AAATTAATTCAGTTAAAAAGTATTAGTATTTTATAATTTATCTATATCCT
1 AAATTAATTCAGTTAAAAAGTATTAGTATTTTATAATTTATCTATATCCT
2700291 A
1 A
2700292 TATATAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (50 bp):
AAATTAATTCAGTTAAAAAGTATTAGTATTTTATAATTTATCTATATCCT
Found at i:2701745 original size:23 final size:24
Alignment explanation
Indices: 2701713--2701760 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
2701703 CCAACTCCTC
* *
2701713 TGGGCTTTATTTTT-TTTTTTTTT
1 TGGGCGTTATTTTTATTTATTTTT
2701736 TGGGCGTTATTTTTATTTATTTTT
1 TGGGCGTTATTTTTATTTATTTTT
2701760 T
1 T
2701761 AAGTTAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.08, C:0.04, G:0.15, T:0.73
Consensus pattern (24 bp):
TGGGCGTTATTTTTATTTATTTTT
Found at i:2702591 original size:13 final size:13
Alignment explanation
Indices: 2702573--2702597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2702563 AAATTTTGGT
2702573 TTTTATTATTTTA
1 TTTTATTATTTTA
2702586 TTTTATTATTTT
1 TTTTATTATTTT
2702598 TATTGCTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:2706593 original size:19 final size:18
Alignment explanation
Indices: 2706555--2706599 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
2706545 ATTATTTGTT
2706555 TCATTCATTTCATGCATC
1 TCATTCATTTCATGCATC
2706573 TCATTCATTGATCAT-CATC
1 TCATTCATT--TCATGCATC
2706592 TCATTCAT
1 TCATTCAT
2706600 GTAAAGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.36
19 12 0.48
20 4 0.16
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.44
Consensus pattern (18 bp):
TCATTCATTTCATGCATC
Found at i:2713451 original size:22 final size:23
Alignment explanation
Indices: 2713422--2713474 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
2713412 AAATGATTTG
*
2713422 TAAA-ACTTCTTA-GCATAATCT
1 TAAAGACTTCTCAGGCATAATCT
*
2713443 TAAAGACTT-TCAGGCATGATCT
1 TAAAGACTTCTCAGGCATAATCT
*
2713465 TCAAGACTTC
1 TAAAGACTTC
2713475 CAAGTACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (23 bp):
TAAAGACTTCTCAGGCATAATCT
Found at i:2722539 original size:26 final size:26
Alignment explanation
Indices: 2722503--2722558 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
2722493 TGAATGCATT
2722503 AGTAATACGACCATTAACAACAAGAG
1 AGTAATACGACCATTAACAACAAGAG
2722529 AGTAATACGACCATTAACAACAAGAG
1 AGTAATACGACCATTAACAACAAGAG
2722555 AGTA
1 AGTA
2722559 TGATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (26 bp):
AGTAATACGACCATTAACAACAAGAG
Found at i:2726431 original size:23 final size:25
Alignment explanation
Indices: 2726399--2726451 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
2726389 CATATGTTAG
*
2726399 TCAAATATATG-AAAT-AAGCACAA
1 TCAAACATATGCAAATCAAGCACAA
*
2726422 TCAAACATATGCATATCAAGCACAA
1 TCAAACATATGCAAATCAAGCACAA
*
2726447 GCAAA
1 TCAAA
2726452 TTTGTCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
25 12 0.48
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (25 bp):
TCAAACATATGCAAATCAAGCACAA
Found at i:2726627 original size:22 final size:23
Alignment explanation
Indices: 2726579--2726627 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
2726569 TCTTTTTGTT
*
2726579 TAAGCTCTTTATACCAAATGTTA
1 TAAGCTCTTTATACCAAATGCTA
* *
2726602 -AAGCTC-TTATATCAATTGCTA
1 TAAGCTCTTTATACCAAATGCTA
2726623 TAAGC
1 TAAGC
2726628 ATATAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (23 bp):
TAAGCTCTTTATACCAAATGCTA
Found at i:2727940 original size:27 final size:27
Alignment explanation
Indices: 2727902--2727957 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2727892 ATGCAAAGTG
2727902 TTCACAAATTCAACCATAATATCTCAT
1 TTCACAAATTCAACCATAATATCTCAT
2727929 TTCACAAATTCAACCATAATATCTCAT
1 TTCACAAATTCAACCATAATATCTCAT
2727956 TT
1 TT
2727958 TTGTGTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (27 bp):
TTCACAAATTCAACCATAATATCTCAT
Found at i:2733296 original size:3 final size:3
Alignment explanation
Indices: 2733283--2733321 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2733273 CAAAAACCAA
2733283 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2733322 TAAGAAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2734462 original size:12 final size:12
Alignment explanation
Indices: 2734436--2734475 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
2734426 AGATTATTTG
2734436 CAAAAA-AAAAA
1 CAAAAACAAAAA
2734447 -AAAAACAAAAA
1 CAAAAACAAAAA
2734458 CAAAAACAAAAA
1 CAAAAACAAAAA
*
2734470 TAAAAA
1 CAAAAA
2734476 ACCTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
12 16 0.62
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.03
Consensus pattern (12 bp):
CAAAAACAAAAA
Found at i:2734943 original size:3 final size:3
Alignment explanation
Indices: 2734935--2734991 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
2734925 ATAGCTTTTA
2734935 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2734982 TAT GAT TAT T
1 TAT TAT TAT T
2734992 TTTGCTTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2735499 original size:12 final size:12
Alignment explanation
Indices: 2735484--2735513 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2735474 ACAAAACCCA
*
2735484 AAAACTCTAATT
1 AAAACTCTAAAT
2735496 AAAACTCTAAAT
1 AAAACTCTAAAT
2735508 AAAACT
1 AAAACT
2735514 TTGAAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAACTCTAAAT
Found at i:2740396 original size:3 final size:3
Alignment explanation
Indices: 2740388--2740438 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
2740378 ATAGTTTTTA
*
2740388 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2740435 TAT T
1 TAT T
2740439 TTTGCTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2749607 original size:21 final size:21
Alignment explanation
Indices: 2749583--2749622 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2749573 TAGCCAAATG
2749583 GAAAATAAAGAAA-AAAAATTA
1 GAAAATAAA-AAATAAAAATTA
*
2749604 GAAACTAAAAAATAAAAAT
1 GAAAATAAAAAATAAAAAT
2749623 GGCAGATGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (21 bp):
GAAAATAAAAAATAAAAATTA
Found at i:2754448 original size:12 final size:12
