Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 14 of 172
Found at i:4412781 original size:28 final size:28
Alignment explanation
Indices: 4412746--4412835 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
4412736 AAAAAGTGAA
* *
4412746 AATAACGAAAAGCACCTAGGTGCAAAAT
1 AATAACGAAAAGCACCAAAGTGCAAAAT
* *
4412774 AATAACGATAAGCACCAAAGTGCAAATT
1 AATAACGAAAAGCACCAAAGTGCAAAAT
** * * *
4412802 TTTGCAACGATAAGCACCGAAGTGTAAAAT
1 AAT--AACGAAAAGCACCAAAGTGCAAAAT
4412832 AATA
1 AATA
4412836 CGATAAGTGC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 26 0.53
30 23 0.47
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (28 bp):
AATAACGAAAAGCACCAAAGTGCAAAAT
Found at i:4419632 original size:23 final size:22
Alignment explanation
Indices: 4419601--4419646 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4419591 AACAATATTA
*
4419601 TTTAAATTT-TTATATGTATTTT
1 TTTAAATTTATT-TAGGTATTTT
4419623 TTTAGAATTTATTTAGGTATTTT
1 TTTA-AATTTATTTAGGTATTTT
4419646 T
1 T
4419647 CTTTATCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 15 0.71
24 2 0.10
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (22 bp):
TTTAAATTTATTTAGGTATTTT
Found at i:4420064 original size:11 final size:11
Alignment explanation
Indices: 4420044--4420081 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4420034 GTAGCTAGAC
4420044 AAATATAAAAA
1 AAATATAAAAA
*
4420055 AAAT-TCAAAAG
1 AAATAT-AAAAA
4420066 AAATATAAAAA
1 AAATATAAAAA
4420077 AAATA
1 AAATA
4420082 AGTTCAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.04
11 21 0.91
12 1 0.04
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATATAAAAA
Found at i:4420354 original size:29 final size:30
Alignment explanation
Indices: 4420318--4420374 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4420308 AATTATATTT
4420318 TAATTATTTAAT-TT-TTAAAAGTTACATAA
1 TAATTA-TTAATGTTATTAAAAGTTACATAA
*
4420347 TAATTATTAATGTTATTAAATGTTACAT
1 TAATTATTAATGTTATTAAAAGTTACAT
4420375 TTTTGTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 8 0.32
30 12 0.48
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (30 bp):
TAATTATTAATGTTATTAAAAGTTACATAA
Found at i:4426930 original size:382 final size:382
Alignment explanation
Indices: 4426224--4426986 Score: 1517
Period size: 382 Copynumber: 2.0 Consensus size: 382
4426214 CTATGAATAC
4426224 AAATTGAAGTGTTAAAAATGTCTCCAAAATCATTAAGAATTCTTTTGAGGTAGAAATTTCTATGA
1 AAATTGAAGTGTTAAAAATGTCTCCAAAATCATTAAGAATTCTTTTGAGGTAGAAATTTCTATGA
4426289 TTGGATTTAGTTAAGAAGGAATTTTCAATGTTTTTAAGCAACCTTTCGTCTTACTTTGTACTTGT
66 TTGGATTTAGTTAAGAAGGAATTTTCAATGTTTTTAAGCAACCTTTCGTCTTACTTTGTACTTGT
4426354 ATGTTAATGAAATGTTTTGGAATGGTTTTAGTGTGTTTTCAATTTGATTTTAAAGTTCCTTGCCT
131 ATGTTAATGAAATGTTTTGGAATGGTTTTAGTGTGTTTTCAATTTGATTTTAAAGTTCCTTGCCT
4426419 TAAGTCTCGTGACATGGAATCTATGTCTCCAGACTTGCATGTTTTTAGGCTTAATTTTTGCACCA
196 TAAGTCTCGTGACATGGAATCTATGTCTCCAGACTTGCATGTTTTTAGGCTTAATTTTTGCACCA
4426484 AGGGTCTAGTGTCTCGAGACATAAACCCTGTCTCAAGATATAAAACATCGAAACTAAAATTCGAC
261 AGGGTCTAGTGTCTCGAGACATAAACCCTGTCTCAAGATATAAAACATCGAAACTAAAATTCGAC
4426549 AGTAACTAAGGTCATGTCTCGTGACATAAGGACCAAAGTCTTGAGACATAAGAGCCT
326 AGTAACTAAGGTCATGTCTCGTGACATAAGGACCAAAGTCTTGAGACATAAGAGCCT
*
4426606 AAATTGAAGTGTTCAAAATGTCTCCAAAATCATTAAGAATTCTTTTGAGGTAGAAATTTCTATGA
1 AAATTGAAGTGTTAAAAATGTCTCCAAAATCATTAAGAATTCTTTTGAGGTAGAAATTTCTATGA
4426671 TTGGATTTAGTTAAGAAGGAATTTTCAATGTTTTTAAGCAACCTTTCGTCTTACTTTGTACTTGT
66 TTGGATTTAGTTAAGAAGGAATTTTCAATGTTTTTAAGCAACCTTTCGTCTTACTTTGTACTTGT
4426736 ATGTTAATGAAATGTTTTGGAATGGTTTTAGTGTGTTTTCAATTTGATTTTAAAGTTCCTTGCCT
131 ATGTTAATGAAATGTTTTGGAATGGTTTTAGTGTGTTTTCAATTTGATTTTAAAGTTCCTTGCCT
4426801 TAAGTCTCGTGACATGGAATCTATGTCTCCAGACTTGCATGTTTTTAGGCTTAATTTTTGCACCA
196 TAAGTCTCGTGACATGGAATCTATGTCTCCAGACTTGCATGTTTTTAGGCTTAATTTTTGCACCA
4426866 AGGGTCTAGTGTCTCGAGACATAAACCCTGTCTCAAGATATAAAACATCGAAACTAAAATTCGAC
261 AGGGTCTAGTGTCTCGAGACATAAACCCTGTCTCAAGATATAAAACATCGAAACTAAAATTCGAC
4426931 AGTAACTAAGGTCATGTCTCGTGACATAAGGACCAAAGTCTTGAGACATAAGAGCC
326 AGTAACTAAGGTCATGTCTCGTGACATAAGGACCAAAGTCTTGAGACATAAGAGCC
4426987 AATGTCTCAA
Statistics
Matches: 380, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
382 380 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (382 bp):
AAATTGAAGTGTTAAAAATGTCTCCAAAATCATTAAGAATTCTTTTGAGGTAGAAATTTCTATGA
TTGGATTTAGTTAAGAAGGAATTTTCAATGTTTTTAAGCAACCTTTCGTCTTACTTTGTACTTGT
ATGTTAATGAAATGTTTTGGAATGGTTTTAGTGTGTTTTCAATTTGATTTTAAAGTTCCTTGCCT
TAAGTCTCGTGACATGGAATCTATGTCTCCAGACTTGCATGTTTTTAGGCTTAATTTTTGCACCA
AGGGTCTAGTGTCTCGAGACATAAACCCTGTCTCAAGATATAAAACATCGAAACTAAAATTCGAC
AGTAACTAAGGTCATGTCTCGTGACATAAGGACCAAAGTCTTGAGACATAAGAGCCT
Found at i:4429556 original size:19 final size:20
Alignment explanation
Indices: 4429532--4429579 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4429522 ATCTCACAAC
4429532 TAATTTTAAT-TAATCACTA
1 TAATTTTAATATAATCACTA
*
4429551 TAATTTTTAATATTATCACTA
1 TAA-TTTTAATATAATCACTA
*
4429572 CAATTTTA
1 TAATTTTA
4429580 TCTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTTAATATAATCACTA
Found at i:4429558 original size:20 final size:21
Alignment explanation
Indices: 4429535--4429578 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4429525 TCACAACTAA
*
4429535 TTTTAAT-TAATCACTATAAT
1 TTTTAATATAATCACTACAAT
*
4429555 TTTTAATATTATCACTACAAT
1 TTTTAATATAATCACTACAAT
4429576 TTT
1 TTT
4429579 ATCTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTAATATAATCACTACAAT
Found at i:4429829 original size:25 final size:25
Alignment explanation
Indices: 4429799--4429855 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
4429789 ATGTTTTGGA
4429799 TAAAAAAGTAAATTAATATTTTA-TGT
1 TAAAAAA-TAAATTAAT-TTTTATTGT
**
4429825 TAAAAAATTTATTAATTTTTATTGT
1 TAAAAAATAAATTAATTTTTATTGT
4429850 TAAAAA
1 TAAAAA
4429856 CTAGTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 5 0.18
25 16 0.57
26 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (25 bp):
TAAAAAATAAATTAATTTTTATTGT
Found at i:4431643 original size:3 final size:3
Alignment explanation
Indices: 4431635--4431673 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4431625 GGTTTTGCTT
4431635 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4431674 GCAATTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:4440224 original size:10 final size:10
Alignment explanation
Indices: 4440209--4440261 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
4440199 TATTTGTTAG
4440209 AAATTATATA
1 AAATTATATA
4440219 AAATTATATA
1 AAATTATATA
*
4440229 TAAATCAT-TA
1 -AAATTATATA
*
4440239 AAATGATA-A
1 AAATTATATA
4440248 AAATT-TATA
1 AAATTATATA
4440257 AAATT
1 AAATT
4440262 TTAAAAGGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 2 0.05
9 17 0.46
10 12 0.32
11 6 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
AAATTATATA
Found at i:4440332 original size:14 final size:13
Alignment explanation
Indices: 4440315--4440348 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4440305 TTTTTAATAA
4440315 TTTATATAATCTTT
1 TTTATA-AATCTTT
*
4440329 TTTATAATTCTTT
1 TTTATAAATCTTT
4440342 TTTATAA
1 TTTATAA
4440349 TTTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATAAATCTTT
Found at i:4440342 original size:13 final size:13
Alignment explanation
Indices: 4440319--4440350 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4440309 TAATAATTTA
4440319 TATAA-TCTTTTT
1 TATAATTCTTTTT
4440331 TATAATTCTTTTT
1 TATAATTCTTTTT
4440344 TATAATT
1 TATAATT
4440351 TTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (13 bp):
TATAATTCTTTTT
Found at i:4452260 original size:3 final size:3
Alignment explanation
Indices: 4452252--4452281 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4452242 ATTACTTGAG
4452252 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
4452282 TAAGACGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4456891 original size:27 final size:26
Alignment explanation
Indices: 4456853--4456926 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
4456843 AAGTAACACA
*
4456853 GCAAAGCTACCAGTATCAGTATATATG
1 GCAAAGCCACCAGTA-CAGTATATATG
*
4456880 GCAAAGCCACCATTAACAGTATATATG
1 GCAAAGCCACCAGT-ACAGTATATATG
4456907 GCAAAGCCACCAGTACAGTA
1 GCAAAGCCACCAGTACAGTA
4456927 CACTTCCTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (26 bp):
GCAAAGCCACCAGTACAGTATATATG
Found at i:4457550 original size:16 final size:16
Alignment explanation
Indices: 4457529--4457563 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4457519 AAGGGCATTC
4457529 TTTCGACTTTTCAGCT
1 TTTCGACTTTTCAGCT
4457545 TTTCGACTTTTCAGCT
1 TTTCGACTTTTCAGCT
4457561 TTT
1 TTT
4457564 GCCGTTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.54
Consensus pattern (16 bp):
TTTCGACTTTTCAGCT
Found at i:4460104 original size:36 final size:37
Alignment explanation
Indices: 4460030--4460107 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
4460020 TGATGGAAAA
*
4460030 TGATTATTTGTTGATAGATTATCTTTTTTTTATAAAG
1 TGATTATTTGTTGATAGATTATCTTTGTTTTATAAAG
4460067 TGATTATTTGTTGATAGATTATC-TTGTTTTATAAAG
1 TGATTATTTGTTGATAGATTATCTTTGTTTTATAAAG
4460103 TGATT
1 TGATT
4460108 TTTAGTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (37 bp):
TGATTATTTGTTGATAGATTATCTTTGTTTTATAAAG
Found at i:4460754 original size:43 final size:45
Alignment explanation
Indices: 4460665--4460780 Score: 134
Period size: 43 Copynumber: 2.7 Consensus size: 45
4460655 TGTGATTACA
* *
4460665 TGTAAGACCATGTCTGGGACATTGGCAT--TATATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
*
4460708 TGTAAGACTATGTCTGGGACATTGGCATCGT-TAATCA-ATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTAT-G
* * *
4460751 TGTAAGACCCTATCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
4460781 ATATGTGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 57 0.90
44 4 0.06
45 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
Found at i:4460819 original size:24 final size:24
Alignment explanation
Indices: 4460787--4460832 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
4460777 ATCGATATGT
4460787 GATAACATGTAAGACCATAAATGG
1 GATAACATGTAAGACCATAAATGG
4460811 GATAACATGTAAGACCATAAAT
1 GATAACATGTAAGACCATAAAT
4460833 CTATATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (24 bp):
GATAACATGTAAGACCATAAATGG
Found at i:4467231 original size:47 final size:47
Alignment explanation
Indices: 4467180--4467356 Score: 220
Period size: 47 Copynumber: 3.8 Consensus size: 47
4467170 TGGTTGAACA
*
4467180 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
4467227 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
4467274 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* *
4467320 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4467357 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.04
45 1 0.01
46 38 0.34
47 58 0.52
48 3 0.03
50 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:4469434 original size:39 final size:39
Alignment explanation
Indices: 4469390--4469466 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
4469380 AATTGATAAA
* * *
4469390 TTAAGGGTAAAATTGGAATATTGCAAAATTAACTAAATT
1 TTAAGGGCAAAATAGGAATATTACAAAATTAACTAAATT
*
4469429 TTAAGGGCAAAATAGGAATATTACATAATTAACTAAAT
1 TTAAGGGCAAAATAGGAATATTACAAAATTAACTAAAT
4469467 AAATATAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.31
Consensus pattern (39 bp):
TTAAGGGCAAAATAGGAATATTACAAAATTAACTAAATT
Found at i:4474386 original size:28 final size:27
Alignment explanation
Indices: 4474327--4474386 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
4474317 TCTGCTATTG
*
4474327 TATTTGATTGGGCTAAGGCCCAAACTA
1 TATTTGAATGGGCTAAGGCCCAAACTA
* * **
4474354 AATTTGTAATGGGCTCAGGCCCAGCCTA
1 TATTTG-AATGGGCTAAGGCCCAAACTA
4474382 TATTT
1 TATTT
4474387 AACTGTATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (27 bp):
TATTTGAATGGGCTAAGGCCCAAACTA
Found at i:4475121 original size:4 final size:4
Alignment explanation
Indices: 4475095--4475152 Score: 57
Period size: 4 Copynumber: 14.0 Consensus size: 4
4475085 CAAGCTAAGG
*
4475095 AGAA AGAGA AG-A AGAA TGAA AGAA AGAA AGAA AGAAA AGAAA AGAA A-AA
1 AGAA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AG-AA AGAA AGAA
