Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 29
Found at i:4332826 original size:20 final size:22
Alignment explanation
Indices: 4332801--4332843 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
4332791 AATGAATTAC
*
4332801 TTTAAATTTTA-A-AAAATAAA
1 TTTAAATTATAGACAAAATAAA
4332821 TTTAAATTATAGACAAAATAAA
1 TTTAAATTATAGACAAAATAAA
4332843 T
1 T
4332844 AATTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAATTATAGACAAAATAAA
Found at i:4333152 original size:31 final size:31
Alignment explanation
Indices: 4333114--4333179 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
4333104 AGTTATGTCG
*
4333114 GGGACCATATTGCAAATAGACTAAATATTGA
1 GGGACCATATTGCAAACAGACTAAATATTGA
* * *
4333145 GGGACCATATTGCAAACGGACTAAATGTTGG
1 GGGACCATATTGCAAACAGACTAAATATTGA
4333176 GGGA
1 GGGA
4333180 TTGTATTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (31 bp):
GGGACCATATTGCAAACAGACTAAATATTGA
Found at i:4343742 original size:21 final size:20
Alignment explanation
Indices: 4343680--4343744 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
4343670 GAGCAGATGA
*
4343680 AGATGGAGATG-GAAAAG-G
1 AGATGGAGATGAGAGAAGTG
* *
4343698 AGATAGAGACGATGAGAA-TGG
1 AGATGGAGATGA-GAGAAGT-G
4343719 AGATGGAGATGAAGAGAAGTG
1 AGATGGAGATG-AGAGAAGTG
4343740 AGATG
1 AGATG
4343745 ATATTAGAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 9 0.25
20 4 0.11
21 21 0.58
22 2 0.06
ACGTcount: A:0.43, C:0.02, G:0.42, T:0.14
Consensus pattern (20 bp):
AGATGGAGATGAGAGAAGTG
Found at i:4355860 original size:24 final size:24
Alignment explanation
Indices: 4355833--4355904 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
4355823 GACTGGATCT
4355833 CCCAAACCTATCAAAATGAGACAG
1 CCCAAACCTATCAAAATGAGACAG
4355857 CCCAAACCTATCAAAATGAGACAG
1 CCCAAACCTATCAAAATGAGACAG
* *
4355881 CCCAAGCCTATCAAAATGAAACAG
1 CCCAAACCTATCAAAATGAGACAG
4355905 AAGATGACTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.46, C:0.29, G:0.12, T:0.12
Consensus pattern (24 bp):
CCCAAACCTATCAAAATGAGACAG
Found at i:4379679 original size:13 final size:13
Alignment explanation
Indices: 4379661--4379686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4379651 TAAAATTTTA
4379661 TATTATTTTATAT
1 TATTATTTTATAT
4379674 TATTATTTTATAT
1 TATTATTTTATAT
4379687 AATAACAATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:4379830 original size:10 final size:10
Alignment explanation
Indices: 4379805--4379901 Score: 58
Period size: 9 Copynumber: 9.8 Consensus size: 10
4379795 AAAATAAAAA
4379805 ATTAAATT-T
1 ATTAAATTAT
4379814 ATTAAATTAT
1 ATTAAATTAT
* *
4379824 TTTAAATTAAG
1 ATTAAATT-AT
*
4379835 ATAAAATTA-
1 ATTAAATTAT
* *
4379844 ATAAAAATAT
1 ATTAAATTAT
*
4379854 A-TAAATTTT
1 ATTAAATTAT
*
4379863 A-AAAATTAT
1 ATTAAATTAT
4379872 AATTATAATTAT
1 -ATTA-AATTAT
* *
4379884 ATTAAGTGAT
1 ATTAAATTAT
4379894 ATTAAATT
1 ATTAAATT
4379902 TTAATTTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
9 28 0.42
10 21 0.31
11 12 0.18
12 6 0.09
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
ATTAAATTAT
Found at i:4382604 original size:19 final size:19
Alignment explanation
Indices: 4382580--4382625 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
4382570 GTTTCTTGAT
4382580 TCTCTTCCTCTTTTCACTC
1 TCTCTTCCTCTTTTCACTC
4382599 TCTCTTCCTCTTTTCACTC
1 TCTCTTCCTCTTTTCACTC
4382618 TCTCTTCC
1 TCTCTTCC
4382626 ATTACTCGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.04, C:0.43, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCTTCCTCTTTTCACTC
Found at i:4383988 original size:18 final size:19
Alignment explanation
Indices: 4383953--4383989 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4383943 CACGGAATGT
4383953 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4383973 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
4383990 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4384171 original size:38 final size:36
Alignment explanation
Indices: 4384136--4384205 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