Alignment explanation
Indices: 2754433--2754466 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2754423 CTTTTTACAC
2754433 ATCTTCTTTAAG
1 ATCTTCTTTAAG
*
2754445 ATCTTCTGTAAG
1 ATCTTCTTTAAG
*
2754457 ATCATCTTTA
1 ATCTTCTTTA
2754467 GGATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (12 bp):
ATCTTCTTTAAG
Found at i:2758997 original size:124 final size:123
Alignment explanation
Indices: 2758792--2759050 Score: 337
Period size: 124 Copynumber: 2.1 Consensus size: 123
2758782 AAAATTGAAT
* * *
2758792 AGGG-TTATTCAAGGCGTTTCTGGCCAAAAACACAATGAATAATCCTCTCATAAAAATTGAAGGG
1 AGGGATTATTCAAGGCATTTCTAGCCAAAAACACAATAAATAATCCTCTCATAAAAATTGAAGGG
** *
2758856 AATTATTAATGACATTTTTGGCCAGAAATGCCTCGAATAATCCTATTCAATTTTTTGTA
66 AATTATTAATGACATTTTTGGCCAGAAACACCTCGAATAA-CCCATTCAATTTTTTGTA
**
2758915 AGGGATTATTCAAGGCATTTCTAGCCAAAAACACCTTAAATAATCAC-CTCATAAAAATTGAAAG
1 AGGGATTATTCAAGGCATTTCTAGCCAAAAACACAATAAATAATC-CTCTCATAAAAATTG-AAG
** * *
2758979 GG-ATTATTCAA-GGTATTTTTTGCCAGAAACACCTTGAATAACCCATTCAATTTTTTGTA
64 GGAATTATT-AATGACATTTTTGGCCAGAAACACCTCGAATAACCCATTCAATTTTTTGTA
*
2759038 AAGGATTATTCAA
1 AGGGATTATTCAA
2759051 CCTTAAAATT
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
123 33 0.28
124 78 0.66
125 8 0.07
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (123 bp):
AGGGATTATTCAAGGCATTTCTAGCCAAAAACACAATAAATAATCCTCTCATAAAAATTGAAGGG
AATTATTAATGACATTTTTGGCCAGAAACACCTCGAATAACCCATTCAATTTTTTGTA
Found at i:2759009 original size:62 final size:61
Alignment explanation
Indices: 2758717--2759019 Score: 242
Period size: 62 Copynumber: 4.9 Consensus size: 61
2758707 ATAATCTTCA
* * * *
2758717 ATAAAAATTGAAAGGGATTATTGAAGGTGA-TTTTAGCTAAAAAC-GCTTGGAATAATCCCCTC
1 ATAAAAATTGAAAGGGATTATTCAAGG-CATTTTTAGCCAAAAACACCTT-GAATAAT-CCCTC
* * * **
2758779 ATAAAAATTGAATAGGG-TTATTCAAGGCGTTTCTGGCCAAAAACACAATGAATAATCCTCTC
1 ATAAAAATTGAA-AGGGATTATTCAAGGCATTTTTAGCCAAAAACACCTTGAATAATCC-CTC
* * * ** *
2758841 ATAAAAATTG-AAGGGAATTATT-AATGACATTTTTGGCCAGAAATGCCTCGAATAAT-CCT-
1 ATAAAAATTGAAAGGG-ATTATTCAA-GGCATTTTTAGCCAAAAACACCTTGAATAATCCCTC
*** * * *
2758900 ATTCAATTTTTTGTAAGGGATTATTCAAGGCATTTCTAGCCAAAAACACCTTAAATAATCACCTC
1 A-T-AA-AAATTGAAAGGGATTATTCAAGGCATTTTTAGCCAAAAACACCTTGAATAATC-CCTC
* * *
2758965 ATAAAAATTGAAAGGGATTATTCAAGGTATTTTTTGCCAGAAACACCTTGAATAA
1 ATAAAAATTGAAAGGGATTATTCAAGGCATTTTTAGCCAAAAACACCTTGAATAA
2759020 CCCATTCAAT
Statistics
Matches: 188, Mismatches: 38, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
59 1 0.01
60 7 0.04
61 8 0.04
62 153 0.81
63 14 0.07
64 4 0.02
65 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (61 bp):
ATAAAAATTGAAAGGGATTATTCAAGGCATTTTTAGCCAAAAACACCTTGAATAATCCCTC
Found at i:2759041 original size:62 final size:63
Alignment explanation
Indices: 2758851--2759050 Score: 180
Period size: 62 Copynumber: 3.2 Consensus size: 63
2758841 ATAAAAATTG
* * ** * *
2758851 AAGGGAATTATT-AATGACATTTTTGGCCAGAAATGCCTCGAATAATCCTATTCAATTTTTTGT-
1 AAGGG-ATTATTCAA-GGCATTTTTAGCCAGAAACACCTTGAATAATCCCATTCAATTTTTTGTA
* * * ****
2758914 AAGGGATTATTCAAGGCATTTCTAGCCAAAAACACCTTAAATAATCACC--TCATAAAAATTG-A
1 AAGGGATTATTCAAGGCATTTTTAGCCAGAAACACCTTGAATAATC-CCATTCA-ATTTTTTGTA
* *
2758976 AAGGGATTATTCAAGGTATTTTTTGCCAGAAACACCTTGAATAA-CCCATTCAATTTTTTGTA
1 AAGGGATTATTCAAGGCATTTTTAGCCAGAAACACCTTGAATAATCCCATTCAATTTTTTGTA
2759038 AA-GGATTATTCAA
1 AAGGGATTATTCAA
2759051 CCTTAAAATT
Statistics
Matches: 108, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
60 2 0.02
61 19 0.18
62 79 0.73
63 8 0.07
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (63 bp):
AAGGGATTATTCAAGGCATTTTTAGCCAGAAACACCTTGAATAATCCCATTCAATTTTTTGTA
Found at i:2762056 original size:21 final size:21
Alignment explanation
Indices: 2762006--2762058 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2761996 TTTCATATTC
*
2762006 CTCAAGTTGGTGATGCTAATA
1 CTCAAGTTTGTGATGCTAATA
**
2762027 CTCAAGTTTGTGATGCTGTTA
1 CTCAAGTTTGTGATGCTAATA
2762048 CTCAAGTTTGT
1 CTCAAGTTTGT
2762059 AATGTTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (21 bp):
CTCAAGTTTGTGATGCTAATA
Found at i:2762073 original size:21 final size:21
Alignment explanation
Indices: 2762006--2762073 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2761996 TTTCATATTC
* * *
2762006 CTCAAGTTGGTGATGCTAATA
1 CTCAAGTTTGTAATGCTGATA
* *
2762027 CTCAAGTTTGTGATGCTGTTA
1 CTCAAGTTTGTAATGCTGATA
*
2762048 CTCAAGTTTGTAATGTTGATA
1 CTCAAGTTTGTAATGCTGATA
*
2762069 TTCAA
1 CTCAA
2762074 AGTGATGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (21 bp):
CTCAAGTTTGTAATGCTGATA
Found at i:2764385 original size:17 final size:17
Alignment explanation
Indices: 2764363--2764397 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2764353 ACGGAGCACC
2764363 AGGTAGGAAAACTTTAA
1 AGGTAGGAAAACTTTAA
*
2764380 AGGTAGGAACACTTTAA
1 AGGTAGGAAAACTTTAA
2764397 A
1 A
2764398 AGAATCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (17 bp):
AGGTAGGAAAACTTTAA
Found at i:2765212 original size:154 final size:152
Alignment explanation
Indices: 2764917--2765205 Score: 366
Period size: 154 Copynumber: 1.9 Consensus size: 152
2764907 AGATAGCTTA
* * * *
2764917 AATACATGATATTAAACTTATCCGAATGATTGGACTTGGTTTCCACGATTTATGTGTGAAAAAGT
1 AATAAATGATATTAAACTTATCCGAATGATTGAACTTAGTTTACACGATTTATGTGTGAAAAAGT
* * * * **
2764982 TATTATTTATGTTTGTTTAGCAATTTTTTATGCCGTTAAAAGGCCAAAATGCAAATTTGTTTTTA
66 TATCATTTATGTCTATTTA-CAATTTTTTATGCCGTTAAAAGCCCAAAATGCAAATTTGCATTTA
2765047 TTATTCCATTTTAACAATTTTTC
130 TTATTCCATTTTAACAATTTTTC
* **
2765070 AATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTACAC-AGTTGATATGTGTGAAAA
1 AATAAATGATATTAAACTTATCCGAATGATTGAACTTAGTTTACACGA-TT--TATGTGTGAAAA
* ** *
2765134 AGTTGTCATTTATGTCTATTT-CAAATTTTTTATGTTGTTAAAAGCCCAAAATGCAATTTTGCAT
63 AGTTATCATTTATGTCTATTTAC-AATTTTTTATGCCGTTAAAAGCCCAAAATGCAAATTTGCAT
2765198 TTATTATT
127 TTATTATT
2765206 TTATTTTGAC
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
152 1 0.01
153 42 0.37
154 43 0.37
155 29 0.25
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (152 bp):