4475144 AGAA GAGAA
1 AGAA -AGAA
4475153 GAAGGGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
3 6 0.13
4 25 0.53
5 16 0.34
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:4478410 original size:54 final size:54
Alignment explanation
Indices: 4478295--4478414 Score: 154
Period size: 54 Copynumber: 2.2 Consensus size: 54
4478285 GTTCCAAGTT
* * *
4478295 AGTGAATTACATGGCCTAGCACACGGCCTGGCACACGAGCGTGTGTGGCAACTC
1 AGTGAGTTACATAGCCTAGCACACGACCTGGCACACGAGCGTGTGTGGCAACTC
** *
4478349 AAAGAGTTACATAGCCTAGCACACGACCTGGCACAC-AG-GTGTGTGGGGCATCTC
1 AGTGAGTTACATAGCCTAGCACACGACCTGGCACACGAGCGTGTGT--GGCAACTC
4478403 AGTGAGTTACAT
1 AGTGAGTTACAT
4478415 GGGTGAGGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 6 0.11
53 2 0.04
54 48 0.86
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (54 bp):
AGTGAGTTACATAGCCTAGCACACGACCTGGCACACGAGCGTGTGTGGCAACTC
Found at i:4481991 original size:22 final size:22
Alignment explanation
Indices: 4481965--4482006 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4481955 AATTCCTGAA
4481965 TATATCTTAATAATCAACAGGG
1 TATATCTTAATAATCAACAGGG
* *
4481987 TATATTTTGATAATCAACAG
1 TATATCTTAATAATCAACAG
4482007 ATCATTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (22 bp):
TATATCTTAATAATCAACAGGG
Found at i:4494680 original size:66 final size:66
Alignment explanation
Indices: 4494610--4494736 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
4494600 GCCTAGCACA
* * * *
4494610 TTGGCCTTGTGGCGCAAGCCAGTATACCCTCCAGTTTTCACACGGCCTGGCACACGAGTGTATGG
1 TTGGCCGTGTGGCACAAGCCAGTATACCCTCCAGTTTTCACACGACCTAGCACACGAGTGTATGG
4494675 C
66 C
* *
4494676 TTGGCCGTGTGGCACAAGTCAGTATACCCTCTAGTTTTCACACGACCTAGCACACGAGTGT
1 TTGGCCGTGTGGCACAAGCCAGTATACCCTCCAGTTTTCACACGACCTAGCACACGAGTGT
4494737 TTGAGTGTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (66 bp):
TTGGCCGTGTGGCACAAGCCAGTATACCCTCCAGTTTTCACACGACCTAGCACACGAGTGTATGG
C
Found at i:4495541 original size:18 final size:16
Alignment explanation
Indices: 4495518--4495560 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4495508 TACCATCCAC
4495518 TATCATGCTCACAACATT
1 TATCATGCTC-CAA-ATT
*
4495536 TATCATGTTCCAAATT
1 TATCATGCTCCAAATT
*
4495552 AATCATGCT
1 TATCATGCT
4495561 AATTTCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
17 3 0.14
18 9 0.41
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (16 bp):
TATCATGCTCCAAATT
Found at i:4500276 original size:49 final size:49
Alignment explanation
Indices: 4500191--4500299 Score: 141
Period size: 49 Copynumber: 2.3 Consensus size: 49
4500181 ACTTCCTTAG
* *
4500191 GGAAATAAATTA--TTTTGGGATGATGTCTATCCCCATAATTTCCTCGA
1 GGAAATCAATTATTTTTTGGGATGATGTCTAGCCCCATAATTTCCTCGA
* * * * *
4500238 TGAAATCAATTATTTTTTGGGATGATGTCTGGCTCCATAATTTTCTCGG
1 GGAAATCAATTATTTTTTGGGATGATGTCTAGCCCCATAATTTCCTCGA
4500287 GGAAATCAATTAT
1 GGAAATCAATTAT
4500300 GTATGTTGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 10 0.19
49 42 0.81
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (49 bp):
GGAAATCAATTATTTTTTGGGATGATGTCTAGCCCCATAATTTCCTCGA
Found at i:4504827 original size:16 final size:16
Alignment explanation
Indices: 4504795--4504834 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4504785 TTTTACTATA
4504795 ATTTATAATATAATAAT
1 ATTTAT-ATATAATAAT
*
4504812 ATTTATATATATTAAT
1 ATTTATATATAATAAT
*
4504828 ACTTATA
1 ATTTATA
4504835 AAACATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATATATAATAAT
Found at i:4511583 original size:27 final size:27
Alignment explanation
Indices: 4511545--4511598 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4511535 CAAGGATGAG
4511545 TTAATTATTTTAGTGCATAACTTCATC
1 TTAATTATTTTAGTGCATAACTTCATC
4511572 TTAATTATTTTAGTGCATAACTTCATC
1 TTAATTATTTTAGTGCATAACTTCATC
4511599 CCATTGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (27 bp):
TTAATTATTTTAGTGCATAACTTCATC
Found at i:4513790 original size:25 final size:27
Alignment explanation
Indices: 4513762--4513814 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
4513752 TGACTAAATT
4513762 TTAAAA-AA-ATTAAAT-AAGAAAATCA
1 TTAAAATAATATTAAATCAA-AAAATCA
4513787 TTAAAATTAATATTAAATCAAAAAATCA
1 TTAAAA-TAATATTAAATCAAAAAATCA
4513815 AAATTAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 2 0.08
28 14 0.58
29 2 0.08
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (27 bp):
TTAAAATAATATTAAATCAAAAAATCA
Found at i:4514880 original size:13 final size:13
Alignment explanation
Indices: 4514862--4514887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4514852 TTTAAATCAT
4514862 GGGTATATATATA
1 GGGTATATATATA
4514875 GGGTATATATATA
1 GGGTATATATATA
4514888 TATTAGACCA
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:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
GGGTATATATATA
Found at i:4518177 original size:9 final size:9
Alignment explanation
Indices: 4518163--4518187 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4518153 CCTATTTCAT
4518163 AAATTCACA
1 AAATTCACA
4518172 AAATTCACA
1 AAATTCACA
4518181 AAATTCA
1 AAATTCA
4518188 ATATGGCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTCACA
Found at i:4531211 original size:35 final size:34
Alignment explanation
Indices: 4531165--4531364 Score: 163
Period size: 35 Copynumber: 5.8 Consensus size: 34
4531155 CATATGGCCG
*
4531165 AATATATAAGTTCAATAT-ATCATCACATGTAACC
1 AATATACAAGTTCAATATAATC-TCACATGTAACC
* * * * *
4531199 TAATGTTCAAGTTCAATAAAACATCTCATATG--GCC
1 -AATATACAAGTTCAAT-ATA-ATCTCACATGTAACC
*
4531234 GAATATACAAATTCAATATAATCTCACATGTAACC
1 -AATATACAAGTTCAATATAATCTCACATGTAACC
* *
4531269 AATATACAAGTTCAATATAAGCTCACATGTAATCG
1 AATATACAAGTTCAATATAATCTCACATGTAA-CC
* * * * * *
4531304 GATACACAAGTTCAATATAACCTCATATGCAGCC
1 AATATACAAGTTCAATATAATCTCACATGTAACC
* *
4531338 GAACATACAAGTTCAATATAACCTCAC
1 -AATATACAAGTTCAATATAATCTCAC
4531365 TTATACTTAC
Statistics
Matches: 131, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
33 9 0.07
34 33 0.25
35 79 0.60
36 1 0.01
37 6 0.05
38 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (34 bp):
AATATACAAGTTCAATATAATCTCACATGTAACC
Found at i:4531230 original size:70 final size:69
Alignment explanation
Indices: 4531154--4531285 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 69
4531144 TTATATTATT
* * * *
4531154 TCATATGGCCGAATATATAAGTTCAATAT-ATCATCACATGTAACCTAATGTTCAAGTTCAATAA
1 TCATATGGCCGAATATACAAATTCAATATAATC-TCACATGTAACC-AATATACAAGTTCAATAA
4531218 AACATC
64 AACATC
4531224 TCATATGGCCGAATATACAAATTCAATATAATCTCACATGTAACCAATATACAAGTTCAATA
1 TCATATGGCCGAATATACAAATTCAATATAATCTCACATGTAACCAATATACAAGTTCAATA
4531286 TAAGCTCACA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 15 0.26
70 39 0.68
71 3 0.05
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (69 bp):
TCATATGGCCGAATATACAAATTCAATATAATCTCACATGTAACCAATATACAAGTTCAATAAAA
CATC
Found at i:4531280 original size:104 final size:103
Alignment explanation
Indices: 4531165--4531364 Score: 242
Period size: 104 Copynumber: 1.9 Consensus size: 103
4531155 CATATGGCCG
* * * ***
4531165 AATATATAAGTTCAATAT-ATCATCACATGTAACCTAATGTTCAAGTTCAATAAAACATCTCATA
1 AATATACAAGTTCAATATAAGC-TCACATGTAACCGAATACACAAGTTCAATAAAAC--CTCATA
* *
4531229 TG-GCCGAATATACAAATTCAATATAATCTCACATGTAACC
63 TGAGCCGAACATACAAATTCAATATAACCTCACATGTAACC
* * *
4531269 AATATACAAGTTCAATATAAGCTCACATGTAATCGGATACACAAGTTCAATATAACCTCATATGC
1 AATATACAAGTTCAATATAAGCTCACATGTAACCGAATACACAAGTTCAATAAAACCTCATATG-
*
4531334 AGCCGAACATACAAGTTCAATATAACCTCAC
65 AGCCGAACATACAAATTCAATATAACCTCAC
4531365 TTATACTTAC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
102 8 0.10
104 71 0.88
105 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (103 bp):
AATATACAAGTTCAATATAAGCTCACATGTAACCGAATACACAAGTTCAATAAAACCTCATATGA
GCCGAACATACAAATTCAATATAACCTCACATGTAACC
Found at i:4531426 original size:43 final size:43
Alignment explanation
Indices: 4531368--4531460 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
4531358 ACCTCACTTA
* *
4531368 TACTTACCTATGTGGCCAAATATAGAAGTCATTTAGATCAACT
1 TACTTACCTATGTGGCCAAATATAAAAGTCATTTAGAACAACT
4531411 TACTTACCTATGTGGCCAAATATAAAAGTCATTTAGAACAACT
1 TACTTACCTATGTGGCCAAATATAAAAGTCATTTAGAACAACT
4531454 TACTTAC
1 TACTTAC
4531461 TCACTTTCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (43 bp):
TACTTACCTATGTGGCCAAATATAAAAGTCATTTAGAACAACT
Found at i:4534169 original size:23 final size:22
Alignment explanation
Indices: 4534117--4534169 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
4534107 TCCACGTCTT
*
4534117 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
4534139 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
4534162 TTTCTTTT
1 TTTCTTTT
4534170 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:4548521 original size:13 final size:13
Alignment explanation
Indices: 4548503--4548534 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4548493 TTATTACTAG
4548503 TCAAAATTGGTCA
1 TCAAAATTGGTCA
4548516 TCAAAATTGGTCA
1 TCAAAATTGGTCA
*
4548529 CCAAAA
1 TCAAAA
4548535 CTTCAGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (13 bp):
TCAAAATTGGTCA
Found at i:4552526 original size:46 final size:49
Alignment explanation
Indices: 4552382--4552746 Score: 321
Period size: 47 Copynumber: 7.7 Consensus size: 49
4552372 TTTGTGTTCT
* * * *
4552382 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCAC-ATTATG-AAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * *
4552428 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
4552476 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* ** * *
4552522 AGTGTAAGACCATGTTTGGGACATGGCATC-AACTACGAGACGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * *
4552568 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGAGCC
* * * * * *
4552618 AGTGTAAGACTATGTTTGGGACATGGCGTCGGCCTCGATTATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * **
4552667 AGTATAAGACCATGTCTGGGACATGGCATC-GACT--TGATGTATGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA-GAGCC
*
4552714 AGTGTATGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
4552747 ATTCTACCCT
Statistics
Matches: 258, Mismatches: 45, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
45 3 0.01
46 72 0.28
47 74 0.29
48 39 0.15
49 31 0.12
50 35 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:4554350 original size:12 final size:12
Alignment explanation
Indices: 4554333--4554362 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
4554323 AGACACACGG
4554333 CCGTGTCTCTGC
1 CCGTGTCTCTGC
4554345 CCGTGTCTCTGC
1 CCGTGTCTCTGC
4554357 CCGTGT
1 CCGTGT
4554363 GTTTACTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.40, G:0.27, T:0.33
Consensus pattern (12 bp):
CCGTGTCTCTGC
Found at i:4561230 original size:14 final size:14
Alignment explanation
Indices: 4561211--4561243 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
4561201 AGGTCATTTA
4561211 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4561225 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4561239 GCCCA
1 GCCCA
4561244 GTGATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.45, G:0.15, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:4571324 original size:43 final size:43
Alignment explanation
Indices: 4571235--4571526 Score: 272
Period size: 43 Copynumber: 6.8 Consensus size: 43
4571225 ACATTCCAGG
*
4571235 CACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAA-C
1 CACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGC
* * * **
4571278 CACCAAGTTGCCGACGGTGTCCGAGGCTCCCGCACCTCCAAGC
1 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGC
* * * *
4571321 CACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCAC-ATTCGAGC
1 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGC
4571364 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-
1 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGC
** * * * *
4571406 GGCCGAGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAATGG
1 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAA-GC
* ***
4571450 C-CTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAG-
1 CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGC
** * * *
4571491 GGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC
1 CACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCAC
4571527 ATCTTTTTTT
Statistics
Matches: 205, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
42 61 0.30
43 143 0.70
44 1 0.00
ACGTcount: A:0.18, C:0.38, G:0.30, T:0.14
Consensus pattern (43 bp):
CACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGC
Found at i:4571418 original size:85 final size:84
Alignment explanation
Indices: 4571240--4571529 Score: 323
Period size: 85 Copynumber: 3.4 Consensus size: 84
4571230 CCAGGCACCA
* * *
4571240 AGGTACCGATGGGTGCCCGAGGCTCCCGCACATCCAA-CCACCAAGTTGCCGACGGTGTCCGAGG
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACAT-CAAGCCACCAAGTTGCCGATGGTGCCCGAGG
** **
4571304 CTCCCGCACCTCCAAGCCACCG
64 CTCCCGCACGACCAAG-GGCCG
* * *
4571326 AGGTGCCGATGCTGCCCGAGGCTCCCGCACATTCGAGCCACCAAGGTGCCGATGGTGCCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACA-TCAAGCCACCAAGTTGCCGATGGTGCCCGAGGC
4571391 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCG
* * * * * **
4571411 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAATGGC-CTATTTTGCCGATGGTGCCCGAGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCAA-GCCACCAAGTTGCCGATGGTGCCCGAGG
*
4571475 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCG
* *
4571496 AGTTTGCCGATGGTGTCCGAGGCTCCCGCACATC
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACATC
4571530 TTTTTTTAGC
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
85 98 0.56
86 76 0.44
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACATCAAGCCACCAAGTTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCG
Found at i:4571461 original size:128 final size:128
Alignment explanation
Indices: 4571220--4571483 Score: 309
Period size: 128 Copynumber: 2.1 Consensus size: 128
4571210 TCTTCTTTAG
*
4571220 CCCGCACATTCCAGGCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCACATCCAACCACCAAG
1 CCCGCACATTCCAGCCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCACATCCAACCACCAAG
* * * *
4571285 TTGCCGACGGTGTCCGAGGCTCCCGCACCTCCAAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
66 GTGCCGACGGTGGCCGAGGCCCCCGCACCACCAAG-CACCGAGGTGCCGATGCTGCCCGAGGCT
* * *** *
4571349 CCCGCACATTCGAGCCACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCGA
1 CCCGCACATTCCAGCCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCAC-ATCCAACCACCAA
* * * * ** *
4571412 GGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAATG-GCCTATTTTGCCGATGGTGCCCGAGGC
65 GGTGCCGACGGTGGCCGAGGCCCCCGCACCACCAA-GCACCGA-GGTGCCGATGCTGCCCGAGGC
4571476 T
128 T
4571477 CCCGCAC
1 CCCGCAC
4571484 GACCAAGGGC
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
127 3 0.03
128 82 0.72
129 29 0.25
ACGTcount: A:0.18, C:0.39, G:0.30, T:0.13
Consensus pattern (128 bp):
CCCGCACATTCCAGCCACCAAGGTACCGATGGGTGCCCGAGGCTCCCGCACATCCAACCACCAAG
GTGCCGACGGTGGCCGAGGCCCCCGCACCACCAAGCACCGAGGTGCCGATGCTGCCCGAGGCT
Found at i:4571711 original size:43 final size:43
Alignment explanation
Indices: 4571637--4572532 Score: 679
Period size: 43 Copynumber: 21.0 Consensus size: 43
4571627 CACCGCCGGT
* * *
4571637 TAGGTTCCCGGTGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
4571680 TAGGTTGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGCC
* *
4571723 AAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
4571765 TAGGTTGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGCC
* *
4571808 AAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
4571850 TAGGTTGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGCC
* *
4571893 AAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * * * **
4571935 TAGGTTGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGCC
* *
4571978 AAGG-TGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
** * **
4572020 TAGGTTGCCGACAGTGTC-CGAGGCTCCCGCAC-ATCATAGCACC
1 TAGGTTGCCGATGGTG-CGCGAGGCTCCCGCACGACCA-AGGGCC
* * * *
4572063 GAGG-TACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
** * * *
4572105 TATTTTGCCGATGGTG-GCCGAGGCTCCCGCATGACCAATGGCT
1 TAGGTTGCCGATGGTGCG-CGAGGCTCCCGCACGACCAAGGGCC
* * * * *
4572148 TAGTTTACCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * *
4572191 TAGGTTGCCGATGGTACGCGAGGTTCTCGCAC-ATCCAA--GCAC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGC-C
* *
4572233 TAAGG-TACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCC
1 T-AGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
** * * **
4572276 TAGGTTGCCGACAGTGTC-CGAGGCTCCCACAC-ATCATAGCACC
1 TAGGTTGCCGATGGTG-CGCGAGGCTCCCGCACGACCA-AGGGCC
* * *
4572319 GAGG-TGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * **
4572361 TAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC-ATCGAAGCACC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGA-CCAAGGGCC
* * * * * ** *
4572404 GAGG-TGCCGATGGCGCCCAAGGCTCCTGCAATACCAAGGGCT
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
* * ** * **
4572446 TAGTTTGCCGATGGTGTC-CGGGGCTCTTGCAC-ATCCTAGCACC
1 TAGGTTGCCGATGGTG-CGCGAGGCTCCCGCACGA-CCAAGGGCC
* * *
4572489 -AGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGTCC
1 TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
4572531 TA
1 TA
4572533 TGCTACAGGA
Statistics
Matches: 659, Mismatches: 155, Indels: 78
0.74 0.17 0.09
Matches are distributed among these distances:
41 5 0.01
42 286 0.43
43 363 0.55
44 5 0.01
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (43 bp):
TAGGTTGCCGATGGTGCGCGAGGCTCCCGCACGACCAAGGGCC
Found at i:4571736 original size:42 final size:42
Alignment explanation
Indices: 4571685--4571991 Score: 323
Period size: 42 Copynumber: 7.2 Consensus size: 42
4571675 GGGCCTAGGT
4571685 TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
1 TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
* * * * * ** *
4571727 TGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
1 TGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACCAAGG
4571769 TTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
1 -TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
* * * * * ** *
4571812 TGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
1 TGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACCAAGG
4571854 TTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
1 -TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
* * * * * ** *
4571897 TGCCGATGGTGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGG
1 TGCCGATGGTACGCAAGGTTCTCGCAC-ATCCAAGTACCAAGG
4571939 TTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
1 -TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
4571982 TGCCGATGGT
1 TGCCGATGGT
4571992 GCTCGAGGCT
Statistics
Matches: 208, Mismatches: 48, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
42 109 0.52
43 99 0.48
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.18
Consensus pattern (42 bp):
TGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGG
Found at i:4571791 original size:85 final size:85
Alignment explanation
Indices: 4571648--4572532 Score: 1061
Period size: 85 Copynumber: 10.4 Consensus size: 85
4571638 AGGTTCCCGG
* *
4571648 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
*
4571713 TCCAAGTACCAAGGTGCCGA
66 TCCAAGCACCAAGGTGCCGA
* *
4571733 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
*
4571798 TCCAAGTACCAAGGTGCCGA
66 TCCAAGCACCAAGGTGCCGA
* *
4571818 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
*
4571883 TCCAAGTACCAAGGTGCCGA
66 TCCAAGCACCAAGGTGCCGA
* *
4571903 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
*
4571968 TCCAAGTACCAAGGTGCCGA
66 TCCAAGCACCAAGGTGCCGA
* *
4571988 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT-C-CGAGGCTCCCGCA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-TG-GTACGCGAGGCTCTCGCA
* *
4572051 CAT-CATAGCACCGAGGTACCGA
64 CATCCA-AGCACCAAGGTGCCGA
* * ** * *
4572073 TGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGT-GGCCGAGGCTCCCGCAT
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACG-CGAGGCTCTCGCA-
* * ** * *
4572137 GA-CCAATG-GCTTAGTTTACCGA
64 CATCCAA-GCACCAAG-GTGCCGA
* * * *
4572159 TGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
* *
4572224 TCCAAGCACTAAGGTACCGA
66 TCCAAGCACCAAGGTGCCGA
* * *
4572244 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT-C-CGAGGCTCCCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-TG-GTACGCGAGGCTCTCGCA
*
4572307 CAT-CATAGCACCGAGGTGCCGA
64 CATCCA-AGCACCAAGGTGCCGA
* * * * *
4572329 TGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
* *
4572394 TCGAAGCACCGAGGTGCCGA
66 TCCAAGCACCAAGGTGCCGA
* * * * ** * * * * *
4572414 TGGCGCCCAAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTC-CGGGGCTCTTGCAC
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGT-ACGCGAGGCTCTCGCAC
* *
4572478 ATCCTAGCACCAGGGTGCCGA
65 ATCCAAGCACCAAGGTGCCGA
* *
4572499 TGGTGCCCGAGGCTCCCGCACGACCAAGGTCCTA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTA
4572533 TGCTACAGGA
Statistics
Matches: 715, Mismatches: 66, Indels: 38
0.87 0.08 0.05
Matches are distributed among these distances:
83 4 0.01
84 7 0.01
85 622 0.87
86 77 0.11
87 5 0.01
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (85 bp):
TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGCTCTCGCACA
TCCAAGCACCAAGGTGCCGA
Found at i:4572272 original size:341 final size:338
Alignment explanation
Indices: 4571648--4572532 Score: 1109
Period size: 341 Copynumber: 2.6 Consensus size: 338
4571638 AGGTTCCCGG
* * * *
4571648 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATG-GTACGCAAGGTTCTCGCAC
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGAAGTGT-C-CGAGGCTCCCGCAC
* * * * *
4571712 ATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGAT
64 AT-CAAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * * * * *
4571777 GGT-ACGCAAGGTTCTCGCACATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGA
128 GGTGAC-CGAGGCTCCCGCACATCCAAGTACCAAGGTACCGATGGTGCCCGAGCCTCCCGCACGA
* *
4571841 CCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGGTGCCGATGG
192 CCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGCACCAAGGTACCGATGG
* * * *
4571906 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-TG-GTACGCAAGGTTCTCGCACAT
257 TGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGT-C-CAAGGCTCCCACACAT
*
4571969 CCA-AGTACCAAGGTGCCGA
320 -CATAGCACCAAGGTGCCGA
4571988 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-AGTGTCCGAGGCTCCCGCACA
* *
4572053 TCATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATG
65 TCA-AGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATG
* * * ** * *
4572118 GTGGCCGAGGCTCCCGCATGA-CCAA-TGGCTTAGTTTACCGATGGTGCCCGAGCCTCTCGCACG
129 GTGACCGAGGCTCCCGCA-CATCCAAGT-ACCAAG-GTACCGATGGTGCCCGAGCCTCCCGCACG
* *
4572181 ACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCGCACATCCAAGCACTAAGGTACCGATG
191 ACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGCACCAAGGTACCGATG
*
4572246 GTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCACACATC
256 GTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCAAGGCTCCCACACATC
*
4572311 ATAGCACCGAGGTGCCGA
321 ATAGCACCAAGGTGCCGA
* * * *
4572329 TGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACA
1 TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-AGTGTCCGAGGCTCCCGCACA
* * ** *
4572394 TCGAAGCACCGAGGTGCCGATGGCGCCCAAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATG
65 TC-AAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATG
* * ** * * * * *
4572459 GTGTCCGGGGCTCTTGCACATCCTAGCACCAGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACC
129 GTGACCGAGGCTCCCGCACATCCAAGTACCAAGGTACCGATGGTGCCCGAGCCTCCCGCACGACC
*
4572524 AAGGTCCTA
194 AAGGGCCTA
4572533 TGCTACAGGA
Statistics
Matches: 469, Mismatches: 63, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
339 3 0.01
340 168 0.36
341 291 0.62
342 5 0.01
343 2 0.00
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (338 bp):
TGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGAAGTGTCCGAGGCTCCCGCACAT
CAAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGATGGT
GACCGAGGCTCCCGCACATCCAAGTACCAAGGTACCGATGGTGCCCGAGCCTCCCGCACGACCAA
GGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGCACCAAGGTACCGATGGTGCT
CGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCAAGGCTCCCACACATCATAGC
ACCAAGGTGCCGA
Found at i:4572522 original size:426 final size:426
Alignment explanation
Indices: 4571729--4572533 Score: 1177
Period size: 426 Copynumber: 1.9 Consensus size: 426
4571719 TACCAAGGTG
* *
4571729 CCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCG
1 CCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCG
* *
4571794 CACATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
66 CACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
* * * * * * *
4571859 GATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGGTGCCGATGGTGCTCGAGGCTCCCGCAC
131 GAAGGTACGCAAGGCTCCCACACATCCAAGCACCAAGGTGCCGATGGTGCCCAAGGCTCCCGCAC
* * * *
4571924 GACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCGCACATCCAAGTACCAAGGTGCCGAT
196 GACCAAGGGCCTAGGTTGCCGATGGTACCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
* * * *
4571989 GGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT
261 GGCGCCCAAGGCTCCCGCAAGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT
4572054 CATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGG
326 CATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGG
4572119 TGGCCGAGGCTCCCGCATGACCAATGGCTTAGTTTA
391 TGGCCGAGGCTCCCGCATGACCAATGGCTTAGTTTA
* *
4572155 CCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCGAGGTTCTCG
1 CCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCG
*
4572220 CACATCCAAGCACTAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
66 CACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
* *
4572285 GACAGTGT-C-CGAGGCTCCCACACAT-CATAGCACCGAGGTGCCGATGGTGCCCAAGGCTCCCG
131 GA-AG-GTACGCAAGGCTCCCACACATCCA-AGCACCAAGGTGCCGATGGTGCCCAAGGCTCCCG
* * * *
4572347 CACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCACATCGAAGCACCGAGGTGCC
193 CACGACCAAGGGCCTAGGTTGCCGATGGTACCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCC
* * * * ** * **
4572412 GATGGCGCCCAAGGCTCCTGCAATACCAAGGGCTTAGTTTGCCGATGGTGTCCGGGGCTCTTGCA
258 GATGGCGCCCAAGGCTCCCGCAAGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCA
* * * *
4572477 CATCCTAGCACC-AGGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGTCCTAT
323 CATCATAGCACCGA-GGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTAT
4572534 GCTACAGGAA
Statistics
Matches: 334, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
425 3 0.01
426 327 0.98
427 2 0.01
428 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.17
Consensus pattern (426 bp):
CCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTACGCAAGGTTCTCG
CACATCCAAGCACCAAGGTACCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCC
GAAGGTACGCAAGGCTCCCACACATCCAAGCACCAAGGTGCCGATGGTGCCCAAGGCTCCCGCAC
GACCAAGGGCCTAGGTTGCCGATGGTACCCAAGGCTCCCGCACATCCAAGCACCAAGGTGCCGAT
GGCGCCCAAGGCTCCCGCAAGACCAAGGGCCTAGGTTGCCGACAGTGTCCGAGGCTCCCGCACAT
CATAGCACCGAGGTACCGATGGTGCCCAAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGG
TGGCCGAGGCTCCCGCATGACCAATGGCTTAGTTTA
Found at i:4572578 original size:24 final size:24
Alignment explanation
Indices: 4572543--4572608 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
4572533 TGCTACAGGA
*
4572543 ACGGTTCACCGGAGCACCGACGGG
1 ACGGTTCGCCGGAGCACCGACGGG
*
4572567 ACGGTTCGCCGGAGCACCGCCGGG
1 ACGGTTCGCCGGAGCACCGACGGG
* *
4572591 ACGGATCGTCGGAGCACC
1 ACGGTTCGCCGGAGCACC
4572609 ACCGAAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.18, C:0.35, G:0.38, T:0.09
Consensus pattern (24 bp):
ACGGTTCGCCGGAGCACCGACGGG
Found at i:4574533 original size:42 final size:42
Alignment explanation
Indices: 4574478--4574768 Score: 263
Period size: 42 Copynumber: 6.9 Consensus size: 42
4574468 ACTTTAGCTT
* *
4574478 TGGTGCT-GAAGGCTCCCGCTCATCCATGCACCAAGGTTCCGA
1 TGGTGCTCG-AGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
*
4574520 TGGTGCTCGAGGCTCCCGCACATCCAAGCACTAAGGTGT-CGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGT-TCCGA
* * * *
4574562 TGGTGCTCGAGGCTCCCACACAT-CATAGCATCGAGGTGCCGA
1 TGGTGCTCGAGGCTCCCGCACATCCA-AGCACCAAGGTTCCGA
* ** * * *
4574604 TGGT-CTCCGAGGCTCCC-CACAACCAAGGGCCTAGTTTACCGG
1 TGGTGCT-CGAGGCTCCCGCACATCCAAGCACCAAGGTT-CCGA
* * *
4574646 TGGTG-TCTGATGCTCCCGCACATCCATGCACCAAGGTGCCGA
1 TGGTGCTC-GAGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
* * *
4574688 TGGCGATCGAGGCTCCCGCACATCCAAGCATCAAGGTTACCGA
1 TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTT-CCGA
* *
4574731 TGGTGGCT-GAGGCTCCCACACATCCGAGCCACCAAGGT
1 TGGT-GCTCGAGGCTCCCGCACATCCAAG-CACCAAGGT
4574769 GATGGAGGCT
Statistics
Matches: 200, Mismatches: 35, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
41 15 0.08
42 133 0.67
43 42 0.21
44 10 0.05
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (42 bp):
TGGTGCTCGAGGCTCCCGCACATCCAAGCACCAAGGTTCCGA
Found at i:4577252 original size:32 final size:32
Alignment explanation
Indices: 4577216--4577278 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4577206 GGCCGTTAAA
*
4577216 CAGAAAAGATAACTCTTCTCGAGGCCCCCGCG
1 CAGAAAAGATAACTCTTCCCGAGGCCCCCGCG
4577248 CAGAAAAGATAACTCTTCCCGAGGCCCCCGC
1 CAGAAAAGATAACTCTTCCCGAGGCCCCCGC
4577279 CGACGTCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.21, T:0.14
Consensus pattern (32 bp):
CAGAAAAGATAACTCTTCCCGAGGCCCCCGCG
Found at i:4577379 original size:30 final size:30
Alignment explanation
Indices: 4577343--4577401 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4577333 ATTTTAACCC
*
4577343 GATTCCCTTTCGAAGCTCGCGCTGGACGCT
1 GATTCCCTTTCGAAGCTCACGCTGGACGCT
4577373 GATTCCCTTTCGAAGCTCACGCTGGACGC
1 GATTCCCTTTCGAAGCTCACGCTGGACGC
4577402 ACTGTCGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.34, G:0.25, T:0.25
Consensus pattern (30 bp):
GATTCCCTTTCGAAGCTCACGCTGGACGCT
Found at i:4578712 original size:43 final size:41
Alignment explanation
Indices: 4578640--4579464 Score: 563
Period size: 43 Copynumber: 19.3 Consensus size: 41
4578630 CCTTCTTTAA
* *
4578640 CCCGCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCT
1 CCCGCACA-CCAAGG-ACCAAGTTGCCGAT-GGTGCCCGAGGCT
* * * *
4578684 CCCGCACATTCAAGCACCAAGTTACCGATGGTGTCCGAGGCT
1 CCCGCACA-CCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* * * * * *
4578726 CCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCT
1 CCCGCA-CACCAAG-GACCAAGTTGCCGATGGTGCCCGAGGCT
* ** * * * *
4578769 CCCGCACGACCAAGGGCTGAGGTACCGATGGTGGCCGAGGCC
1 CCCGCAC-ACCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* ** *
4578811 CCCGCACGACCAAGGGCCTATTTTTCCGATGGTGCCCGAGGCT
1 CCCGCAC-ACCAAGGACC-AAGTTGCCGATGGTGCCCGAGGCT
* **
4578854 CCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGA-GCTT
1 CCCGCAC-ACCAAGGACCAAG-TTGCCGATGGTGCCCGAGGC-T
* * * * *
4578897 CTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ACCAA-GGACCAAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4578940 CCGGCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCT
1 CCCGCACA-CCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4578982 CCCGCACGGCCAAGGGCCTAGTTTACCGATGGTGTCCGAGGCT
1 CCCGCAC-ACCAAGGACCAAG-TTGCCGATGGTGCCCGAGGCT
* * * ** *
4579025 CCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCT
1 CCCGCACA-CCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* **
4579067 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ACCAAGGACC-AAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4579110 CCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCC
1 CCCGCAC-ACCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* ** *
4579152 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCT
1 CCCGCAC-ACCAAGGACC-AAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4579195 CTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTT
1 CCCGCAC-ACCAA-GGACCAAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4579238 CCGGCACATCCAAGCACCAAGGTGTCGATGGTGCACGAGGCT
1 CCCGCACA-CCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* * * *
4579280 CCCGCACGACAAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCT
1 CCCGCAC-ACCAAGGACCAAG-TTGCCGATGGTGCCCGAGGCT
* * * ** *
4579323 CCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCT
1 CCCGCACA-CCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
* **
4579365 CCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCT
1 CCCGCAC-ACCAAGGACC-AAGTTGCCGATGGTGCCCGAGGCT
* * * * *
4579408 CCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCC
1 CCCGCAC-ACCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
4579450 CCCGCACGACCAAGG
1 CCCGCAC-ACCAAGG
4579465 GCCTATTTTG
Statistics
Matches: 620, Mismatches: 139, Indels: 46
0.77 0.17 0.06
Matches are distributed among these distances:
42 266 0.43
43 333 0.54
44 21 0.03
ACGTcount: A:0.18, C:0.35, G:0.32, T:0.16
Consensus pattern (41 bp):
CCCGCACACCAAGGACCAAGTTGCCGATGGTGCCCGAGGCT
Found at i:4579066 original size:213 final size:212
Alignment explanation
Indices: 4578663--4579456 Score: 841
Period size: 213 Copynumber: 3.7 Consensus size: 212
4578653 GGCACCAAGG
* ** * * * *
4578663 TGCCGATGGGTGCCCGAGGCTCCCGCAC-ATTCAAGCACCAAGTTACCGATGGTGTCCGAGGCTC
1 TGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTC
** * * *
4578727 CCGCACCTCCTAGCCACC-GAGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG-CTGAG
64 CCGCACGACCAAG-CACCTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT-AG
** ** * *
4578790 GTACCGATGGTGGCCGAGGCCCCCGCACGA-CCAAGGGCCTATTTTTCCGATGGTGCCCGAGGCT
127 GTACCGATGGTGGCCGAGGCCCCCGCAC-ATCCAAGCACCTA-GGTGCCGATGGTGGCCGAGGCT
*
4578854 CCCGCACGACCAAGGGCTTAGTT
190 CCCGCACGACCAAGGGCCTAGTT
* * * *
4578877 TGCCGATGGTGCCCGA-GCTTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTC
1 TGCCGATGGTGCCCGAGGC-TCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGGCCGAGGCTC
* * * *
4578941 CGGCAC-ATCCAAGCACC-AAGGTGTCGATGGTGCTCGAGGCTCCCGCACGGCCAAGGGCCTAGT
64 CCGCACGA-CCAAGCACCTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-
* * * * *
4579004 TTACCGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCC
127 GTACCGATGGTGGCCGAGGCCCCCGCACATCCAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCC
*
4579069 CGCACGACCAAGGGCCTATTT
192 CGCACGACCAAGGGCCTAGTT
* *
4579090 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCCCCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCCC
** *** * * * *
4579155 GCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTG
66 GCACGACCAAGCACCTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGG-TA
* ** * * *
4579220 CCGATGGTGCCCGAGGTTCCGGCACATCCAAGCACCAAGGTGTCGATGGT-GCACGAGGCTCCCG
130 CCGATGGTGGCCGAGGCCCCCGCACATCCAAGCACCTAGGTGCCGATGGTGGC-CGAGGCTCCCG
*
4579284 CACGACAAAGGGCCTAGTT
194 CACGACCAAGGGCCTAGTT
* * ** *
4579303 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCC
1 TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCC
** *** * *
4579367 CGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTG
65 CGCACGACCAAGCACCTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTA
4579432 CCGATGGTGGCCGAGGCCCCCGCAC
130 CCGATGGTGGCCGAGGCCCCCGCAC
4579457 GACCAAGGGC
Statistics
Matches: 492, Mismatches: 75, Indels: 28
0.83 0.13 0.05
Matches are distributed among these distances:
212 58 0.12
213 362 0.74
214 72 0.15
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (212 bp):
TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCCC
GCACGACCAAGCACCTAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTAC
CGATGGTGGCCGAGGCCCCCGCACATCCAAGCACCTAGGTGCCGATGGTGGCCGAGGCTCCCGCA
CGACCAAGGGCCTAGTT
Found at i:4579191 original size:298 final size:298
Alignment explanation
Indices: 4578643--4579481 Score: 1317
Period size: 298 Copynumber: 2.8 Consensus size: 298
4578633 TCTTTAACCC
* * * * ** *
4578643 GCACATCCCAGGCACCAAGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATTCAAGCACCAAG-T
1 GCACAT-CCAAGCACCAAGGTGTCGAT-GGTGCACGAGGCTCCCGCACGA-CCAAGGGCCTAGTT
* * * * * *
4578706 TACCGATGGTGTCCGAGGCTCCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTCC
63 TACCGATGGTGTCCGAGGCTCCCGCACATCCCAG-CACCTAGGAGCCGATGGTGGCCGAGGCTCC