4384126 TACAAATTGT
4384136 AAAATATTTATAT-ATTTTCTTTAAAAAAATTAAATTC
1 AAAATATTTATATAATTTT-TTT-AAAAAATTAAATTC
* *
4384173 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTAAAAAATTAAA
4384206 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 10 0.33
37 15 0.50
38 5 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTAAAAAATTAAATTC
Found at i:4386722 original size:24 final size:24
Alignment explanation
Indices: 4386690--4386762 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
4386680 CTCATAACCT
4386690 AGTGCCCTAATTCGAGATGGATCA
1 AGTGCCCTAATTCGAGATGGATCA
4386714 AGTGCCCTAATTCGAGATGGATCA
1 AGTGCCCTAATTCGAGATGGATCA
*
4386738 AGTGCCCTAATTCAAGATGGATCA
1 AGTGCCCTAATTCGAGATGGATCA
4386762 A
1 A
4386763 ATCATCTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (24 bp):
AGTGCCCTAATTCGAGATGGATCA
Found at i:4386873 original size:27 final size:27
Alignment explanation
Indices: 4386811--4386874 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
4386801 TTTCTCCTCC
* *
4386811 TAAAATTTTATATGTTCATCCTTAACT
1 TAAAATTCTATATGTTCATCCTTAACA
*
4386838 TAAATTTCTATATGTTCATCCTTAACA
1 TAAAATTCTATATGTTCATCCTTAACA
4386865 TAAAATTCTA
1 TAAAATTCTA
4386875 GATCCACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (27 bp):
TAAAATTCTATATGTTCATCCTTAACA
Found at i:4393751 original size:13 final size:13
Alignment explanation
Indices: 4393721--4393760 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
4393711 TAAACAAATG
*
4393721 TAAACGAACGAAAA
1 TAAACGAAC-ATAA
4393735 TAAACGAACATAA
1 TAAACGAACATAA
*
4393748 TAAATGAACATAA
1 TAAACGAACATAA
4393761 ACGAACAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (13 bp):
TAAACGAACATAA
Found at i:4394009 original size:14 final size:16
Alignment explanation
Indices: 4393990--4394021 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
4393980 GTCCTTTGTT
4393990 CGAACATA-AA-CGAA
1 CGAACATATAATCGAA
4394004 CGAACATATAATCGAA
1 CGAACATATAATCGAA
4394020 CG
1 CG
4394022 TTCACAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (16 bp):
CGAACATATAATCGAA
Found at i:4398392 original size:21 final size:21
Alignment explanation
Indices: 4398350--4398402 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
4398340 TTTTTAATAA
*
4398350 TTTTATCTTTATGACACATTT
1 TTTTATCTTTATAACACATTT
* *
4398371 TTTTATCTTTATAATACGTTT
1 TTTTATCTTTATAACACATTT
*
4398392 TTTAAT-TTTAT
1 TTTTATCTTTAT
4398403 TTTTAGTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATCTTTATAACACATTT
Found at i:4401471 original size:20 final size:20
Alignment explanation
Indices: 4401443--4401481 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4401433 GATAATACTC
4401443 ATAGATAATATATTTTCATA
1 ATAGATAATATATTTTCATA
* * *
4401463 ATAGTTAATTTGTTTTCAT
1 ATAGATAATATATTTTCAT
4401482 GCACCGATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
ATAGATAATATATTTTCATA
Found at i:4402495 original size:45 final size:45
Alignment explanation
Indices: 4402428--4402518 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
4402418 TATTACATAT
* *
4402428 TCACATATATACAGATTTGAGTATAATTTTATATAGAAAGAAAAA
1 TCACATATATACAGATTCGAGTATAATTTTAGATAGAAAGAAAAA
4402473 TCACATATATACAGATTCGAGTATAATTTTAGATAGAAAGAAAAA
1 TCACATATATACAGATTCGAGTATAATTTTAGATAGAAAGAAAAA
4402518 T
1 T
4402519 TCACTAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (45 bp):
TCACATATATACAGATTCGAGTATAATTTTAGATAGAAAGAAAAA
Found at i:4404318 original size:2 final size:2
Alignment explanation
Indices: 4404311--4404345 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4404301 GGAAAGTTGA
4404311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4404346 ATTCCACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4405436 original size:21 final size:21
Alignment explanation
Indices: 4405410--4405466 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
4405400 CTTGAAGTTG
4405410 AGGTTCGAGGAGAGGATATTA
1 AGGTTCGAGGAGAGGATATTA
4405431 AGGTTCGAGGAGAGGATATTA
1 AGGTTCGAGGAGAGGATATTA
* *
4405452 AGGTTCAAGAAGAGG