AATAAATGATATTAAACTTATCCGAATGATTGAACTTAGTTTACACGATTTATGTGTGAAAAAGT
TATCATTTATGTCTATTTACAATTTTTTATGCCGTTAAAAGCCCAAAATGCAAATTTGCATTTAT
TATTCCATTTTAACAATTTTTC
Found at i:2765835 original size:324 final size:320
Alignment explanation
Indices: 2765067--2765873 Score: 831
Period size: 324 Copynumber: 2.5 Consensus size: 320
2765057 TTAACAATTT
* * * * * *
2765067 TTCAATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTACACAGTTGATATGTGTGAA
1 TTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTACAGA-TTGATATGTATGAA
* * * * *
2765132 AAAGTTGTCATTTATGTCTATTTCAA-A-TTTTTTATGTTGTTAAAAGCCCAAAATGCAATTTTG
65 AAAGTTGTCATTTATATCTGTTT-AAGACTTTTTT-T-ATGTTAAAAG-CTAAAATGCAAATTTG
* ** *
2765195 CATTTATTATTTTATTTTGACAGTTTAGATAGTTTTAATACATAATATTAAACTTGTCCAGATAA
126 CATTTATTATTTTATTTTAACAGTTTAGATAACTTCAATACATAATATTAAACTTGTCCAGATAA
* * * *
2765260 TTGAACTTGGTTTCCATAATTGATATGTGTAAAAAAATTACCATTTATGTTTTTTTAGGACTTTA
191 TTGAACTTAGTTTCCATAACTGATATGTGTAAAAAAATTACCATTTATGTCTTTTTAGAACTTTA
* ** * * * * *
2765325 TTATGCTGTTAAAAGGTAAAAATGTCATTTTGCAATTATTTTTATGCTTTAATAGTTTAGATAGC
256 TTACGCCATTAAAAGGCAAAAATATAATTTTGCAATTATATTTATACTTTAATAGTTTAGATAGC
* * * * *
2765390 TTAAATACATTATATTAAACTTT-TTCAAATGATTGAACTTGGTTTCCACGAATGATATG-AGTG
1 TTCAATACATGATATTAAA-TTTGTTCGAATGATTGAACTTGGTTTACA-GATTGATATGTA-TG
*
2765453 AAAAAGTTGTCATTTATATATGTTT-AG-CTCTTTTTTATGCTATTAAAATGCTAAAATGCAAAT
63 AAAAAGTTGTCATTTATATCTGTTTAAGACT-TTTTTTATG---TTAAAA-GCTAAAATGCAAAT
** * * * *
2765516 TTGTGTTTATTATTTTATTTTAATAGTTTAGATAACTTCAATACATGATATTAAATTTGT-CTGA
123 TTGCATTTATTATTTTATTTTAACAGTTTAGATAACTTCAATACATAATATTAAACTTGTCCAG-
* * * * ** **
2765580 ATGATTGAACTTAGTTTTCATAGCTGATATGTGTGAAAATGTTACTGTTTATGTCTTTTTAGAAC
187 ATAATTGAACTTAGTTTCCATAACTGATATGTGTAAAAAAATTACCATTTATGTCTTTTTAGAAC
* * * * *
2765645 TTTGTTACGCCATTAAAGGGCAAAAATATAATTTTGTAGTTATATTTATATTTTAATAGTTTAGA
252 TTTATTACGCCATTAAAAGGCAAAAATATAATTTTGCAATTATATTTATACTTTAATAGTTTAGA
2765710 TAGC
317 TAGC
*
2765714 TTCAATACATGATATTAAATTTGTTCGAATGATTGAATTTGGTTCT-CATGATTTGATATGTATG
1 TTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTT-TACA-GA-TTGATATGTATG
* *
2765778 AATAAGTT-ACAATTTATATCTGTTTAAGACTTTTTTTAATGTTAAAAGCTAAAAATGCAAATTT
63 AAAAAGTTGTC-ATTTATATCTGTTTAAGACTTTTTTT-ATGTTAAAAGCT-AAAATGCAAATTT
* * * * *
2765842 ACAATTATTGTTCTATTTTAACAATTTAGATA
125 GCATTTATTATTTTATTTTAACAGTTTAGATA
2765874 GCTCCTATTA
Statistics
Matches: 395, Mismatches: 69, Indels: 39
0.79 0.14 0.08
Matches are distributed among these distances:
321 3 0.01
322 2 0.01
323 81 0.21
324 264 0.67
325 31 0.08
326 9 0.02
327 5 0.01
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (320 bp):
TTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTACAGATTGATATGTATGAAA
AAGTTGTCATTTATATCTGTTTAAGACTTTTTTTATGTTAAAAGCTAAAATGCAAATTTGCATTT
ATTATTTTATTTTAACAGTTTAGATAACTTCAATACATAATATTAAACTTGTCCAGATAATTGAA
CTTAGTTTCCATAACTGATATGTGTAAAAAAATTACCATTTATGTCTTTTTAGAACTTTATTACG
CCATTAAAAGGCAAAAATATAATTTTGCAATTATATTTATACTTTAATAGTTTAGATAGC
Found at i:2765849 original size:486 final size:475
Alignment explanation
Indices: 2764884--2765876 Score: 1084
Period size: 486 Copynumber: 2.1 Consensus size: 475
2764874 AAATATGTAG
* * *
2764884 TTATATTTATGTTTTAACAGCTTAGATAGCTTAAATACATGATATTAAACTTATCCGAATGATTG
1 TTATTTTTATG-TTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTTATCCAAATGATTG
* * * * * *
2764949 GACTTGGTTTCCACGATTTATGTGTGAAAAAGTTATTATTTATGTTTGTTTAGCAATTTTTTATG
65 AACTTGGTTTCCACGATATATGAGTGAAAAAGTTATCATTTATATATGTTTAGCAATTTTTTATG
* *
2765014 CCGTTAAAAGGCCAAAATGCAAATTTGTTTTTATTATTCCATTTTAACAATTTTTCAATAAATGA
130 CCATTAAAAGGCCAAAATGCAAATTTGTGTTTATTATTCCATTTTAACAATTTTTCAATAAATGA
* * *
2765079 TATTAAACTTGTTTGAATGATTGAACTTAGTTTACACAGTTGATATGTGTGAAAAAGTTGTCATT
195 TATTAAACTTGTCTGAATGATTGAACTTAGTTTACACAGCTGATATGTGTGAAAAAGTTCTCATT
* * *** * * *
2765144 TATGTCTATTTCAAATTTTTTATGTTGTTAAAAGCCCAAAATGCAATTTTGCATTTATTATTTTA
260 TATGTCTATTTCAAATTTGTTACGCCATTAAAAGCCAAAAATACAATTTTGCAGTTATTATTTTA
* * *
2765209 TTTTGACAGTTTAGATAGTTTTAATACATAATATTAAACTTGTCCAGATAATTGAACTTGGTTTC
325 TTTTAACAGTTTAGATAGCTTCAATACATAATATTAAACTTGTCCAGATAATTGAACTTGGTTTC
* * * * * * **
2765274 CATAATTGATATGTGTAAAAAAATTACCATTTATGTTTTTTTAGGACTTTATTATGCTGTTAAAA
390 CATAATTGATATGTATAAAAAAATTACAATTTATATCTGTTTAAGACTTTATTATAATGTTAAAA
* * *
2765339 GGTAAAAATGTCATTTTGCAA
455 GCTAAAAATGTCAATTTACAA
* * * *
2765360 TTATTTTTATGCTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACTTTTTCAAATGATTG
1 TTATTTTTATG-TTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTTATCCAAATGATTG
* **
2765425 AACTTGGTTTCCACGAATGATATGAGTGAAAAAGTTGTCATTTATATATGTTTAGCTCTTTTTTA
65 AACTTGGTTTCCACG-AT-ATATGAGTGAAAAAGTTATCATTTATATATGTTTAGCAATTTTTTA
* * * ** * *
2765490 TGCTATTAAAATGCTAAAATGCAAATTTGTGTTTATTATTTTATTTTAATAGTTTAGATAACTTC
128 TGCCATTAAAAGGCCAAAATGCAAATTTGTGTTTATTATTCCATTTTAACA-ATT---T---TTC
* * * * *
2765555 AATACATGATATTAAATTTGTCTGAATGATTGAACTTAGTTTTCATAGCTGATATGTGTGAAAAT
186 AATAAATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTACACAGCTGATATGTGTGAAAAA
* * * * * *
2765620 GTTACT-GTTTATGTCT-TTTTAGAACTTTGTTACGCCATTAAAGGGCAAAAATATAATTTTGTA
251 GTT-CTCATTTATGTCTATTTCA-AA-TTTGTTACGCCATTAAAAGCCAAAAATACAATTTTGCA
* * * * *
2765683 GTTA-TATTTATATTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTC-GAATGA
313 GTTATTATTT-TATTTTAACAGTTTAGATAGCTTCAATACATAATATTAAACTTGTCCAG-ATAA
* * * * *
2765746 TTGAATTTGG-TTCTCATGATTTGATATGTATGAATAAGTTACAATTTATATCTGTTTAAGACTT
376 TTGAACTTGGTTTC-CAT-AATTGATATGTATAAAAAAATTACAATTTATATCTGTTTAAGACTT
*
2765810 T-TTTTAATGTTAAAAGCTAAAAATG-CAAATTTACAA
439 TATTATAATGTTAAAAGCTAAAAATGTC-AATTTACAA
*
2765846 TTATTGTTCTAT-TTTAACAATTTAGATAGCT
1 TTATT-TT-TATGTTTAACAGTTTAGATAGCT
2765877 CCTATTACAT
Statistics
Matches: 423, Mismatches: 75, Indels: 28
0.80 0.14 0.05
Matches are distributed among these distances:
476 71 0.17
477 2 0.00
478 81 0.19
479 2 0.00
482 1 0.00
484 4 0.01
485 85 0.20
486 135 0.32
487 39 0.09