** * * * * **
4578771 CGCACGACCAAGGG-CTGA-GGTACCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTT
127 CGCACGACCAAGGGCCT-ATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGA-GG
* * * * * *
4578834 TTCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGAGCTTCT
190 TGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCT
4578899 CGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
255 CGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
* *
4578943 GCACATCCAAGCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGGCCAAGGGCCTAGTTTAC
1 GCACATCCAAGCACCAAGGTGTCGATGGTGCACGAGGCTCCCGCACGACCAAGGGCCTAGTTTAC
4579008 CGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCA
66 CGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCA
4579073 CGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGA
131 CGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGA
4579138 TGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCTCGCACG
196 TGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCTCGCACG
4579203 ACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
261 ACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
* *
4579241 GCACATCCAAGCACCAAGGTGTCGATGGTGCACGAGGCTCCCGCACGACAAAGGGCCTAGTTTGC
1 GCACATCCAAGCACCAAGGTGTCGATGGTGCACGAGGCTCCCGCACGACCAAGGGCCTAGTTTAC
4579306 CGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCA
66 CGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCA
4579371 CGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGA
131 CGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGA
4579436 TGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGG
196 TGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGG
4579482 NTTTTTACAA
Statistics
Matches: 503, Mismatches: 32, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
298 408 0.81
299 89 0.18
300 6 0.01
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (298 bp):
GCACATCCAAGCACCAAGGTGTCGATGGTGCACGAGGCTCCCGCACGACCAAGGGCCTAGTTTAC
CGATGGTGTCCGAGGCTCCCGCACATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCCCGCA
CGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGA
TGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGCCTCTCGCACG
ACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGGTTCCG
Found at i:4579467 original size:85 final size:84
Alignment explanation
Indices: 4578660--4579481 Score: 785
Period size: 85 Copynumber: 9.6 Consensus size: 84
4578650 CCAGGCACCA
* ** * * *
4578660 AGGTGCCGATGGGTGCCCGAGGCTCCCGCAC-ATTCAAGCACCAAGTTACCGATGGTGTCCGAGG
1 AGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGG
** * ** *
4578724 CTCCCGCACCTCCTAGCCACCG
64 CTCCCGCACGACCAAG-GGCCT
* * * *
4578746 AGGTGCCGATGCTGCCCGAGGCTCCCGCACGACCAAGGG-CTGAGGTACCGATGGTGGCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCT-AGTTGCCGATGGTGCCCGAGGC
*
4578810 CCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * *
4578830 ATTTTTCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCGATGGTGCCCGA-G
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGCCCGAGG
* *
4578894 CTTCTCGCACGACCAAGGGTCT
64 C-TCCCGCACGACCAAGGGCCT
* * ** * * * *
4578916 AGGTTGCCGATGGTGCCCGAGGTTCCGGCAC-ATCCAAGCACCAAGGTGTCGATGGTGCTCGAGG
1 AGG-TGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGG
*
4578980 CTCCCGCACGGCCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
* * * * ** ** *
4579001 AGTTTACCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCGATGGTGGCCGAGG
1 AG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTGCCGATGGTGCCCGAGG
4579065 CTCCCGCACGACCAAGGGCCT
64 CTCCCGCACGACCAAGGGCCT
** * * *
4579086 ATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGC
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGCCCGAGGC
*
4579151 CCCCGCACGACCAAGGGCCT
65 TCCCGCACGACCAAGGGCCT
** * * *
4579171 ATTTTGCCGATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGTGCCCGAGG
1 A-GGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGCCCGAGG
* * ** *
4579236 TTCCGGCAC-ATCCAAGCACCA
64 CTCCCGCACGA-CCAAGGGCCT
* * * *
4579257 AGGTGTCGATGGTGCACGAGGCTCCCGCACGACAAAGGGCCTAGTTTGCCGATGGTGTCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAG-TTGCCGATGGTGCCCGAGGC
* **
4579322 TCCCGCAC-ATCCCAGCACCT
65 TCCCGCACGA-CCAAGGGCCT
* * *
4579342 AGGAGCCGATGGTGGCCGAGGCTCCCGCACGACCAAGGGCCTATTTTGCCGATGGTGCCCGAGGC
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGGTGCCCGAGGC
*
4579407 TCCCGCACGACCAAGGGCCG
65 TCCCGCACGACCAAGGGCCT
* * *
4579427 AGGTGCCGATGGTGGCCGAGGCCCCCGCACGACCAAGGGCCTATTTTGCCGATGG
1 AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTA-GTTGCCGATGG
4579482 NTTTTTACAA
Statistics
Matches: 620, Mismatches: 99, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
84 5 0.01
85 503 0.81
86 112 0.18
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (84 bp):
AGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTGCCGATGGTGCCCGAGGCT
CCCGCACGACCAAGGGCCT
Found at i:4584695 original size:56 final size:57
Alignment explanation
Indices: 4584628--4584741 Score: 203
Period size: 56 Copynumber: 2.0 Consensus size: 57
4584618 GTGGATTTCT
*
4584628 GGCGGATAATCCATCTCGAACAAACAATGTTTAGCCTCACT-ACATTTTTTTACAAA
1 GGCGGATAATCCATCTCGAACAAACAAGGTTTAGCCTCACTAACATTTTTTTACAAA
4584684 GGCGGATAATCCATCTCGAACAAACAAGGTTTAGCCTCACTACACATTTTTTTACAAA
1 GGCGGATAATCCATCTCGAACAAACAAGGTTTAGCCTCACTA-ACATTTTTTTACAAA
4584742 TTAAATGAGC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 40 0.73
58 15 0.27
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (57 bp):
GGCGGATAATCCATCTCGAACAAACAAGGTTTAGCCTCACTAACATTTTTTTACAAA
Found at i:4585967 original size:94 final size:94
Alignment explanation
Indices: 4585835--4586023 Score: 369
Period size: 94 Copynumber: 2.0 Consensus size: 94
4585825 CCCTTTTTTC
*
4585835 ATTTTGGTTTAAGGTGTTGCTTTTAATTACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGG
1 ATTTTGGTTTAAGGTGTTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGG
4585900 CCCAAATATTTATCTTTTCACCATTTCTG
66 CCCAAATATTTATCTTTTCACCATTTCTG
4585929 ATTTTGGTTTAAGGTGTTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGG
1 ATTTTGGTTTAAGGTGTTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGG
4585994 CCCAAATATTTATCTTTTCACCATTTCTG
66 CCCAAATATTTATCTTTTCACCATTTCTG
4586023 A
1 A
4586024 CCTGCCAACC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (94 bp):
ATTTTGGTTTAAGGTGTTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGG
CCCAAATATTTATCTTTTCACCATTTCTG
Found at i:4586046 original size:94 final size:94
Alignment explanation
Indices: 4585851--4586047 Score: 272
Period size: 94 Copynumber: 2.1 Consensus size: 94
4585841 GTTTAAGGTG
*
4585851 TTGCTTTTAATTACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGGCCCAAATATTTATCTT
1 TTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGGCCCAAATATTTATCTT
** **** * **
4585916 TTCACCATTTCTGATTTTGGTTTAAGGTG
66 TTCACCATTTCTGATCCTGAACCAAAGCC
4585945 TTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGGCCCAAATATTTATCTT
1 TTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGGCCCAAATATTTATCTT
4586010 TTCACCATTTCTGA-CCTGCCAACCAAAGCC
66 TTCACCATTTCTGATCCTG--AACCAAAGCC
4586040 TT-CTTTTA
1 TTGCTTTTA
4586048 GCATTTCCGC
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
93 2 0.02
94 84 0.92
95 5 0.05
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (94 bp):
TTGCTTTTAATGACGTCCCCATTTAGACCTTCCATACCCCAGTTATCGGCCCAAATATTTATCTT
TTCACCATTTCTGATCCTGAACCAAAGCC
Found at i:4587225 original size:85 final size:85
Alignment explanation
Indices: 4587124--4587294 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
4587114 GCTTTTAAGA
4587124 TAATGAAGAAGCTCATGCGCAATTAAGATATTGTCGTGTATCATCCTCCCCGGCACAAATGCGCT
1 TAATGAAGAAGCTCATGCGCAATTAAGATATTGTCGTGTATCATCCTCCCCGGCACAAATGCGCT
4587189 TTGATTTTGGCTAATGCAAC
66 TTGATTTTGGCTAATGCAAC
*
4587209 TAATGGAGAAGCTCATGCGCAATTAAGATATTGTCGTGTATCATCCTCCCCGGCACAAATGCGCT
1 TAATGAAGAAGCTCATGCGCAATTAAGATATTGTCGTGTATCATCCTCCCCGGCACAAATGCGCT
4587274 TTGATTTTGGCTAATGCAAC
66 TTGATTTTGGCTAATGCAAC
4587294 T
1 T
4587295 TGGTAGGACA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (85 bp):
TAATGAAGAAGCTCATGCGCAATTAAGATATTGTCGTGTATCATCCTCCCCGGCACAAATGCGCT
TTGATTTTGGCTAATGCAAC
Found at i:4591495 original size:24 final size:23
Alignment explanation
Indices: 4591458--4591525 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 23
4591448 ATCTGCACCG
*
4591458 TTGAGT-GTTTTATCCATACCAT
1 TTGAGTGGTTTTATCCACACCAT
*
4591480 TTGAGTGGCTTTTATCTACACCAT
1 TTGAGTGG-TTTTATCCACACCAT
*
4591504 TTGAGTGG-TTTAACCACACCAT
1 TTGAGTGGTTTTATCCACACCAT
4591526 ACTAGCTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 21 0.52
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (23 bp):
TTGAGTGGTTTTATCCACACCAT
Found at i:4592913 original size:85 final size:84
Alignment explanation
Indices: 4592747--4593243 Score: 333
Period size: 85 Copynumber: 5.8 Consensus size: 84
4592737 TGCCAATGGG
* ** *
4592747 TGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCCGAGGCTCCCGCACCTCCT
1 TGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA
**
4592812 AGCCACCGAGGTGCCGATGC
66 AG-GGCCGAGGTGCCGATGC
* * * *
4592832 TGCCCGAGGCTTCCGCACATTCGAGCCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACC
1 TGCCCGAGGCTCCCGCACATCCAAG-CACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACC
*
4592897 AAGGGCCGAGGTGCCGATGG
65 AAGGGCCGAGGTGCCGATGC
* * * **
4592917 TGGCCGAGGCCCCCGCACGA-CCAATGGC-CTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGA
1 TGCCCGAGGCTCCCGCAC-ATCCAA--GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA
** * * *
4592980 CCAAGGGCTTAGTTTGCCTATGG
63 CCAAGGGCCGAG-GTGCCGATGC
* * ** * * * * *
4593003 TGCCCGAGCCTCTCGCACGA-CCAAGGGTCTAGGTTGCCGATGGTGCCTGAGGTTCCGGCAC-AT
1 TGCCCGAGGCTCCCGCAC-ATCCAA-GCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGA-
** * * *
4593066 CCAAGCACCAAGGTGTCGATGG
63 CCAAGGGCCGAGGTGCCGATGC
* ** * *
4593088 TGCTCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGATGGTGTCCGAGGCTCCCGCAC-AT
1 TGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAG-TTGCCGATGGTGCCCGAGGCTCCCGCACGA-
* ** * * *
4593151 CCCAGCACCTAGGAGCCGATGG
63 CCAAGGGCCGAGGTGCCGATGC
* * ** ** * *
4593173 TGGCCGAGGCTCCCACACGA-CCAAGGGCCTATTTTGCCGATGGTGCTCGAGGCTCCTGCACGAC
1 TGCCCGAGGCTCCCGCAC-ATCCAAGCACC-AAGTTGCCGATGGTGCCCGAGGCTCCCGCACGAC
4593237 CAAGGGC
64 CAAGGGC
4593244 TTAGTTTGTC
Statistics
Matches: 334, Mismatches: 68, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
84 4 0.01
85 225 0.67
86 104 0.31
87 1 0.00
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.17
Consensus pattern (84 bp):
TGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGCCCGAGGCTCCCGCACGACCA
AGGGCCGAGGTGCCGATGC
Found at i:4592955 original size:128 final size:128
Alignment explanation
Indices: 4592729--4592977 Score: 297
Period size: 128 Copynumber: 1.9 Consensus size: 128
4592719 ACATCCCACG
* *
4592729 CACCAAGGTGCCAATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGTTGCCGATGGTGTCC
1 CACCAAGGTGCCAATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGGCC
* * * *
4592794 GAGGCTCCCGCACCTCCTAGCCACCGAGGTGCCGATGCTGCCCGAGGCTTCCGCACATTCGAGC
66 GAGGCCCCCGCACCACCAAG-CACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACATTCGAGC
* ** *
4592858 CACCAAGGTGCCGAT-GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCGAGGTGCCGATGGTGGC
1 CACCAAGGTGCCAATGGGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAGGTGCCGATGGTGGC
* * * ** *
4592921 CGAGGCCCCCGCACGACCAATG-GCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCAC
65 CGAGGCCCCCGCACCACCAA-GCACCGA-GGTGCCGATGCTGCCCGAGGCTCCCGCAC
4592978 GACCAAGGGC
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
127 3 0.03
128 82 0.81
129 16 0.16
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (128 bp):
CACCAAGGTGCCAATGGGTGCCCGAGGCTCCCGCACATCCAAGCACCAAGGTGCCGATGGTGGCC
GAGGCCCCCGCACCACCAAGCACCGAGGTGCCGATGCTGCCCGAGGCTCCCGCACATTCGAGC
Found at i:4593003 original size:128 final size:127
Alignment explanation
Indices: 4592866--4593283 Score: 511
Period size: 128 Copynumber: 3.3 Consensus size: 127