1 AGGTTCGAGGAGAGG
4405467 TAAATGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.39, T:0.21
Consensus pattern (21 bp):
AGGTTCGAGGAGAGGATATTA
Found at i:4405759 original size:20 final size:20
Alignment explanation
Indices: 4405734--4405771 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4405724 CACATGTCAA
4405734 AGAATGCATCGATACACTGT
1 AGAATGCATCGATACACTGT
*
4405754 AGAATGCATCGATGCACT
1 AGAATGCATCGATACACT
4405772 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATACACTGT
Found at i:4415402 original size:23 final size:23
Alignment explanation
Indices: 4415372--4415546 Score: 135
Period size: 23 Copynumber: 7.7 Consensus size: 23
4415362 TCTCAAACTA
* *
4415372 ATGGAAGAAGAAGAAATGTGTAT
1 ATGGAAGAAGAAGAAATGAGTTT
* *
4415395 ATGGAAGAAAAATAAAT-AGGCTTT
1 ATGGAAGAAGAAGAAATGA-G-TTT
* * *
4415419 TTGGAAGGAA-AA-AAAAGTGTTT
1 ATGGAA-GAAGAAGAAATGAGTTT
* *
4415441 ATGGAAGAAGAAGAAAGGCGTTT
1 ATGGAAGAAGAAGAAATGAGTTT
* *
4415464 ATGAAAGAAGAAGAAACGAGTTT
1 ATGGAAGAAGAAGAAATGAGTTT
* * * *
4415487 ATGTATG-AGAAAAAATGGGTTT
1 ATGGAAGAAGAAGAAATGAGTTT
*
4415509 TTGGAAGAAGAA-ACAATGAGTTT
1 ATGGAAGAAGAAGA-AATGAGTTT
4415532 ATGGAAGAAGAAGAA
1 ATGGAAGAAGAAGAA
4415547 TGGTTCAAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.03
22 27 0.22
23 77 0.64
24 10 0.08
25 3 0.03
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.22
Consensus pattern (23 bp):
ATGGAAGAAGAAGAAATGAGTTT
Found at i:4415549 original size:45 final size:45
Alignment explanation
Indices: 4415373--4415549 Score: 148
Period size: 45 Copynumber: 3.9 Consensus size: 45
4415363 CTCAAACTAA
* * * * *
4415373 TGGAAGAAGAAGAAATGTGTATATGGAAGAAAAATAAATAGGCTTTT
1 TGGAAGAAGAAGAAATGAGTTTATGGAAGAAGAA-GAAT-GGGTTTT
* * * *
4415420 TGGAAGGAA-AA-AAAAGTGTTTATGGAAGAAGAAGAAAGGCGTTTA
1 TGGAA-GAAGAAGAAATGAGTTTATGGAAGAAGAAGAATGG-GTTTT
* * *
4415465 TGAAAGAAGAAGAAACGAGTTTATGTATGAGAA-AA-AATGGGTTTT
1 TGGAAGAAGAAGAAATGAGTTTATGGA--AGAAGAAGAATGGGTTTT
4415510 TGGAAGAAGAA-ACAATGAGTTTATGGAAGAAGAAGAATGG
1 TGGAAGAAGAAGA-AATGAGTTTATGGAAGAAGAAGAATGG
4415550 TTCAAAATGG
Statistics
Matches: 105, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
43 4 0.04
44 8 0.08
45 42 0.40
46 35 0.33
47 9 0.09
48 7 0.07
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (45 bp):
TGGAAGAAGAAGAAATGAGTTTATGGAAGAAGAAGAATGGGTTTT
Found at i:4416202 original size:16 final size:16
Alignment explanation
Indices: 4416181--4416212 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4416171 ATGATTAATT
4416181 TTATTTAAAATATAAA
1 TTATTTAAAATATAAA
*
4416197 TTATTTAAATTATAAA
1 TTATTTAAAATATAAA
4416213 AAAAGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATTTAAAATATAAA
Found at i:4416872 original size:19 final size:19
Alignment explanation
Indices: 4416835--4416873 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4416825 AAATTATAAT
* * *
4416835 TTTTTAATACATTTCATTA
1 TTTTTAAAACACTTAATTA
4416854 TTTTTAAAACACTTAATTA
1 TTTTTAAAACACTTAATTA
4416873 T
1 T
4416874 AAAAATAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTAAAACACTTAATTA
Found at i:4422340 original size:2 final size:2
Alignment explanation
Indices: 4422333--4422371 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4422323 ACCGAAATAA
*
4422333 AT AT AT AT AT TT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4422372 TGTACAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:4422358 original size:17 final size:17
Alignment explanation
Indices: 4422336--4422369 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4422326 GAAATAAATA
*
4422336 TATATATTTATATATAT
1 TATATATATATATATAT
4422353 TATATATATATATATAT
1 TATATATATATATATAT
4422370 ATTGTACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:4422358 original size:19 final size:19
Alignment explanation
Indices: 4422334--4422372 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4422324 CCGAAATAAA
*
4422334 TATATATATTTATATATAT
1 TATATATATATATATATAT
4422353 TATATATATATATATATAT
1 TATATATATATATATATAT
4422372 T