488 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (475 bp):
TTATTTTTATGTTTAACAGTTTAGATAGCTTAAATACATGATATTAAACTTATCCAAATGATTGA
ACTTGGTTTCCACGATATATGAGTGAAAAAGTTATCATTTATATATGTTTAGCAATTTTTTATGC
CATTAAAAGGCCAAAATGCAAATTTGTGTTTATTATTCCATTTTAACAATTTTTCAATAAATGAT
ATTAAACTTGTCTGAATGATTGAACTTAGTTTACACAGCTGATATGTGTGAAAAAGTTCTCATTT
ATGTCTATTTCAAATTTGTTACGCCATTAAAAGCCAAAAATACAATTTTGCAGTTATTATTTTAT
TTTAACAGTTTAGATAGCTTCAATACATAATATTAAACTTGTCCAGATAATTGAACTTGGTTTCC
ATAATTGATATGTATAAAAAAATTACAATTTATATCTGTTTAAGACTTTATTATAATGTTAAAAG
CTAAAAATGTCAATTTACAA
Found at i:2765861 original size:162 final size:158
Alignment explanation
Indices: 2764895--2765876 Score: 607
Period size: 162 Copynumber: 6.1 Consensus size: 158
2764885 TATATTTATG
* * * * * * *
2764895 TTTTAACAGCTTAGATAGCTTAAATACATGATATTAAACTTATCCGAATGATTGGACTTGGTTTC
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTC
* * * *
2764960 CA-CGATT--TATGTGTGAAAAAGTTATTATTTATGTTTGTTT-AG-CAATTTTTTATGCCGTTA
66 CATAG-TTGATATGTGTGAAAAAGTTA-CATTTATGTCTGTTTAAGAC-TTTTTTTAT---GTTA
* * *** **
2765020 AAAGGC-CAAAATGCAAATTTGTTTTTATTATTCCA
125 AAA-GCTAAAAATGCAATTTTGCAATTATT-TTTTA
* * * * * * *
2765055 TTTTAACA-ATT---T---TTCAATAAATGATATTAAACTTGTTTGAATGATTGAACTTAGTTTA
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTC
* * * *
2765113 CACAGTTGATATGTGTGAAAAAGTTGTCATTTATGTCTATTTCAA-A-TTTTTTATGTTGTTAAA
66 CATAGTTGATATGTGTGAAAAAGTT-ACATTTATGTCTGTTT-AAGACTTTTTT-T-ATGTTAAA
** *
2765176 AGCCCAAAATGCAATTTTGCATTTATTATTTTA
127 AGCTAAAAATGCAATTTTGCAATTATT-TTTTA
* * * * * * * *
2765209 TTTTGACAGTTTAGATAGTTTTAATACATAATATTAAACTTG-TCCAGATAATTGAACTTGGTTT
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGA-ATGATTGAACTTGGTTT
* * * * * * **
2765273 CCATAATTGATATGTGTAAAAAAATTACCATTTATGTTTTTTTAGGACTTTATTATGCTGTTAAA
65 CCATAGTTGATATGTGTGAAAAAGTTA-CATTTATGTCTGTTTAAGACTTT-TT-TTATGTTAAA
*
2765338 AGGTAAAAATGTC-ATTTTGCAATTA-TTTTTA
127 AGCTAAAAATG-CAATTTTGCAATTATTTTTTA
* * *
2765369 TGCTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACTTT-TTCAAATGATTGAACTTGGT
1 T--TTTAATAGTTTAGATAGCTTCAATACATGATATTAAA-TTTGTTCGAATGATTGAACTTGGT
* * * * * *
2765433 TTCCA-CGAATGATATGAGTGAAAAAGTTGTCATTTATATATGTTT-AG-CTCTTTTTTATGCTA
63 TTCCATAG-TTGATATGTGTGAAAAAGTT-ACATTTATGTCTGTTTAAGACT-TTTTTTATG---
* ***
2765495 TTAAAATGCT-AAAATGCAAATTTGTGTTTATTATTTTA
122 TTAAAA-GCTAAAAATGCAATTTTGCAATTATT-TTTTA
* *
2765533 TTTTAATAGTTTAGATAACTTCAATACATGATATTAAATTTG-TCTGAATGATTGAACTTAGTTT
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTC-GAATGATTGAACTTGGTTT
* * * * * * *
2765597 TCATAGCTGATATGTGTGAAAATGTTACTGTTTATGTCT-TTTTAGAAC-TTTGTTACGCCATTA
65 CCATAGTTGATATGTGTGAAAAAGTTAC-ATTTATGTCTGTTTAAG-ACTTTTTTTATG---TTA
* ** * * *
2765660 AAGGGC-AAAAATATAATTTTGTAGTTATATTTATA
125 AA-AGCTAAAAATGCAATTTTGCAATTAT-TTTTTA
*
2765695 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGAATGATTGAATTTGG-TTC
1 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTC
* * * *
2765759 TCATGATTTGATATGTATGAATAAGTTACAATTTATATCTGTTTAAGACTTTTTTTAATGTTAAA
66 -CAT-AGTTGATATGTGTGAAAAAGTTAC-ATTTATGTCTGTTTAAGACTTTTTTT-ATGTTAAA
* * *
2765824 AGCTAAAAATGCAAATTTACAATTATTGTTCTA
127 AGCTAAAAATGCAATTTTGCAATTATT-TTTTA
* *
2765857 TTTTAACAATTTAGATAGCT
1 TTTTAATAGTTTAGATAGCT
2765877 CCTATTACAT
Statistics
Matches: 646, Mismatches: 120, Indels: 110
0.74 0.14 0.13
Matches are distributed among these distances:
153 44 0.07
154 39 0.06
155 35 0.05
156 2 0.00
157 2 0.00
158 1 0.00
159 5 0.01
160 21 0.03
161 89 0.14
162 344 0.53
163 44 0.07
164 18 0.03
165 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (158 bp):
TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAATTTGTTCGAATGATTGAACTTGGTTTC
CATAGTTGATATGTGTGAAAAAGTTACATTTATGTCTGTTTAAGACTTTTTTTATGTTAAAAGCT
AAAAATGCAATTTTGCAATTATTTTTTA
Found at i:2767053 original size:32 final size:32
Alignment explanation
Indices: 2767011--2767105 Score: 90
Period size: 32 Copynumber: 3.0 Consensus size: 32
2767001 TATTTCTGGC
*
2767011 AAAAATGTTGCTAAATTTAGCAACATTTTTAG
1 AAAAACGTTGCTAAATTTAGCAACATTTTTAG
*
2767043 AAAAACGTTGCTAAATTAATG--ACATTTTTAG
1 AAAAACGTTGCTAAATTTA-GCAACATTTTTAG
* *
2767074 ATACAAACATTGTTAAA-TTAGCAA-ATTGTTTA
1 A-A-AAACGTTGCTAAATTTAGCAACATT-TTTA
2767106 TGTCTACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
31 12 0.23
32 23 0.44
33 17 0.33
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (32 bp):
AAAAACGTTGCTAAATTTAGCAACATTTTTAG
Found at i:2770673 original size:23 final size:23
Alignment explanation
Indices: 2770638--2770685 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2770628 TTTATTTCCC
*
2770638 TCTTGTCTATTCTTT-TGATTGCT
1 TCTTGTCCATTCTTTCTGATT-CT
*
2770661 TCTTGTCCCTTCTTTCTGATTCT
1 TCTTGTCCATTCTTTCTGATTCT
2770684 TC
1 TC
2770686 CTTTTGAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.06, C:0.25, G:0.10, T:0.58
Consensus pattern (23 bp):
TCTTGTCCATTCTTTCTGATTCT
Found at i:2775451 original size:15 final size:15
Alignment explanation
Indices: 2775408--2775470 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
2775398 GTTTTATTTT
* *
2775408 TAATTTATATATATG
1 TAATTAATATATATA
*
2775423 TGAATTAATTTATATA
1 T-AATTAATATATATA
*
2775439 TAATTCATATATATA
1 TAATTAATATATATA
* *
2775454 CAATTAAAATATATA
1 TAATTAATATATATA
2775469 TA
1 TA
2775471 TATATGTGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 26 0.68
16 12 0.32
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (15 bp):
TAATTAATATATATA
Found at i:2777010 original size:21 final size:21
Alignment explanation
Indices: 2776980--2777037 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
2776970 ATATTTTTTG
*
2776980 TATTAATAAATTATAATAATTA
1 TATT-ATAAATTATAATAAATA
* *
2777002 TAATT-TAAATAATTATAAATA
1 T-ATTATAAATTATAATAAATA
*
2777023 TATTATATATTATAA
1 TATTATAAATTATAA
2777038 ATCTAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 1 0.04
23 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTATAAATTATAATAAATA
Found at i:2778910 original size:188 final size:187
Alignment explanation