4592856 GCCACCAAGG
* * *
4592866 TGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAGGTGCCGATGGTGGCCGAGGCCCCC
1 TGCCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCCC
*
4592931 GCACGACCAATGGCCTATTTTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTT
66 GCACGACCAA-GGCCTATTTTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCTTAGTT
* * * *
4592994 TGCCTATGGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGATGGT-GCCTGAGGTTC
1 TGCCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGG-TGCCGATGGTGGCC-GAGGCTC
* * *** * *
4593058 CGGCAC-ATCCAA-GCACCAAGGTGTCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGT
64 CCGCACGA-CCAAGGC-CTATTTTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCTTAGT
4593121 T
127 T
* * * ** *
4593122 TGCCGATGGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAGGAGCCGATGGTGGCCGAGGCTCC
1 TGCCGATGGTGCCCGAGCCTCCCGCACGA-CCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCC
* *
4593186 CACACGACCAAGGGCCTATTTTGCCGATGGTGCTCGAGGCTCCTGCACGACCAAGGGCTTAGTT
65 CGCACGACCAA-GGCCTATTTTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCTTAGTT
* * *
4593250 TGTCGATGGTTCCCGAGCCTCTCGCACGACCAAG
1 TGCCGATGGTGCCCGAGCCTCCCGCACGACCAAG
4593284 AACGAAAGTT
Statistics
Matches: 240, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
127 26 0.11
128 187 0.78
129 27 0.11
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.18
Consensus pattern (127 bp):
TGCCGATGGTGCCCGAGCCTCCCGCACGACCAAGGGCCTAGGTGCCGATGGTGGCCGAGGCTCCC
GCACGACCAAGGCCTATTTTGCCGATGGTGCTCGAGGCTCCCGCACGACCAAGGGCTTAGTT
Found at i:4593224 original size:43 final size:43
Alignment explanation
Indices: 4592745--4593283 Score: 450
Period size: 43 Copynumber: 12.6 Consensus size: 43
4592735 GGTGCCAATG
** *
4592745 GGTGCCCGAGGCTCCCGCAC-ATCCAAGCACCAAG-TTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGAT
* ** * ** * *
4592787 GGTGTCCGAGGCTCCCGCACCTCCTAGCCACCGAG-GTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAG-GGCCTAGTTTGCCGAT
* * * * ** * *
4592830 GCTGCCCGAGGCTTCCGCAC-ATTCGAGCCACCAAG-GTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGA-CCAAG-GGCCTAGTTTGCCGAT
* *
4592873 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCGAG-GTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * * *
4592915 GGTGGCCGAGGCCCCCGCACGACCAATGGCCTATTTTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* *
4592958 GGTGCCCGAGGCTCCCGCACGACCAAGGGCTTAGTTTGCCTAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * * *
4593001 GGTGCCCGAGCCTCTCGCACGACCAAGGGTCTAGGTTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * * ** * * *
4593044 GGTGCCTGAGGTTCCGGCAC-ATCCAAGCACCAAG-GTGTCGAT
1 GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGAT
*
4593086 GGTGCTCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * ** **
4593129 GGTGTCCGAGGCTCCCGCAC-ATCCCAGCACCTAG-GAGCCGAT
1 GGTGCCCGAGGCTCCCGCACGA-CCAAGGGCCTAGTTTGCCGAT
* * *
4593171 GGTGGCCGAGGCTCCCACACGACCAAGGGCCTATTTTGCCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * * *
4593214 GGTGCTCGAGGCTCCTGCACGACCAAGGGCTTAGTTTGTCGAT
1 GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
* * *
4593257 GGTTCCCGAGCCTCTCGCACGACCAAG
1 GGTGCCCGAGGCTCCCGCACGACCAAG
4593284 AACGAAAGTT
Statistics
Matches: 402, Mismatches: 84, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
42 129 0.32
43 272 0.68
44 1 0.00
ACGTcount: A:0.18, C:0.34, G:0.31, T:0.17
Consensus pattern (43 bp):
GGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCGAT
Found at i:4596172 original size:39 final size:39
Alignment explanation
Indices: 4596129--4596348 Score: 282
Period size: 39 Copynumber: 5.6 Consensus size: 39
4596119 ATACAACCTA
* *
4596129 CTAGGCATATAGCCCGAATAATCACCGGCACAGAGCCTG
1 CTAGGCACATAGCCCGAATAATCACCGGCACACAGCCTG
* * * *
4596168 CTAGGCACAAAGCCCGAATAATTACCGACACACTA-CTTG
1 CTAGGCACATAGCCCGAATAATCACCGGCACAC-AGCCTG
*
4596207 CTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTG
1 CTAGGCACATAGCCCGAATAATCACCGGCACACAGCCTG
*
4596246 CTAGGCACAT-GCCTCGAATAATCAACGGCACACAGCCTG
1 CTAGGCACATAGCC-CGAATAATCACCGGCACACAGCCTG
* * * *
4596285 CTAGGCACATAGCCCAAATAATTACCGGCACACAACTTG
1 CTAGGCACATAGCCCGAATAATCACCGGCACACAGCCTG
* *
4596324 CTAAGCACATAGCTCGAATAATCAC
1 CTAGGCACATAGCCCGAATAATCAC
4596349 TATATTTCTA
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 4 0.03
39 147 0.95
40 4 0.03
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.17
Consensus pattern (39 bp):
CTAGGCACATAGCCCGAATAATCACCGGCACACAGCCTG
Found at i:4596323 original size:117 final size:117
Alignment explanation
Indices: 4596129--4596348 Score: 336
Period size: 117 Copynumber: 1.9 Consensus size: 117
4596119 ATACAACCTA
* * * *
4596129 CTAGGCATATAGCCCGAATAATCACCGGCACAGAGCCTGCTAGGCACAAAGCCCGAATAATTACC
1 CTAGGCACATAGCCCGAATAATCAACGGCACACAGCCTGCTAGGCACAAAGCCCAAATAATTACC
* *
4596194 GACACACTACTTGCTAGGCACATAGC-CTGAATAATCACCGGCACACAGCCTG
66 GACACACAACTTGCTAAGCACATAGCTC-GAATAATCACCGGCACACAGCCTG
*
4596246 CTAGGCACAT-GCCTCGAATAATCAACGGCACACAGCCTGCTAGGCACATAGCCCAAATAATTAC
1 CTAGGCACATAGCC-CGAATAATCAACGGCACACAGCCTGCTAGGCACAAAGCCCAAATAATTAC
*
4596310 CGGCACACAACTTGCTAAGCACATAGCTCGAATAATCAC
65 CGACACACAACTTGCTAAGCACATAGCTCGAATAATCAC
4596349 TATATTTCTA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
116 3 0.03
117 89 0.96
118 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.18, T:0.17
Consensus pattern (117 bp):
CTAGGCACATAGCCCGAATAATCAACGGCACACAGCCTGCTAGGCACAAAGCCCAAATAATTACC
GACACACAACTTGCTAAGCACATAGCTCGAATAATCACCGGCACACAGCCTG
Found at i:4599513 original size:21 final size:22
Alignment explanation
Indices: 4599487--4599530 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4599477 AAAATCGATT
*
4599487 AAAAAATAATTT-GAAAAATTA
1 AAAAAATAATTTCAAAAAATTA
*
4599508 AAAAAATATTTTCAAAAAATTA
1 AAAAAATAATTTCAAAAAATTA
4599530 A
1 A
4599531 TTTTAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAAATAATTTCAAAAAATTA
Found at i:4607406 original size:7 final size:7
Alignment explanation
Indices: 4607396--4607425 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
4607386 TATTTATATT
4607396 TTATTGA
1 TTATTGA
4607403 TTATTGA
1 TTATTGA
4607410 TTATTGA
1 TTATTGA
4607417 TTATTGA
1 TTATTGA
4607424 TT
1 TT
4607426 TAAGAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
TTATTGA
Found at i:4622153 original size:35 final size:35
Alignment explanation
Indices: 4622085--4622176 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
4622075 GATATTTTAG
* * * *
4622085 TTCGCATGTTAAGTATGTCACTATATTGTTTCTGG
1 TTCGCATGTTAAGCATGCCACTATATTGATTCTGA
*
4622120 TTTGCATGTTAAGCATGCCACTATACTT-ATTCTGA
1 TTCGCATGTTAAGCATGCCACTATA-TTGATTCTGA
* *
4622155 TTCGCATGTAAAACATGCCACT
1 TTCGCATGTTAAGCATGCCACT
4622177 GTGTTAAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 46 0.96
36 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (35 bp):
TTCGCATGTTAAGCATGCCACTATATTGATTCTGA
Found at i:4630759 original size:9 final size:9
Alignment explanation
Indices: 4630745--4630774 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
4630735 TTTGTGCCAT
4630745 CAACATGGC
1 CAACATGGC
4630754 CAACATGGC
1 CAACATGGC
4630763 CAACATGGC
1 CAACATGGC
4630772 CAA
1 CAA
4630775 TGTGATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (9 bp):
CAACATGGC
Found at i:4632256 original size:13 final size:13
Alignment explanation
Indices: 4632234--4632267 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4632224 TTTTCAAGTC
* *
4632234 ATGTTCTAAAGCT
1 ATGTTTTAAAGAT
4632247 ATGTTTTAAAGAT
1 ATGTTTTAAAGAT
4632260 ATGTTTTA
1 ATGTTTTA
4632268 TGCGTGCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (13 bp):
ATGTTTTAAAGAT
Found at i:4635534 original size:103 final size:104
Alignment explanation
Indices: 4635355--4635619 Score: 408
Period size: 103 Copynumber: 2.6 Consensus size: 104
4635345 AACCGTTATT
* * * *
4635355 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
4635420 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
4635458 GGTGGATATCACACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
4635522 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
4635562 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
4635620 TTATGTACAA
Statistics
Matches: 147, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 64 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:4635981 original size:30 final size:29
Alignment explanation
Indices: 4635947--4636011 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
4635937 TAATCCACCA
4635947 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
4635977 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
4636007 CCCAA
1 CCCAA
4636012 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:4635985 original size:31 final size:30
Alignment explanation
Indices: 4635954--4636011 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4635944 CCACCCAACT
4635954 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
4635984 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
4636012 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:4637705 original size:22 final size:21
Alignment explanation
Indices: 4637680--4637758 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
4637670 AAAATCAAAA
4637680 TTTTATTTTAAAATATTAAACT
1 TTTTATTTTAAAA-ATTAAACT
** * *
4637702 TTTTCCTTTAAAAAATAGA-T
1 TTTTATTTTAAAAATTAAACT
4637722 TTTTATTTCTAAAAATCTAAACT
1 TTTTATTT-TAAAAAT-TAAACT
4637745 TTCTT-TTTTAAAAA
1 TT-TTATTTTAAAAA
4637759 AAATAAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.16
21 10 0.22
22 20 0.44
23 6 0.13
24 2 0.04
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (21 bp):
TTTTATTTTAAAAATTAAACT
Found at i:4644043 original size:21 final size:21
Alignment explanation
Indices: 4644017--4644057 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4644007 AGACGAGCAA
* *
4644017 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4644038 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4644058 TTGCGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4648276 original size:20 final size:20
Alignment explanation
Indices: 4648253--4648324 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4648243 AGGCACAAAT
*
4648253 GTGCAAATAGAGGTACCGAA
1 GTGCAAATAGAGGCACCGAA
* **
4648273 GTGCAAATGGAGGCACTTAA
1 GTGCAAATAGAGGCACCGAA
4648293 GTGCAAATCA-AGGCA-CGAA
1 GTGCAAAT-AGAGGCACCGAA
4648312 TGTGCAAATAGAG
1 -GTGCAAATAGAG
4648325 ACACATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.17
Consensus pattern (20 bp):
GTGCAAATAGAGGCACCGAA
Found at i:4650197 original size:214 final size:214
Alignment explanation
Indices: 4649801--4650197 Score: 557
Period size: 214 Copynumber: 1.9 Consensus size: 214
4649791 AGATGATTAC
* *
4649801 AAACCCAACTTTGTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGGTTCACAATC
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
* * * * * *
4649866 TCTTTAGATGACAGATAACAAGATATCTCCAAAATAAGAGTATATCTCACCAAATAATAATATTC
66 TCTTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
* * *
4649931 TCTAACAAGTACTAAAACCATTAACCATTTACTCAAATTCCAAATGAAAAACATTTGGTAACCAA
131 TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAA
4649996 ATACTCAAAAAACTATTGA
196 ATACTCAAAAAACTATTGA
* *
4650015 AAACTCAACTTTCTAAAAATTCATAAAAAAAATTGTTAATTAAAAATTATAATCA-ATTCACAAT
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAAT-AGATTCACAAT
* * * *
4650079 C-CGTTTATATGATAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACTAGATAACAATAT
65 CTC-TTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATAT
* * **
4650143 TCTCTAATAACTACTAAAACC-TTCAACTATTTACTCAAATTATTAATCAAAAACA
129 TCTCTAACAACTACTAAAACCATT-AACCATTTACTCAAATTACAAATCAAAAACA
4650198 CACTTTTGTC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
213 3 0.02
214 155 0.97
215 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.30
Consensus pattern (214 bp):
AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
TCTTTAGATGACAAAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAA
ATACTCAAAAAACTATTGA
Found at i:4650526 original size:26 final size:26
Alignment explanation