1 T
4422373 GTACAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATATATATATATAT
Found at i:4422386 original size:3 final size:3
Alignment explanation
Indices: 4422378--4422411 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4422368 ATATTGTACA
4422378 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4422412 AGCTAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4423571 original size:30 final size:30
Alignment explanation
Indices: 4423514--4423571 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4423504 TAACTTCTTA
* **
4423514 TTTTGCTGTTTTAATCTTTTAAATTTCTGG
1 TTTTGATGTTTTAATCCATTAAATTTCTGG
*
4423544 TTTTGATGTTTTAATCCATTAAGTTTCT
1 TTTTGATGTTTTAATCCATTAAATTTCT
4423572 TTTTTTTCTC
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:0.19, C:0.10, G:0.12, T:0.59
Consensus pattern (30 bp):
TTTTGATGTTTTAATCCATTAAATTTCTGG
Found at i:4427638 original size:106 final size:106
Alignment explanation
Indices: 4427453--4428940 Score: 2349
Period size: 106 Copynumber: 14.0 Consensus size: 106
4427443 AAGAAAATTA
* *
4427453 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA-TTTT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* * ** * *
4427517 CCACTTCTAGAGCCAATTTCAACTTCACAGTGAATGATAGTG
66 CAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
4427559 GACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
4427624 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * *
4427665 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGAACTGCTGGTTGTCAATAAATAACTT-T
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
*
4427729 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 -CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
4427771 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTT-T
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
4427835 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 -CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * * *
4427877 GACTCCAAACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
4427942 CAATATCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
4427983 GACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTTGTTGTCAACAAACAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
*
4428048 CAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
4428089 GACTCCAGACAAAGAAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
4428154 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * *
4428195 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTTAATAAATAACTT-T
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
4428259 CCAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 -CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* *
4428301 GACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
4428366 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * *
4428407 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
4428472 CAATATCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
4428513 GACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
*
4428578 CAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
4428619 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
4428684 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * *
4428725 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* *
4428790 CAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGAT-TTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * * * * *
4428830 GACTCAAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTGGTTGTCAACAAACAATTTCC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
* * * * *
4428895 CAGTTCCAGAACCAATTTCAACTTCACGAC-AGAGTATATTG
66 CAATTTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTG
4428936 GACTC
1 GACTC
4428941 GGAACAGTAC
Statistics
Matches: 1287, Mismatches: 88, Indels: 14
0.93 0.06 0.01
Matches are distributed among these distances:
104 1 0.00
105 92 0.07
106 1185 0.92
107 9 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