Indices: 2778561--2778983 Score: 473
Period size: 188 Copynumber: 2.2 Consensus size: 187
2778551 TTTCAGCCAG
* * * * *
2778561 AAATGCCTTCAATAATCCTTTACAAAAAAATTGAATGAGATTATTTAATGCATTTCTAGCTAAAA
1 AAATG-CTTGAATAATCCCTTAC--AAAAATTGAATGAGGTTATTCAAGGCATTTCTAGCTAAAA
** *
2778626 ACACAATCAATAATCCTCTTCAAAATTTATGAGGTGATTATTCAAGATATTTTTTCTTAAAAATG
63 ACACAATCAATAATCCTCTTCAAAATTTATGAAATGATTATTCAAGATATTTTTTCTAAAAAATG
* * * * *
2778691 CCTTGAATAATTTTCTTTAATTTTTTATTAGGGATTACTCAAGGCA-TTTTTGTT-TA-A
128 CATCGAATAATCTCCTCTAATTTTTTATTAGGGATTACTCAAGGCATTTTTTGTTCTAGA
*
2778748 TAAATGACTTGAATAATCCCTTACGAAAAATTGAATGGGGTTATTCAAGGCATTTCTAGCTAAAA
1 -AAATG-CTTGAATAATCCCTTAC-AAAAATTGAATGAGGTTATTCAAGGCATTTCTAGCTAAAA
* * ** * * *
2778813 GCGCCTTCAATAATCC-CTTTC-AATTTTTTGAAATGATTATTCCAGCCAT-TTTTTTGGC-AAA
63 ACACAATCAATAATCCTC-TTCAAAATTTATGAAATGATTATTCAAG--ATATTTTTT--CTAAA
* *
2778874 AAATGCATCGAATAATCTCCTCTAATTTTTTATTAGGGATTATTCAAGGCATTTTTTTTTCTAGA
123 AAATGCATCGAATAATCTCCTCTAATTTTTTATTAGGGATTACTCAAGGCATTTTTTGTTCTAGA
2778939 AAATGCTTTGAATAATCCCTTACAAAAATTGAATAGAGGTTATTC
1 AAATGC-TTGAATAATCCCTTACAAAAATTGAAT-GAGGTTATTC
2778984 TAGATGTTTC
Statistics
Matches: 199, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
186 20 0.10
187 57 0.29
188 69 0.35
189 20 0.10
190 32 0.16
191 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (187 bp):
AAATGCTTGAATAATCCCTTACAAAAATTGAATGAGGTTATTCAAGGCATTTCTAGCTAAAAACA
CAATCAATAATCCTCTTCAAAATTTATGAAATGATTATTCAAGATATTTTTTCTAAAAAATGCAT
CGAATAATCTCCTCTAATTTTTTATTAGGGATTACTCAAGGCATTTTTTGTTCTAGA
Found at i:2780508 original size:170 final size:170
Alignment explanation
Indices: 2780226--2780564 Score: 660
Period size: 170 Copynumber: 2.0 Consensus size: 170
2780216 CCCAAATCCA
2780226 TAAAGAAAAATTCAATAGATAGTAGATGAAAATAGTTCAAATGTTGTTTGGGTGCCTTAGATGGG
1 TAAAGAAAAATTCAATAGATAGTAGATGAAAATAGTTCAAATGTTGTTTGGGTGCCTTAGATGGG
2780291 ACATACATTAAAGTCAATGTTGGTGCAATTGGGTAGCATAGATATAGGACTAAGAAAAATGAAAT
66 ACATACATTAAAGTCAATGTTGGTGCAATTGGGTAGCATAGATATAGGACTAAGAAAAATGAAAT
2780356 TACTTCCAATATCCTTGGTGTTTACACCCTAGATACGTAT
131 TACTTCCAATATCCTTGGTGTTTACACCCTAGATACGTAT
*
2780396 TAAAGAAAAATTCAATAGATAGTAGATGAAAATAGTTCAAATGTTGTTTGGGTGTCTTAGATGGG
1 TAAAGAAAAATTCAATAGATAGTAGATGAAAATAGTTCAAATGTTGTTTGGGTGCCTTAGATGGG
2780461 ACATACATTAAAGTCAATGTTGGTGCAATTGGGTAGCATAGATATAGGACTAAGAAAAATGAAAT
66 ACATACATTAAAGTCAATGTTGGTGCAATTGGGTAGCATAGATATAGGACTAAGAAAAATGAAAT
*
2780526 TACTTCCAATATCCTTGGTGTTTGCACCCTAGATACGTA
131 TACTTCCAATATCCTTGGTGTTTACACCCTAGATACGTA
2780565 ATTCATATAT
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 167 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (170 bp):
TAAAGAAAAATTCAATAGATAGTAGATGAAAATAGTTCAAATGTTGTTTGGGTGCCTTAGATGGG
ACATACATTAAAGTCAATGTTGGTGCAATTGGGTAGCATAGATATAGGACTAAGAAAAATGAAAT
TACTTCCAATATCCTTGGTGTTTACACCCTAGATACGTAT
Found at i:2783495 original size:144 final size:143
Alignment explanation
Indices: 2783126--2783535 Score: 425
Period size: 146 Copynumber: 2.8 Consensus size: 143
2783116 ATAAATGGTA
* * * * ** *
2783126 AAATTACCAAAATACCCTTATAGTGGTATTTTCGTAATTTGACATTTCCAAGCTCATATTTTTAT
1 AAATTACCAAAATACCTTTACAGAGGTATTTTCGTAATTT-ACCTTTCCAAGCTCGGATTTTCAT
* * *
2783191 GAAACTTTATAGATCTTAATTTTATAATATTTCATGATTTTTTATGCATTTAAAATCACAGTAAT
65 GAAACTTT-CAGATCTTAA-TTTATAATATTTTATGATTTTTGATGCATTTAAAATCACAGTAAT
*
2783256 ACCCTCGAAAAGGGTG
128 ACCCTCGAAAAGGATG
** ** * *
2783272 AAATTACCAAAATACCTTT-CTAGAGGTATTTTTATAATTTGGCTTTCCCTAGCTCGGAATTTCA
1 AAATTACCAAAATACCTTTAC-AGAGGTATTTTCGTAATTTACCTTT-CCAAGCTCGGATTTTCA
** * *
2783336 CAAAACTTTCTAGATCTCAATTCTATAATGTTTTATGATTTTTGATGCATTTAAAATCACAGTAA
64 TGAAACTTTC-AGATCTTAATT-TATAATATTTTATGATTTTTGATGCATTTAAAATCACAGTAA
*
2783401 TA-CCT-GAAAAGTATG
127 TACCCTCGAAAAGGATG
* * * * *
2783416 AAATTACCAGAATACCTTTACAGGGGTATTTTCGTAATTTCACCTTTTCGAGTTCGGATTTTCAT
1 AAATTACCAAAATACCTTTACAGAGGTATTTTCGTAATTT-ACCTTTCCAAGCTCGGATTTTCAT
* * *
2783481 GAAATTTTGCAGATCTTAATTTCATAAAATTTTATGA-TTTTGGTGC-TTTAAAATC
65 GAAACTTT-CAGATCTTAATTT-ATAATATTTTATGATTTTTGATGCATTTAAAATC
2783536 CCAAAAATGA
Statistics
Matches: 217, Mismatches: 39, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
142 9 0.04
143 9 0.04
144 83 0.38
145 14 0.06
146 102 0.47
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (143 bp):
AAATTACCAAAATACCTTTACAGAGGTATTTTCGTAATTTACCTTTCCAAGCTCGGATTTTCATG
AAACTTTCAGATCTTAATTTATAATATTTTATGATTTTTGATGCATTTAAAATCACAGTAATACC
CTCGAAAAGGATG
Found at i:2783890 original size:27 final size:28
Alignment explanation
Indices: 2783841--2783905 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
2783831 AATAAAATTT
**
2783841 AAAAAAAAAAGGAAAGGAAGAAAA-AATGA
1 AAAAAAAAAAAAAAAGG-AGAAAAGAA-GA
2783870 AAAAAAAAAAAAAAAGG-GAAAAGAAGA
1 AAAAAAAAAAAAAAAGGAGAAAAGAAGA
*
2783897 AAGAAAAAA
1 AAAAAAAAA
2783906 GAAGCCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.47
28 2 0.06
29 15 0.47
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAAAAAAAGGAGAAAAGAAGA
Found at i:2785268 original size:3 final size:3
Alignment explanation
Indices: 2785253--2785300 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
2785243 TTATACTAGC
*
2785253 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2785301 TTTAAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2789221 original size:3 final size:3
Alignment explanation
Indices: 2789213--2789251 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
2789203 TATATCATAT
2789213 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2789252 ATTTTCGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2789282 original size:16 final size:15
Alignment explanation
Indices: 2789254--2789303 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 15
2789244 ATTATTATAT
2789254 TTTCGTTTCTTTTTTG
1 TTTC-TTTCTTTTTTG
*
2789270 TTTCTTTCTTTTTTCC
1 TTTCTTTCTTTTTT-G
2789286 TTTCTTTCCTTTTTTG
1 TTTCTTT-CTTTTTTG
2789302 TT
1 TT
2789304 CTAATTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.33
16 13 0.43
17 7 0.23