Indices: 4650497--4650548 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
4650487 GTGCCACAAG
*
4650497 TCTGCACTCCTCTCCTGCTGAAATTC
1 TCTGCACTCCTCTCCTCCTGAAATTC
*
4650523 TCTGGACTCCTCTCCTCCTGAAATTC
1 TCTGCACTCCTCTCCTCCTGAAATTC
4650549 AGCCCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.38, G:0.12, T:0.35
Consensus pattern (26 bp):
TCTGCACTCCTCTCCTCCTGAAATTC
Found at i:4656304 original size:38 final size:38
Alignment explanation
Indices: 4656253--4656329 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
4656243 GAATAGCAGC
4656253 ACAAAGGTTGAGTAGTTTGCC-TTTCTCATGCATCCTAT
1 ACAAAGGTTGAGTAGTTT-CCGTTTCTCATGCATCCTAT
* *
4656291 ACAAAGTTTGAGTAGTTTCCGTTTCTCATGCATGCTAT
1 ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
4656329 A
1 A
4656330 TTTGTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
Found at i:4659181 original size:19 final size:19
Alignment explanation
Indices: 4659157--4659193 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4659147 GCATGACCTC
4659157 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
4659176 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
4659194 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:4661237 original size:18 final size:17
Alignment explanation
Indices: 4661211--4661245 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4661201 AATATTAAGA
*
4661211 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4661228 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4661246 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4661257 original size:120 final size:120
Alignment explanation
Indices: 4661104--4661387 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
4661094 TAATTGAAAA
* * *
4661104 TATATATTTT-ATTAAATTATATTTAATAATAATTATGTTAAATTATATTTCATAGTATTATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
* *
4661168 TTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * *
4661223 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTTAATTTATATTTTACAGTATCATATA
1 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
*
4661288 TTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
66 TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
4661343 TATATATTTTAATTAAAATATATTTAATAAAAATTATGTTTAAAT
1 TATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
4661388 ATGATTAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 131 0.87
121 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTCACAGTATCATATA
TTATGATTTCAGAAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:4661359 original size:18 final size:17
Alignment explanation
Indices: 4661331--4661365 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4661321 ATTATTAAGA
*
4661331 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4661348 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4661366 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4661365 original size:16 final size:16
Alignment explanation
Indices: 4661331--4661385 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4661321 ATTATTAAGA
4661331 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
4661348 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
4661364 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
4661378 ATGTTTAA
1 AT-TTTAA
4661386 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:4661622 original size:16 final size:16
Alignment explanation
Indices: 4661601--4661668 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
4661591 GATTTGCTAT
4661601 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4661617 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
4661633 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4661649 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4661665 TACA
1 TACA
4661669 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4670601 original size:20 final size:20
Alignment explanation
Indices: 4670521--4670604 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
4670511 GTGTACTAAT
*
4670521 GTGCAAACAGGAGCACCGTA
1 GTGCAAACAGGAGCACCGAA
4670541 GTGCGAATA-AGGA-CACCGAA
1 GTGC-AA-ACAGGAGCACCGAA
* * * **
4670561 GTGTATACAGGGGCAAAGAA
1 GTGCAAACAGGAGCACCGAA
*
4670581 GTGCAAACATGAGCACCGAA
1 GTGCAAACAGGAGCACCGAA
4670601 GTGC
1 GTGC
4670605 CAATCCTGTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 36 0.75
21 6 0.12
22 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.31, T:0.12
Consensus pattern (20 bp):
GTGCAAACAGGAGCACCGAA
Found at i:4672713 original size:139 final size:138
Alignment explanation
Indices: 4672407--4673106 Score: 1034
Period size: 139 Copynumber: 5.1 Consensus size: 138
4672397 TAGAGAACAT
*
4672407 ATATAATTAGTATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* *
4672472 AATATAAA-AATTATATTAATTAATTTCGGTCAAAATATAAAATACGT-GAAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATAG-AAATTAATATTCTT
*
4672535 TTAGAAAGA
130 TTGGAAAGA
* * *
4672544 ATATAATTAATATATAAATTTGATTTATACAAAATATTAATTGTATATATTTTACTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* * *
4672609 AATATAAACAATTATATTAATTAATTTTGGTCAAAATAAAAAAGGACATATAAATTAATATTCTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAA-GACATAGAAATTAATATTCTT
4672674 TTGGAAAGA
130 TTGGAAAGA
* *
4672683 ATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTACATATTTTA-TCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACT-GAATTTAT
* * *
4672747 TAATATAAACAATTATATTAATTAATTTTGGTCAAAATAAAAAAGGACATATAAATTAATATTCT
65 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAA-GACATAGAAATTAATATTCT
4672812 TTTGGAAAGA
129 TTTGGAAAGA
*
4672822 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTACATATTTTA-TCGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACT-GAATTTAT
* * ** *
4672886 TAATATAAATAGTTATATTAATTAATTTCAATC-AAATATAAAAGACATGGAAATTAATATTTTC
65 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATA--TTC
4672950 TTTTGGAAAGA
128 TTTTGGAAAGA
* * *
4672961 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACTAAATTTATG
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
* * *
4673026 AATATAAATAATTATATTAATTGATTTCGGTCAAAATATAAAAGACATGGAAATTAATACTT-TT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATA-TTCTT
*
4673090 TTGAAAAGA
130 TTGGAAAGA
4673099 ATATAATT
1 ATATAATT
4673107 TTTTTTCTAA
Statistics
Matches: 521, Mismatches: 34, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
137 83 0.16
138 60 0.12
139 351 0.67
140 27 0.05
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATAGAAATTAATATTCTTT
TGGAAAGA
Found at i:4672753 original size:66 final size:66
Alignment explanation
Indices: 4672682--4672893 Score: 157
Period size: 66 Copynumber: 3.1 Consensus size: 66
4672672 TTTTGGAAAG
4672682 AATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTACATATTTTATCGAATTTAT
1 AATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTACATATTTTATCGAATTTAT
4672747 T
66 T
** * ** * * *
4672748 AATATAAACAATTATATTAATTAATTTTGGTCAAAATAAAAAAGGACATATAAAT-TA-ATATTC
1 AATATAATTAA-TATATGAATT--TCAT--TC---AT-ACAAA--ATAT-TAATTGTACATATT-
* * *
4672811 TTTTGGAA---A-G
53 TTATCGAATTTATT
*
4672821 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTACATATTTTATCGAATTTAT
1 AATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTACATATTTTATCGAATTTAT
4672886 T
66 T
4672887 AATATAA
1 AATATAA
4672894 ATAGTTATAT
Statistics
Matches: 105, Mismatches: 22, Indels: 38
0.64 0.13 0.23
Matches are distributed among these distances:
61 4 0.04
62 11 0.10
63 5 0.05
64 4 0.04
65 3 0.03
66 16 0.15
67 9 0.09
68 2 0.02
69 2 0.02
70 2 0.02
71 2 0.02
72 9 0.09
73 9 0.09
74 3 0.03
75 4 0.04
76 5 0.05
77 11 0.10
78 4 0.04
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (66 bp):
AATATAATTAATATATGAATTTCATTCATACAAAATATTAATTGTACATATTTTATCGAATTTAT
T
Found at i:4679473 original size:22 final size:22
Alignment explanation
Indices: 4679448--4679490 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4679438 AAAAAATTAT
4679448 ATTTATA-AATATAAAAGTTTTC
1 ATTTATATAAT-TAAAAGTTTTC
* *
4679470 ATTTTTATAATTTAAAGTTTT
1 ATTTATATAATTAAAAGTTTT
4679491 AAAATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTATATAATTAAAAGTTTTC
Found at i:4679537 original size:6 final size:6
Alignment explanation
Indices: 4679526--4679553 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4679516 TGTGATATGA
4679526 AATATT AATATT AATATT AATATT AATA
1 AATATT AATATT AATATT AATATT AATA
4679554 GGTTACTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATATT
Found at i:4679689 original size:29 final size:29
Alignment explanation
Indices: 4679647--4679704 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
4679637 TTAGATGTTA
4679647 GTAAAAAAAATTACATACTTGGTAAATGT
1 GTAAAAAAAATTACATACTTGGTAAATGT
*
4679676 GTAAAAATAATTACATACTTGGTAAATGT
1 GTAAAAAAAATTACATACTTGGTAAATGT
4679705 CAATTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (29 bp):
GTAAAAAAAATTACATACTTGGTAAATGT
Found at i:4680805 original size:60 final size:60
Alignment explanation
Indices: 4680741--4680856 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 60
4680731 AATTTTTTTT
* *
4680741 TTGAGAGAGCCTTCAAGATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
1 TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
*
4680801 TTGAGAGAGCCATCAAAATGAGAGTGTTTTGTAGTGTATCATCAAATGAGTTTTTT
1 TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTT
4680857 GTAATGGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (60 bp):
TTGAGAGAGCCATCAAAATGAGAGTATTTTGTAGTGTATCATCAAATGAGTTTTTTAAAA
Found at i:4681227 original size:7 final size:7
Alignment explanation
Indices: 4681215--4681239 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4681205 TAATGTAGTC
4681215 GTTTAAG
1 GTTTAAG
4681222 GTTTAAG
1 GTTTAAG
4681229 GTTTAAG
1 GTTTAAG
4681236 GTTT
1 GTTT
4681240 CATTTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:4681445 original size:88 final size:90
Alignment explanation
Indices: 4681296--4681508 Score: 306
Period size: 88 Copynumber: 2.4 Consensus size: 90
4681286 TTTGTATCTG
*
4681296 TAAATTTAATTTAGTTCGTATTATATGTAGTTTGAATTTAAAATTTTCGTGTATTAATTTTACCC
1 TAAATTTAATTTAGTTCGTATTATA-GTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCC
* *
4681361 ATCTGTTTGTAG-TTTGTTGGGTGTT
65 ATCTGTCTATAGTTTTGTTGGGTGTT
* * *
4681386 TAAATTTAATTTTGTAT-GTATTATA-TAGTTTGAATTTAAAATTTTTGTGCGTTAATTTTACCC
1 TAAATTTAATTTAGT-TCGTATTATAGTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCC
4681449 ATCTGTCTATAGTTTTGTTGGGTGTT
65 ATCTGTCTATAGTTTTGTTGGGTGTT
* *
4681475 TAAATTTAATTTAGTCCGTACTATATGTAGTTTG
1 TAAATTTAATTTAGTTCGTATTATA-GTAGTTTG
4681509 TGTTAGAGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
88 45 0.41
89 34 0.31
90 22 0.20
91 8 0.07
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (90 bp):
TAAATTTAATTTAGTTCGTATTATAGTAGTTTGAATTTAAAATTTTCGTGCATTAATTTTACCCA
TCTGTCTATAGTTTTGTTGGGTGTT
Found at i:4691098 original size:49 final size:49
Alignment explanation
Indices: 4691038--4691790 Score: 1233
Period size: 49 Copynumber: 15.6 Consensus size: 49
4691028 GATAATTGTG
4691038 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
4691085 ATGTGAAAGTGTATATATA--TGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
4691132 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691181 ATGTGAAAGTGTATATATA--TGATAAGGCCGAATGGCCACGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-C-CGATGTGATGA
4691230 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691279 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691328 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691377 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691426 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691475 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691524 ATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691573 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691622 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
4691669 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
4691718 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