Found at i:4429236 original size:2 final size:2
Alignment explanation
Indices: 4429229--4429267 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
4429219 ACCGAAATAA
*
4429229 AT AT AT AT AT TT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4429268 TGTACAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:4429254 original size:17 final size:17
Alignment explanation
Indices: 4429232--4429265 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4429222 GAAATAAATA
*
4429232 TATATATTTATATATAT
1 TATATATATATATATAT
4429249 TATATATATATATATAT
1 TATATATATATATATAT
4429266 ATTGTACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:4429254 original size:19 final size:19
Alignment explanation
Indices: 4429230--4429268 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4429220 CCGAAATAAA
*
4429230 TATATATATTTATATATAT
1 TATATATATATATATATAT
4429249 TATATATATATATATATAT
1 TATATATATATATATATAT
4429268 T
1 T
4429269 GTACAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATATATATATATAT
Found at i:4429282 original size:3 final size:3
Alignment explanation
Indices: 4429274--4429307 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4429264 ATATTGTACA
4429274 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4429308 AGCTAACACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4430469 original size:30 final size:30
Alignment explanation
Indices: 4430412--4430469 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4430402 TAACTTCTTA
* **
4430412 TTTTGCTGTTTTAATCTTTTAAATTTCTGG
1 TTTTGATGTTTTAATCCATTAAATTTCTGG
*
4430442 TTTTGATGTTTTAATCCATTAAGTTTCT
1 TTTTGATGTTTTAATCCATTAAATTTCT
4430470 TTTTTTTCTC
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:0.19, C:0.10, G:0.12, T:0.59
Consensus pattern (30 bp):
TTTTGATGTTTTAATCCATTAAATTTCTGG
Found at i:4436347 original size:23 final size:23
Alignment explanation
Indices: 4436321--4436367 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4436311 TGCAACATAG
4436321 CCAAATTAACTTAATCTATTTCC
1 CCAAATTAACTTAATCTATTTCC
*
4436344 CCAAATTAACTTGATCTATTTCC
1 CCAAATTAACTTAATCTATTTCC
4436367 C
1 C
4436368 TATTCTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (23 bp):
CCAAATTAACTTAATCTATTTCC
Found at i:4440990 original size:117 final size:117
Alignment explanation
Indices: 4440784--4441015 Score: 338
Period size: 117 Copynumber: 2.0 Consensus size: 117
4440774 ATATATAGAC
** *
4440784 ATGAATACAAAAACTAATGTACATACATATAAGTTTCCAGTGCCACACCTCGCCTCACCAGGCAT
1 ATGAATACAAAAACTAATGTACATACATATAAGTTTCCAAAGCCACACCTAGCCTCACCAGGCAT
* *
4440849 CCCAACAAGTTGGCTCAAAACAAATTCTCTAAATCAACACCAAGACTCTCTT
66 CCCAACAAGTAGGCTCAAAACAAATTCTATAAATCAACACCAAGACTCTCTT
* * * * * **
4440901 ATGAATACAAAAACTCATGTATATAGATATAAGTTTCTAAAGCCACACCTAGCCTCACCTGGTGT
1 ATGAATACAAAAACTAATGTACATACATATAAGTTTCCAAAGCCACACCTAGCCTCACCAGGCAT
**
4440966 CCCAACAAGTAGGCTTGAAACAAATTCTATAAATCAACACCAAGACTCTC
66 CCCAACAAGTAGGCTCAAAACAAATTCTATAAATCAACACCAAGACTCTC
4441016 AATGAATTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 101 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (117 bp):
ATGAATACAAAAACTAATGTACATACATATAAGTTTCCAAAGCCACACCTAGCCTCACCAGGCAT
CCCAACAAGTAGGCTCAAAACAAATTCTATAAATCAACACCAAGACTCTCTT
Found at i:4446879 original size:3 final size:3
Alignment explanation
Indices: 4446866--4446918 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
4446856 TTTTTTATCG
4446866 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
4446910 TTA ATA TTA
1 TTA TTA TTA
4446919 CATTTTACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4447088 original size:25 final size:25
Alignment explanation
Indices: 4447054--4447199 Score: 230
Period size: 25 Copynumber: 6.0 Consensus size: 25
4447044 CCCAATAACC
*
4447054 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
4447079 ATCAGTTTAGGGTTTC--ACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
4447102 A-CAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
4447126 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