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTTTTG
Found at i:2789796 original size:18 final size:19
Alignment explanation
Indices: 2789773--2789809 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2789763 GATTAATTTT
2789773 TTGG-TTGAATTTTTTGAC
1 TTGGTTTGAATTTTTTGAC
2789791 TTGGTTTGAATTTTTTGAC
1 TTGGTTTGAATTTTTTGAC
2789810 GAGATTCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (19 bp):
TTGGTTTGAATTTTTTGAC
Found at i:2796229 original size:5 final size:5
Alignment explanation
Indices: 2796221--2796345 Score: 96
Period size: 5 Copynumber: 24.4 Consensus size: 5
2796211 ATATCACCAT
*
2796221 TATTA TATTA TTATTA TGATACTA TATTA TACTA TATTA TATTA TTATTA
1 TATTA TATTA -TATTA T-AT--TA TATTA TATTA TATTA TATTA -TATTA
* ** * *
2796271 TATTA TAGT- TATTA TA-GC TATTA TAATA -ATTA TTATTA TACTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA
*
2796319 TATTA TATTA TTATTA TAGT- TATTA TA
1 TATTA TATTA -TATTA TATTA TATTA TA
2796346 GTTGCTATAA
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
4 11 0.12
5 58 0.61
6 21 0.22
7 2 0.02
8 3 0.03
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:2796232 original size:3 final size:3
Alignment explanation
Indices: 2796219--2796344 Score: 64
Period size: 3 Copynumber: 45.7 Consensus size: 3
2796209 GTATATCACC
* * *
2796219 ATT ATT A-T ATT ATT ATT ATG A-T ACT A-T ATT A-T ACT A-T ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
2796261 ATT ATT ATT A-T ATT A-T AGTT ATT A-T AGCT ATT ATA ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT
*
2796305 ATT A-T ACT A-T ATT A-T ATT A-T ATT ATT ATT A-T AGTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT AT
2796345 AGTTGCTATA
Statistics
Matches: 101, Mismatches: 5, Indels: 34
0.72 0.04 0.24
Matches are distributed among these distances:
2 27 0.27
3 68 0.67
4 6 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:2796355 original size:59 final size:59
Alignment explanation
Indices: 2796245--2796359 Score: 187
Period size: 59 Copynumber: 1.9 Consensus size: 59
2796235 TATGATACTA
*
2796245 TATTATACTATATTATATTATTATTATATTATAGTTATTATAGCTATTATAATAATTAT
1 TATTATACTATATTATATTATTATTATATTATAGTTATTATAGCTACTATAATAATTAT
* *
2796304 TATTATACTATATTATATTA-TATTATTATTATAGTTATTATAGTTGCTATAATAAT
1 TATTATACTATATTATATTATTATTA-TATTATAGTTATTATAGCTACTATAATAAT
2796360 AATAATAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 5 0.10
59 47 0.90
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.54
Consensus pattern (59 bp):
TATTATACTATATTATATTATTATTATATTATAGTTATTATAGCTACTATAATAATTAT
Found at i:2796830 original size:21 final size:20
Alignment explanation
Indices: 2796771--2796831 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
2796761 TTTAGGAATC
2796771 CTAGGTTTGATTTGA-TGTTT
1 CTAGGTTTGATTTGAGT-TTT
*
2796791 CTAGGTTTGATTTGGGTTTT
1 CTAGGTTTGATTTGAGTTTT
*
2796811 CTGAGGTTTGATTTAAGTTTT
1 CT-AGGTTTGATTTGAGTTTT
2796832 TGGAGAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.15, C:0.05, G:0.26, T:0.54
Consensus pattern (20 bp):
CTAGGTTTGATTTGAGTTTT
Found at i:2797424 original size:34 final size:36
Alignment explanation
Indices: 2797386--2797465 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 36
2797376 CAATTATATA
*
2797386 AAAAAAACCTTTTCAAATAAG-TT-AAAAAAAAAAC
1 AAAAAAACATTTTCAAATAAGCTTCAAAAAAAAAAC
* * *
2797420 AAAAAAAAATTTTCAAATAAGTCTTCAAAATAAAAAT
1 AAAAAAACATTTTCAAATAAG-CTTCAAAAAAAAAAC
2797457 AAAAAAACA
1 AAAAAAACA
2797466 AATAAAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 19 0.50
36 2 0.05
37 17 0.45
ACGTcount: A:0.66, C:0.10, G:0.03, T:0.21
Consensus pattern (36 bp):
AAAAAAACATTTTCAAATAAGCTTCAAAAAAAAAAC
Found at i:2797461 original size:36 final size:34
Alignment explanation
Indices: 2797383--2797463 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 34
2797373 AAACAATTAT
2797383 ATAAAAAAAACCTTTTCAAATAAGTTAAAAAAAAA
1 ATAAAAAAAA-CTTTTCAAATAAGTTAAAAAAAAA
* * *
2797418 ACAAAAAAAAATTTTCAAATAAGTCTTCAAAATAAAA
1 ATAAAAAAAACTTTTCAAATAAG--TT-AAAAAAAAA
2797455 ATAAAAAAA
1 ATAAAAAAA
2797464 CAAATAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 12 0.31
35 9 0.23
36 2 0.05
37 16 0.41
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (34 bp):
ATAAAAAAAACTTTTCAAATAAGTTAAAAAAAAA
Found at i:2797548 original size:18 final size:17
Alignment explanation
Indices: 2797504--2797564 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
2797494 ATATTTATAA
2797504 AAATAAAGAAATCCTTTC
1 AAATAAA-AAATCCTTTC
* *
2797522 AATAAAAAAAATCTTTTTC
1 AA-ATAAAAAATC-CTTTC
*
2797541 AAAT-AAAAATCCTTATA
1 AAATAAAAAATCCTT-TC
2797558 AAATAAA
1 AAATAAA
2797565 TTCATGAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.06
17 12 0.35
18 10 0.29
19 10 0.29
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATAAAAAATCCTTTC
Found at i:2798794 original size:15 final size:14
Alignment explanation
Indices: 2798774--2798809 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
2798764 TTTTTATATG
2798774 CATGCATTCATGCAT
1 CATGCATTCATGC-T
*
2798789 CATGCATTCATTCT
1 CATGCATTCATGCT
2798803 CATGCAT
1 CATGCAT
2798810 AATCTGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (14 bp):
CATGCATTCATGCT
Found at i:2802608 original size:51 final size:51
Alignment explanation
Indices: 2802552--2802651 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
2802542 TTGTATCTTT
* * *
2802552 GCAAATCT-AAAACCTTTGCAAAACTTGGAATCTTGCGAATCTTTCTTTCCC
1 GCAAATCTGAAAACCTTTAC-AAACTTGAAATCTTACGAATCTTTCTTTCCC
** *
2802603 GCAAATCTGAAAGTCTTTACAAACTTGAAATCTTATGAATCTTTCTTTC
1 GCAAATCTGAAAACCTTTACAAACTTGAAATCTTACGAATCTTTCTTTC
2802652 TTGTGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 34 0.81
52 8 0.19
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (51 bp):
GCAAATCTGAAAACCTTTACAAACTTGAAATCTTACGAATCTTTCTTTCCC
Found at i:2802725 original size:17 final size:17
Alignment explanation
Indices: 2802678--2802714 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2802668 CATTGCGAAC
*
2802678 CTAAGACCTTTGTAAAT
1 CTAAAACCTTTGTAAAT