4691765 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
4691791 TCCCGAAGGG
Statistics
Matches: 671, Mismatches: 23, Indels: 24
0.93 0.03 0.03
Matches are distributed among these distances:
47 157 0.23
48 4 0.01
49 494 0.74
50 1 0.00
51 15 0.02
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:4695891 original size:23 final size:23
Alignment explanation
Indices: 4695817--4695891 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
4695807 AAATTGACAA
*
4695817 TAAATTACGGTTACTTAAGTGTTC
1 TAAA-TACGATTACTTAAGTGTTC
* * *
4695841 TAAATA-GATTTAATTCA-TATT-
1 TAAATACGA-TTACTTAAGTGTTC
4695862 TATAATACGATTACTTAAGTGTTC
1 TA-AATACGATTACTTAAGTGTTC
4695886 TAAATA
1 TAAATA
4695892 GATATAAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
21 2 0.05
22 14 0.36
23 17 0.44
24 6 0.15
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
TAAATACGATTACTTAAGTGTTC
Found at i:4695891 original size:45 final size:45
Alignment explanation
Indices: 4695822--4695908 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
4695812 GACAATAAAT
* * * *
4695822 TACGGTTACTTAAGTGTTCTAAATAGATTTAATTCATATTTATAA
1 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTATAA
4695867 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTA
1 TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTA
4695909 AGGCTGTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (45 bp):
TACGATTACTTAAGTGTTCTAAATAGATATAAGTCAAATTTATAA
Found at i:4697115 original size:17 final size:18
Alignment explanation
Indices: 4697093--4697133 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
4697083 ATTTTAAACA
4697093 AAATTTGATAAAAATAC-
1 AAATTTGATAAAAATACT
*
4697110 AAATTTGATAGAAATACT
1 AAATTTGATAAAAATACT
4697128 AAATTT
1 AAATTT
4697134 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (18 bp):
AAATTTGATAAAAATACT
Found at i:4698185 original size:21 final size:21
Alignment explanation
Indices: 4698161--4698200 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4698151 ATAAACTTTT
*
4698161 CAATTCATTGTATAAAACAAA
1 CAATACATTGTATAAAACAAA
**
4698182 CAATAGGTTGTATAAAACA
1 CAATACATTGTATAAAACA
4698201 GTATACTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (21 bp):
CAATACATTGTATAAAACAAA
Found at i:4699229 original size:40 final size:40
Alignment explanation
Indices: 4699185--4699274 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
4699175 ATTGCGTACC
*
4699185 TTTTGTGGCGTTTAT-TCAAAAATGCCGCTACTGCTTTACT
1 TTTTGTGGCGTTTATCTCAAAAACGCCGCTACTGCTTTA-T
* * *
4699225 TTTTGTGACGTTTTTCTCATAAACGCCGCTACTGCTTTAT
1 TTTTGTGGCGTTTATCTCAAAAACGCCGCTACTGCTTTAT
4699265 TTATTGTGGC
1 TT-TTGTGGC
4699275 ATTTTTTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 16 0.37
41 27 0.63
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (40 bp):
TTTTGTGGCGTTTATCTCAAAAACGCCGCTACTGCTTTAT
Found at i:4700030 original size:22 final size:22
Alignment explanation
Indices: 4700004--4700046 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4699994 TATGTAATAT
*
4700004 TTAATTTAAATTTAAAT-TTATA
1 TTAA-TTAAATATAAATATTATA
4700026 TTAATTAAATATAAATATTAT
1 TTAATTAAATATAAATATTAT
4700047 TCATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTAAATATAAATATTATA
Found at i:4700052 original size:20 final size:21
Alignment explanation
Indices: 4700000--4700054 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
4699990 GTAATATGTA
*
4700000 ATAT-TTAATTTAAATTTAAAT
1 ATATATTAA-TTAAATATAAAT
*
4700021 TTATATTAATTAAATATAAAT
1 ATATATTAATTAAATATAAAT
*
4700042 AT-TATTCATTAAA
1 ATATATTAATTAAA
4700055 AAAATAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.34
21 15 0.52
22 4 0.14
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATATTAATTAAATATAAAT
Found at i:4703054 original size:19 final size:19
Alignment explanation
Indices: 4703009--4703059 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
4702999 AGTTAAATTT
* *
4703009 AATTAAAAAATAAATATTA
1 AATTAAAAAATAAAAATAA
4703028 AATT-AAAAA-AAAAATAA
1 AATTAAAAAATAAAAATAA
*
4703045 ATATTAAAAACTAAA
1 A-ATTAAAAAATAAA
4703060 CTTATTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.27
18 8 0.31
19 8 0.31
20 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AATTAAAAAATAAAAATAA
Found at i:4706762 original size:17 final size:17
Alignment explanation
Indices: 4706732--4706765 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4706722 AATACAAAAT
4706732 CAAATATTCAAAGATTA
1 CAAATATTCAAAGATTA
* *
4706749 CAAATTTTCTAAGATTA
1 CAAATATTCAAAGATTA
4706766 GTTTTCATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAATATTCAAAGATTA
Found at i:4711989 original size:40 final size:40
Alignment explanation
Indices: 4711892--4712116 Score: 213
Period size: 40 Copynumber: 5.7 Consensus size: 40
4711882 TTGAATGCTG
* ** * *
4711892 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
4711932 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
4711972 TCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
4712012 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
4712052 TCCGGGTTACGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
4712091 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4712117 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.21
40 115 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:4712134 original size:79 final size:80
Alignment explanation
Indices: 4711967--4712149 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
4711957 GTGCGAGATA
* * *
4711967 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
4712032 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
4712047 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
4712111 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
4712126 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
4712150 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGGGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:4714299 original size:22 final size:22
Alignment explanation
Indices: 4714273--4714327 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
4714263 CTACCCATAC
*
4714273 TGAAAATACAACTAA-CAACCA
1 TGAAAATAAAACTAAGCAACCA
*
4714294 TGGAAATGAAAACTAAGGCAACCA
1 TGAAAAT-AAAACTAA-GCAACCA
4714318 TGAAAATAAA
1 TGAAAATAAA
4714328 GCTTAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 6 0.21
22 7 0.25
23 3 0.11
24 12 0.43
ACGTcount: A:0.56, C:0.16, G:0.13, T:0.15
Consensus pattern (22 bp):
TGAAAATAAAACTAAGCAACCA
Found at i:4715474 original size:6 final size:6
Alignment explanation
Indices: 4715463--4715496 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
4715453 GAAATAATAA
4715463 AAAAAG AAAAAG AAAAAG AAAAA- AGAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAA
4715497 GAACTAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4717748 original size:5 final size:5
Alignment explanation
Indices: 4717738--4717766 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4717728 AAACCAAGGA
4717738 ATAGT ATAGT ATAGT ATAGT ATAGT ATAG
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAG
4717767 CAAGTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
ATAGT
Found at i:4723769 original size:15 final size:15
Alignment explanation
Indices: 4723743--4723808 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
4723733 TAACAAGTTT
*
4723743 ACATATAGGGTTTGC
1 ACATATAAGGTTTGC
* *
4723758 ACATAAAAGGTTCGC
1 ACATATAAGGTTTGC
*
4723773 ACATATAAGGTTTGT
1 ACATATAAGGTTTGC
*
4723788 ACATATAGGGTTTGC
1 ACATATAAGGTTTGC
4723803 ACATAT
1 ACATAT
4723809 TAAATCACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (15 bp):
ACATATAAGGTTTGC
Found at i:4723878 original size:34 final size:34
Alignment explanation
Indices: 4723816--4723898 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
4723806 TATTAAATCA
* **
4723816 CATACTATATAAGATGAGGATTCACATATTGTGT
1 CATACTATATAACATGAGGATTCACATATAATGT
*
4723850 CATACTATATAACATGATGG-TTCGCATATAATGT
1 CATACTATATAACATGA-GGATTCACATATAATGT
**
4723884 CATTTTATATAACAT
1 CATACTATATAACAT
4723899 AGGGTCCTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (34 bp):
CATACTATATAACATGAGGATTCACATATAATGT
Found at i:4725418 original size:34 final size:33
Alignment explanation
Indices: 4725369--4725743 Score: 389
Period size: 34 Copynumber: 11.1 Consensus size: 33
4725359 TGGAAGATCA
* **
4725369 GGTTCACATACTATGTCATACTATATAATGTGG
1 GGTTCGCATACTATGTCATACTATATAACATGG
4725402 GTGTTCGCATACTATGTCATACTATATAACATTGG
1 G-GTTCGCATACTATGTCATACTATATAACA-TGG
* *
4725437 GGTTCACATACTTTGTCATACTATATAACATGAG
1 GGTTCGCATACTATGTCATACTATATAACATG-G
* * * *
4725471 GGCTCGTATACTATGTCATTCTATGTAACATGG
1 GGTTCGCATACTATGTCATACTATATAACATGG
* **
4725504 GAGTTTGCATACTATGTCATACTATATAATGTGAG
1 G-GTTCGCATACTATGTCATACTATATAACATG-G
* *
4725539 GGTTTGCATATTATGTCATA-TGATATAACATGGG
1 GGTTCGCATACTATGTCATACT-ATATAACAT-GG
* * *
4725573 GGTTTGCATACTATGTCATTCTATATGACATGG
1 GGTTCGCATACTATGTCATACTATATAACATGG
*
4725606 GGTTC-CATGCTATGTCATACTATATAACATGGG
1 GGTTCGCATACTATGTCATACTATATAACAT-GG
* *
4725639 GGTTCACATACTATGTCATATTATATAACATGAGG
1 GGTTCGCATACTATGTCATACTATATAACAT--GG
*
4725674 GGTT-GTATACTATGTCATACTATATAACAATGG
1 GGTTCGCATACTATGTCATACTATATAAC-ATGG
* * * *
4725707 GGTTCACATACTAAGTCATA-TAATATAAAATAG
1 GGTTCGCATACTATGTCATACT-ATATAACATGG
4725740 GGTT
1 GGTT
4725744 TGCCTGTTTC
Statistics
Matches: 289, Mismatches: 39, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
32 22 0.08
33 33 0.11
34 218 0.75
35 16 0.06
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (33 bp):
GGTTCGCATACTATGTCATACTATATAACATGG
Found at i:4726850 original size:21 final size:21
Alignment explanation
Indices: 4726818--4726859 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4726808 AGTTTCCATA
*
4726818 TTTTTCTGATTTGTT-AATTT
1 TTTTTCTAATTTGTTGAATTT
*
4726838 TTTTTCCTAATTTTTTGAATTT
1 TTTTT-CTAATTTGTTGAATTT
4726860 ATTTCAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTTTCTAATTTGTTGAATTT
Found at i:4728635 original size:15 final size:16
Alignment explanation
Indices: 4728609--4728639 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4728599 AGTTAATCAT
4728609 ATATATTTTCAATTCA
1 ATATATTTTCAATTCA
4728625 ATATA-TTTCAATTCA
1 ATATATTTTCAATTCA
4728640 CTTTACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTTTCAATTCA
Found at i:4729613 original size:13 final size:13
Alignment explanation
Indices: 4729572--4729631 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
4729562 TTTATATATA
4729572 TATAATATAATAAC
1 TATAATA-AATAAC
* *
4729586 AATAA-GAATAAC
1 TATAATAAATAAC
*
4729598 TATAATAAATATC
1 TATAATAAATAAC
*
4729611 TAT--TTAATAAC
1 TATAATAAATAAC
4729622 TATAATAAAT
1 TATAATAAAT
4729632 TTTTTTTCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
11 9 0.26
12 10 0.29
13 12 0.34
14 4 0.11
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (13 bp):
TATAATAAATAAC
Found at i:4729693 original size:97 final size:99
Alignment explanation
Indices: 4729529--4729718 Score: 312
Period size: 97 Copynumber: 1.9 Consensus size: 99
4729519 TTATTTCTCT
4729529 TTTTTTTTCCTTTCTTTTATTTCTTTTATTTTATTTATATATATATAATATAATAACAATAAGAA
1 TTTTTTTTCCTTTCTTTTATTTCTTTTA---TATTTATATATATATAATATAATAACAATAAGAA
*
4729594 TAACTATAATAAATATCTATTTAATAACTATAATAAA
63 TAACTATAATAAATATCTATTAAATAACTATAATAAA
* *
4729631 TTTTTTTT-CTTTCTTTTATTTCTTTTA-CTTTATATATATATAATATAATAACAATAATAATAA
1 TTTTTTTTCCTTTCTTTTATTTCTTTTATATTTATATATATATAATATAATAACAATAAGAATAA
4729694 CTATAATAAATATCTATTAAATAAC
66 CTATAATAAATATCTATTAAATAAC
4729719 AAGTATTTAT
Statistics
Matches: 85, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
97 58 0.68
101 19 0.22
102 8 0.09
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (99 bp):
TTTTTTTTCCTTTCTTTTATTTCTTTTATATTTATATATATATAATATAATAACAATAAGAATAA
CTATAATAAATATCTATTAAATAACTATAATAAA
Found at i:4729820 original size:17 final size:16
Alignment explanation
Indices: 4729794--4729826 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4729784 TTGTCTTTCT
4729794 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
4729810 TTTATTTTATTTAATTA
1 TTTA-TTTATTTAATTA
4729827 ATATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Done.