4447151 ATCAGTTTAGGGTTTTCAAACCCTAA
1 ATCAGTTTAGGG-TTTCAAACCCTAA
*
4447177 ATCA-ATTAGGGTTTC-AACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAA
4447200 TCCCTTCCAG
Statistics
Matches: 115, Mismatches: 2, Indels: 10
0.91 0.02 0.08
Matches are distributed among these distances:
22 14 0.12
23 16 0.14
24 12 0.10
25 56 0.49
26 17 0.15
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (25 bp):
ATCAGTTTAGGGTTTCAAACCCTAA
Found at i:4447129 original size:47 final size:49
Alignment explanation
Indices: 4447054--4447199 Score: 235
Period size: 47 Copynumber: 3.0 Consensus size: 49
4447044 CCCAATAACC
*
4447054 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTC-ACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAACCCTAA
4447102 A-CAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTC-AACCCTAA
*
4447151 ATCAGTTTAGGGTTTTCAAACCCTAAATCA-ATTAGGGTTTCAACCCTAA
1 ATCAGTTTAGGG-TTTCAAACCCTAAATCAGTTTAGGGTTTCAACCCTAA
4447200 TCCCTTCCAG
Statistics
Matches: 92, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
47 38 0.41
48 1 0.01
49 16 0.17
50 20 0.22
51 17 0.18
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (49 bp):
ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAACCCTAA
Found at i:4447144 original size:72 final size:73
Alignment explanation
Indices: 4447054--4447199 Score: 226
Period size: 72 Copynumber: 2.0 Consensus size: 73
4447044 CCCAATAACC
*
4447054 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGG-TTTC-ACCCTAAA-CAGTTTAGGGTTT
1 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTTCAACCCTAAATCA-ATTAGGGTTT
4447116 CAAACCCTAA
65 C-AACCCTAA
*
4447126 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTTCAAACCCTAAATCAATTAGGGTTT
1 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTTC-AACCCTAAATCAATTAGGGTTT
4447191 CAACCCTAA
65 CAACCCTAA
4447200 TCCCTTCCAG
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
72 36 0.53
73 4 0.06
74 8 0.12
75 18 0.26
76 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (73 bp):
ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTTCAACCCTAAATCAATTAGGGTTTC
AACCCTAA
Found at i:4449519 original size:155 final size:154
Alignment explanation
Indices: 4449235--4449541 Score: 589
Period size: 155 Copynumber: 2.0 Consensus size: 154
4449225 GTAACCGACT
4449235 CCGAACCCGTTAAATTTGATTTCTGGTAAATGTAGACCATTTTTGTCTTAAAAATGATTTTTCTT
1 CCGAACCCGTTAAATTTGATTTCTGGTAAATGTAGACCATTTTTGTCTTAAAAATGATTTTTCTT
4449300 AAATTTCTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTCTATGGCGACTCT
66 AAATTTCTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTCTATGGCGACTCT
4449365 ATTC-ATTTAATCCAAATTAATTC
131 ATTCAATTTAATCCAAATTAATTC
4449388 CCGAACCCGTTAAATTTGATTTCTGGTAAATGTAGACCATTTTTGTCTTAAAAAATGATTTTTCT
1 CCGAACCCGTTAAATTTGATTTCTGGTAAATGTAGACCATTTTTGTCTT-AAAAATGATTTTTCT
4449453 TAAATTTCTTTTAAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTCTATGGCGACT
65 TAAATTTCTTTT-AAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTCTATGGCGACT
4449518 CTATTCAATTTAATCCAAATTAAT
129 CTATTCAATTTAATCCAAATTAAT
4449542 CCAAAATACT
Statistics
Matches: 151, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
153 49 0.32
154 27 0.18
155 58 0.38
156 17 0.11
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (154 bp):
CCGAACCCGTTAAATTTGATTTCTGGTAAATGTAGACCATTTTTGTCTTAAAAATGATTTTTCTT
AAATTTCTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTCTATGGCGACTCT
ATTCAATTTAATCCAAATTAATTC
Found at i:4451776 original size:20 final size:20
Alignment explanation
Indices: 4451747--4451788 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4451737 ATTCTCTATC
*
4451747 TCTTTGAGACCTTGAAATAT
1 TCTTTGAGACCTTGAAACAT
*
4451767 TCTTTTAGACCTTGAAACAT
1 TCTTTGAGACCTTGAAACAT
4451787 TC
1 TC
4451789 CCTCTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (20 bp):
TCTTTGAGACCTTGAAACAT
Found at i:4453685 original size:14 final size:14
Alignment explanation
Indices: 4453656--4453693 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