2802695 CTAAAAACCTTTGTAAAT
1 CT-AAAACCTTTGTAAAT
2802713 CT
1 CT
2802715 TAACTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (17 bp):
CTAAAACCTTTGTAAAT
Found at i:2803319 original size:120 final size:120
Alignment explanation
Indices: 2802991--2803323 Score: 312
Period size: 120 Copynumber: 2.8 Consensus size: 120
2802981 CGATCACTCG
* * * * ** *
2802991 ATCTTGGCTTAGTCCAGATCATTTCTTATGACTCATGGTTTTGT-CTTGATCATTCCTTTTTTAC
1 ATCTTGGCTCAGTCCAGATCATTTCTTATGACTCATGGTTTTATCCTAG-TAATTTATTTTTAAC
* * * * * * * *
2803055 CTTAACTCGATCCTGGTCACTTCATTTTTTACATGTGGTTTCGTCTCAGTCGCTTG
65 CTTGACTTGATCCTGGTCACTTCATTTTTGACATATGGTTTCATCTCAGTCACCTA
* * * ** ** *
2803111 ATCTTGGCTCAATCCAAATCATTTCTTATGACTCATGATTTTATCCCGGTTGTTTATTTTCAACC
1 ATCTTGGCTCAGTCCAGATCATTTCTTATGACTCATGGTTTTATCCTAGTAATTTATTTTTAACC
* * ***
2803176 TTGACTTGGTCCTGATTGTTTCATTTTTGAC-TCATGGTTTCATC-CTAGTCACCTA
66 TTGACTTGATCCTGGTCACTTCATTTTTGACAT-ATGGTTTCATCTC-AGTCACCTA
** * *
2803231 ATCTTGGCTCAGTCTGGATCATTTCTTATGACTCATGGTTTTATCCTAGTAATTTATTTTTGATC
1 ATCTTGGCTCAGTCCAGATCATTTCTTATGACTCATGGTTTTATCCTAGTAATTTATTTTTAACC
* *
2803296 TCGACTTGATCATGGTCACTTCATTTTT
66 TTGACTTGATCCTGGTCACTTCATTTTT
2803324 TTAACTTGCG
Statistics
Matches: 165, Mismatches: 45, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
119 2 0.01
120 161 0.98
121 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (120 bp):
ATCTTGGCTCAGTCCAGATCATTTCTTATGACTCATGGTTTTATCCTAGTAATTTATTTTTAACC
TTGACTTGATCCTGGTCACTTCATTTTTGACATATGGTTTCATCTCAGTCACCTA
Found at i:2803707 original size:3 final size:3
Alignment explanation
Indices: 2803699--2803790 Score: 72
Period size: 3 Copynumber: 32.3 Consensus size: 3
2803689 AGTATATCAC
*
2803699 TAT TAT TA- TAT TAT TAT TAT TA- TAC TA- TAT TA- TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
2803742 TAT TA- TAGT TATT TAT AAT AAT AAT TAT TAT TGT TAT TAT TAT T-T
1 TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2803787 TAT T
1 TAT T
2803791 TATTTTTTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
2 14 0.18
3 57 0.75
4 5 0.07
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2803710 original size:5 final size:5
Alignment explanation
Indices: 2803678--2803758 Score: 58
Period size: 5 Copynumber: 15.4 Consensus size: 5
2803668 TTATTACTAG
* * * *
2803678 TATTA TAGTA TAGTA TATCA CTATTA T-TATA TTATTA TTATTA TACTA
1 TATTA TATTA TATTA TATTA -TATTA TAT-TA -TATTA -TATTA TATTA
2803726 TATTA TATTA TATTA TTATTA TAGTTA T-TTA TA
1 TATTA TATTA TATTA -TATTA TA-TTA TATTA TA
2803759 ATAATAATTA
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 5 0.08
5 35 0.56
6 22 0.35
7 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:2804189 original size:19 final size:21
Alignment explanation
Indices: 2804152--2804211 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
2804142 TTGGGGAATC
2804152 CTAGGTTA-ATTTGAAGTTTT
1 CTAGGTTAGATTTGAAGTTTT
*
2804172 -TAGGTTAGATTTG-GGTTTT
1 CTAGGTTAGATTTGAAGTTTT
*
2804191 CTGAGGTTTGATTT-AAGTTTT
1 CT-AGGTTAGATTTGAAGTTTT
2804212 AGAAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.36
20 6 0.18
21 15 0.45
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (21 bp):
CTAGGTTAGATTTGAAGTTTT
Found at i:2804304 original size:19 final size:19
Alignment explanation
Indices: 2804280--2804329 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2804270 ATCTGGGTTT
2804280 GGATGAATTTTTCAGTGGA
1 GGATGAATTTTTCAGTGGA
*
2804299 GGATGAATTTTTCATTGGA
1 GGATGAATTTTTCAGTGGA
*
2804318 GAATGAATTTTT
1 GGATGAATTTTT
2804330 TGATTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (19 bp):
GGATGAATTTTTCAGTGGA
Found at i:2804339 original size:13 final size:13
Alignment explanation
Indices: 2804321--2804345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2804311 CATTGGAGAA
2804321 TGAATTTTTTGAT
1 TGAATTTTTTGAT
2804334 TGAATTTTTTGA
1 TGAATTTTTTGA
2804346 CGAGGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
TGAATTTTTTGAT
Found at i:2808099 original size:29 final size:29
Alignment explanation
Indices: 2808027--2808099 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 29
2808017 GAGAAATGAA
2808027 AAAAAAATAAAAAAAATGTGTGTAAAAAC
1 AAAAAAATAAAAAAAATGTGTGTAAAAAC
*
2808056 AACAAAAAAACAAAAAAAT-T-TGTAAAAAC
1 AA-AAAAATA-AAAAAAATGTGTGTAAAAAC
2808085 AAAAAGAAGTAAAAA
1 AAAAA-AA-TAAAAA
2808100 GAAAAAAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 3 0.08
29 19 0.50
30 8 0.21
31 8 0.21
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (29 bp):
AAAAAAATAAAAAAAATGTGTGTAAAAAC
Found at i:2808114 original size:16 final size:17
Alignment explanation
Indices: 2808085--2808117 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2808075 TTGTAAAAAC
*
2808085 AAAAAGAAGTAAAAAGA
1 AAAAAGAAGAAAAAAGA
2808102 AAAAAG-AGAAAAAAGA
1 AAAAAGAAGAAAAAAGA
2808118 GGAAAAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGAAGAAAAAAGA
Found at i:2809781 original size:87 final size:85
Alignment explanation
Indices: 2809438--2809780 Score: 323
Period size: 86 Copynumber: 4.0 Consensus size: 85
2809428 AGTCCTTGCA
* *
2809438 TTTGTGAATCTAGAACCTTTGCAAAACTTGAAATCTTATGAATCTTTCTTTCTTATGAATCTGAA
1 TTTGCGAATCTAGAACCTTTGCGAAACTTGAAATCTTATGAATCTTTCTTTCTTATGAATCTGAA
* * *
2809503 AGTCCTTGTGAACTTTGCATC
66 AGTCCTTGCGAAC-CTGAATC
* * * * * *** *
2809524 TTTACGAATCTAGAACCTTTGTGAAACTT-AGAATTTTGTGAATATTTCTTTCTTGCAAATCTAA
1 TTTGCGAATCTAGAACCTTTGCGAAACTTGA-AATCTTATGAATCTTTCTTTCTTATGAATCTGA
* * *
2809588 AAGTCTTTGTGAACCTTGCATC
65 AAGTCCTTGCGAACC-TGAATC
* * * * *
2809610 TTTGCAAATCATAGAACCTTTGTGAAACTTGAAATCTTGTAAATCTTT-TTTTTTATGAAT-TGA
1 TTTGCGAATC-TAGAACCTTTGCGAAACTTGAAATCTTATGAATCTTTCTTTCTTATGAATCTG-
* * *
2809673 AAAGTCTTTTGCAAACTTGAAAATC
64 AAAGTC-CTTGCGAACCTG--AATC
* * * *
2809698 TTTGCGAATCTAGAACCTTTGCGAAGCTTGAAATCTTACGAATCTTTCTTTCCTGTGAATCTGAA
1 TTTGCGAATCTAGAACCTTTGCGAAACTTGAAATCTTATGAATCTTTCTTTCTTATGAATCTGAA
*
2809763 AGTCCTTACGAACCTGAA
66 AGTCCTTGCGAACCTGAA
2809781 ACCTTTACGA
Statistics
Matches: 207, Mismatches: 40, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