4453646 CTCGAGAAAA
4453656 ACATACAT-CA-AC
1 ACATACATACATAC
4453668 ACATACATACATAC
1 ACATACATACATAC
4453682 ACATACATACAT
1 ACATACATACAT
4453694 GATACATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 2 0.08
14 14 0.58
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ACATACATACATAC
Found at i:4454329 original size:105 final size:102
Alignment explanation
Indices: 4454142--4454380 Score: 281
Period size: 105 Copynumber: 2.3 Consensus size: 102
4454132 TGAGAATTTT
* * *
4454142 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
4454207 AAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
66 AAAAACAAAATTAATCTCA-CTTGAGA-TC--GTTT-TCTCA
* *
4454247 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGAT-CAAAATTTCGAATTTGTTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATAC-AAATTTCGAATTTGATTCAC
* * *
4454311 -ATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TA-AAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
4454349 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
4454381 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
101 3 0.03
102 30 0.25
103 3 0.03
104 7 0.06
105 75 0.64
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
AAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:4454371 original size:36 final size:36
Alignment explanation
Indices: 4454326--4454410 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
4454316 ACAAAGTTGA
**
4454326 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
4454362 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
4454398 TCTCATTTGAGAC
1 TCTCACTTGAGAC
4454411 TGTATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:4454722 original size:27 final size:28
Alignment explanation
Indices: 4454692--4454807 Score: 161
Period size: 27 Copynumber: 4.2 Consensus size: 28
4454682 ATTTCTTTTG
4454692 AAAAAATCTTTGAG-TTGTTCCTCTTGA
1 AAAAAATCTTTGAGTTTGTTCCTCTTGA
4454719 AAAAAATCTTTGAG-TTGTTCCTCTTG-
1 AAAAAATCTTTGAGTTTGTTCCTCTTGA
4454745 AAAAAATC-TTGAGTTTGTTCCT-TTGA
1 AAAAAATCTTTGAGTTTGTTCCTCTTGA
* *
4454771 ATAAAAATCTTTGAGTTTGTTTCTTTTGA
1 A-AAAAATCTTTGAGTTTGTTCCTCTTGA
4454800 AACAAAAT
1 AA-AAAAT
4454808 TTGTCTCTCT
Statistics
Matches: 82, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
25 8 0.10
26 17 0.21
27 33 0.40
28 14 0.17
29 10 0.12
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (28 bp):
AAAAAATCTTTGAGTTTGTTCCTCTTGA
Found at i:4454749 original size:53 final size:54
Alignment explanation
Indices: 4454689--4454801 Score: 169
Period size: 53 Copynumber: 2.1 Consensus size: 54
4454679 ACAATTTCTT
4454689 TTGAAAAAATCTTTGAG-TTGTTCCTCTTGAA-AAAAATCTTTGAG-TTGTTCCTC
1 TTGAAAAAATC-TTGAGTTTGTTCCT-TTGAATAAAAATCTTTGAGTTTGTTCCTC
* *
4454742 TTGAAAAAATCTTGAGTTTGTTCCTTTGAATAAAAATCTTTGAGTTTGTTTCTT
1 TTGAAAAAATCTTGAGTTTGTTCCTTTGAATAAAAATCTTTGAGTTTGTTCCTC
4454796 TTGAAA
1 TTGAAA
4454802 CAAAATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
52 10 0.18
53 32 0.58
54 13 0.24
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (54 bp):
TTGAAAAAATCTTGAGTTTGTTCCTTTGAATAAAAATCTTTGAGTTTGTTCCTC
Found at i:4454844 original size:65 final size:65
Alignment explanation
Indices: 4454766--4455059 Score: 350
Period size: 64 Copynumber: 4.5 Consensus size: 65
4454756 AGTTTGTTCC
4454766 TTTGAATAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAA-TTTGTCTCTCTTAAGATAATTTC
1 TTTGAA-AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTC
4454830 T
65 T
4454831 TTTGAAACAAAATCTTTGAG-TTGTTTCTTTTG-AACAAAATTTTGTCTCTCTTAAGATAATTTC
1 TTTGAAA-AAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTC
4454894 T
65 T
* *
4454895 TTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAGCAAAATTTTGTCTCTCTTAAGATAATTT
1 TTTG-AA-AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTT
4454960 CT
64 CT
* * * * * * * *
4454962 TTTG-AAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGACAGTTTC
1 TTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAACA-AAATTTTGTCTCTCTTAAGATAATTTC