85 4 0.02
86 94 0.45
87 79 0.38
88 28 0.14
89 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (85 bp):
TTTGCGAATCTAGAACCTTTGCGAAACTTGAAATCTTATGAATCTTTCTTTCTTATGAATCTGAA
AGTCCTTGCGAACCTGAATC
Found at i:2813906 original size:11 final size:11
Alignment explanation
Indices: 2813890--2813929 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2813880 CAATCTTTTG
2813890 TCTATTAGTTT
1 TCTATTAGTTT
*
2813901 TCTATTGGTTT
1 TCTATTAGTTT
2813912 TCTATTAAGTTT
1 TCTATT-AGTTT
2813924 T-TATTA
1 TCTATTA
2813930 TTCTCAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 1 0.04
11 20 0.77
12 5 0.19
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.62
Consensus pattern (11 bp):
TCTATTAGTTT
Found at i:2816508 original size:14 final size:13
Alignment explanation
Indices: 2816475--2816508 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
2816465 TAAGATTGAA
2816475 TAAA-TAATTTTT
1 TAAATTAATTTTT
2816487 TAAATTAATTTTT
1 TAAATTAATTTTT
2816500 TAAAGTTAA
1 TAAA-TTAA
2816509 AAGGGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 12 0.60
14 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TAAATTAATTTTT
Found at i:2817255 original size:21 final size:23
Alignment explanation
Indices: 2817211--2817257 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
2817201 TTAAAAAAAA
*
2817211 AAAAAACTTTTTTAATGTAATAG
1 AAAAAACTTATTTAATGTAATAG
*
2817234 AAAAAAC-TATTTAAT-TATTAG
1 AAAAAACTTATTTAATGTAATAG
2817255 AAA
1 AAA
2817258 CGTGTTGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 7 0.32
23 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
AAAAAACTTATTTAATGTAATAG
Found at i:2818075 original size:14 final size:14
Alignment explanation
Indices: 2818049--2818104 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
2818039 AATATAGCAT
2818049 AATTTTT-AGAAATA
1 AATTTTTGA-AAATA
2818063 AATTTTTGAAAATCTA
1 AATTTTTGAAAA--TA
* * *
2818079 TATTCTCGAAAATA
1 AATTTTTGAAAATA
2818093 AATTTTTGAAAA
1 AATTTTTGAAAA
2818105 CTTAAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 21 0.64
15 1 0.03
16 11 0.33
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTTTTGAAAATA
Found at i:2818527 original size:25 final size:23
Alignment explanation
Indices: 2818498--2818567 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 23
2818488 GGAATTTTCT
2818498 TGAAAATATTTATAAATTAATATAA
1 TGAAAA-ATTTATAAATTAATA-AA
2818523 TGAAAAATGTTAT-AATTAA-AAA
1 TGAAAAAT-TTATAAATTAATAAA
*
2818545 TAATAAAATTTA-AAATTAATAAA
1 TGA-AAAATTTATAAATTAATAAA
2818568 AAATTTACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 13 0.32
23 9 0.22
24 8 0.20
25 10 0.25
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TGAAAAATTTATAAATTAATAAA
Found at i:2818557 original size:16 final size:16
Alignment explanation
Indices: 2818538--2818568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2818528 AATGTTATAA
2818538 TTAAAAATAATAAAAT
1 TTAAAAATAATAAAAT
*
2818554 TTAAAATTAATAAAA
1 TTAAAAATAATAAAA
2818569 AATTTACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAAATAATAAAAT
Found at i:2821817 original size:15 final size:14
Alignment explanation
Indices: 2821797--2821832 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
2821787 TTTTTATATG
2821797 CATGCATTCATGCAT
1 CATGCATTCATGC-T
*
2821812 CATGCATTCATTCT
1 CATGCATTCATGCT
2821826 CATGCAT
1 CATGCAT
2821833 AATCTGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (14 bp):
CATGCATTCATGCT
Found at i:2825418 original size:25 final size:26
Alignment explanation
Indices: 2825390--2825441 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
2825380 TATCATCCCG
2825390 GTCAT-TCATTTT-TTACCTTGACTCA
1 GTCATGTCATTTTATT-CCTTGACTCA
*
2825415 GTCATGGTCATTTTATTTCTTGACTCA
1 GTCAT-GTCATTTTATTCCTTGACTCA
2825442 TGGTTCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
27 16 0.70
28 2 0.09
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (26 bp):
GTCATGTCATTTTATTCCTTGACTCA
Found at i:2826713 original size:5 final size:5
Alignment explanation
Indices: 2826705--2826762 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
2826695 AGTATATCAC
* *
2826705 TATAT TATA- T-TAT TATTAT TATAC TATAT TATAT TATAT TATTAT TATAG
1 TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TA-TAT TATAT
2826755 T-TAT TATA
1 TATAT TATA
2826763 ATAATAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
3 2 0.05
4 5 0.11
5 27 0.61
6 10 0.23
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:2826720 original size:3 final size:3
Alignment explanation
Indices: 2826707--2826791 Score: 67
Period size: 3 Copynumber: 30.3 Consensus size: 3
2826697 TATATCACTA
*
2826707 TAT TA- TAT TAT TAT TAT TA- TAC TA- TAT TA- TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
2826750 TA- TAGT TAT TAT AAT AAT AAT TAT TAT TGT TAT TAT T-T TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2826792 TTTTTCTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
2 14 0.20
3 54 0.77
4 2 0.03
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:2827218 original size:21 final size:19
Alignment explanation
Indices: 2827160--2827222 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 19
2827150 TGGGGAATCC
*
2827160 TAGGTTTAATTTGAAGTTTT
1 TAGGTTTGATTT-AAGTTTT
* **
2827180 TAGGTTAGATTTGGGTTTT
1 TAGGTTTGATTTAAGTTTT
2827199 CTGAGGTTTGATTTAAGTTTT
1 -T-AGGTTTGATTTAAGTTTT
2827220 TAG
1 TAG
2827223 AAAATTTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.21
20 12 0.35
21 15 0.44
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.52
Consensus pattern (19 bp):
TAGGTTTGATTTAAGTTTT
Found at i:2827313 original size:19 final size:19
Alignment explanation
Indices: 2827289--2827338 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2827279 ATCTGGGTTT
2827289 GGATGAATTTTTCAGTGGA
1 GGATGAATTTTTCAGTGGA
*
2827308 GGATGAATTTTTCATTGGA
1 GGATGAATTTTTCAGTGGA
*
2827327 GAATGAATTTTT
1 GGATGAATTTTT
2827339 TGATTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (19 bp):
GGATGAATTTTTCAGTGGA
Done.