4455024 T
65 T
* ** * *
4455025 CTTGAAGTAAATCTTTGAATATG-TTCATTTTGAAA
1 TTTGAAAAAAATCTTTGAGTTTGTTTC-TTTTGAAA
4455060 ATCTTTGAGT
Statistics
Matches: 202, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
62 1 0.00
63 38 0.19
64 80 0.40
65 36 0.18
66 12 0.06
67 35 0.17
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (65 bp):
TTTGAAAAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTCT
Found at i:4455002 original size:130 final size:130
Alignment explanation
Indices: 4454773--4455030 Score: 371
Period size: 130 Copynumber: 2.0 Consensus size: 130
4454763 TCCTTTGAAT
*
4454773 AAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAA
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAA
* * * * *
4454838 CAAAATCTTTGAGTTGTTTCTTTTGAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAAC
66 CAAAATCTTTGAATTGTTTCTCTTGAACAAAATTTTGTATCTCTTAAGACAATTTCTCTTGAAAC
*
4454903 AAAAATCTTTGAGTTTGTTTCTTTGGAAGCAAAATTTTGTCTCTCTTAAGATAATTTCTTTTG-A
1 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATAATTTCTTTTGAA
* *
4454967 A-AAAATCTTTGAATCTGTTTCTCTT-AA-AATGAATTTTGTATCTCTTGAGACAGTTTCTCTTG
65 ACAAAATCTTTGAAT-TGTTTCTCTTGAACAA--AATTTTGTATCTCTTAAGACAATTTCTCTTG
4455029 AA
127 AA
4455031 GTAAATCTTT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
128 2 0.02
129 14 0.12
130 71 0.62
131 28 0.24
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (130 bp):
AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAA
CAAAATCTTTGAATTGTTTCTCTTGAACAAAATTTTGTATCTCTTAAGACAATTTCTCTTGAAAC
Found at i:4455213 original size:117 final size:113
Alignment explanation
Indices: 4455089--4455302 Score: 263
Period size: 113 Copynumber: 1.9 Consensus size: 113
4455079 TTAACAAAAT
* * *
4455089 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTT-GAGACAATTTCTAATTAAAAACT
1 CATCTTTGAGTCTA-TTCTTTAAAAA-AAATGTTATCTCTTAAAGACAATTTCT--TGAAAAA--
4455153 AA-CTTTTGAG-ATGTTTCATTTGAAACAAATTTGGTCTTACTTAAGATGTAATC
60 AATC-TTTGAGTATGTTTCATTTGAAACAAATTTGGTCTTACTTAAGATGTAATC
** *
4455206 CATCTTTGAGTCTATTCTTTTGAAAAAATTTTATCTCTTAAAGACAATTTCTTGAAAAAAATCTT
1 CATCTTTGAGTCTATTCTTTAAAAAAAATGTTATCTCTTAAAGACAATTTCTTGAAAAAAATCTT
* * *
4455271 TGAGTTTGTTTCCTTTGAAACAAATTTTGTCT
66 TGAGTATGTTTCATTTGAAACAAATTTGGTCT
4455303 CTCGAGACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
112 8 0.09
113 25 0.29
114 6 0.07
115 12 0.14
116 20 0.24
117 14 0.16
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (113 bp):
CATCTTTGAGTCTATTCTTTAAAAAAAATGTTATCTCTTAAAGACAATTTCTTGAAAAAAATCTT
TGAGTATGTTTCATTTGAAACAAATTTGGTCTTACTTAAGATGTAATC
Found at i:4455311 original size:60 final size:59
Alignment explanation
Indices: 4455207--4455318 Score: 136
Period size: 60 Copynumber: 1.9 Consensus size: 59
4455197 GATGTAATCC
* *
4455207 ATCTTTGAGTCTATTCTTTTGAAAAAATTTTATCTCTTAAAGACAATTTCTTGAAAAAA
1 ATCTTTGAGTCTATTCCTTTGAAAAAATTTTATCTCTTAAAGACAACTTCTTGAAAAAA
* * * **
4455266 ATCTTTGAGTTTGTTTCCTTTGAAACAAATTTTGTCTC-TCGAGACAACTTCTT
1 ATCTTTGAGTCT-ATTCCTTTGAAA-AAATTTTATCTCTTAAAGACAACTTCTT
4455319 TTGAAAATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
59 11 0.25
60 22 0.50
61 11 0.25
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (59 bp):
ATCTTTGAGTCTATTCCTTTGAAAAAATTTTATCTCTTAAAGACAACTTCTTGAAAAAA
Found at i:4455370 original size:40 final size:40
Alignment explanation
Indices: 4455307--4455386 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
4455297 TTGTCTCTCG
*
4455307 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
* * *
4455347 AGACAATTTCTTTT-AAAACTACCCACCTTGGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTGGAGATCGTTT
4455387 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
Found at i:4455463 original size:31 final size:30
Alignment explanation
Indices: 4455428--4455488 Score: 70
Period size: 31 Copynumber: 2.0 Consensus size: 30
4455418 GTTTCTCTAG
*
4455428 AAATACAAA-ATCTTTGAGTTTGTTTCACTTA
1 AAATA-AAACATCTTTGAG-TCGTTTCACTTA
*
4455459 AAATAAAACCATTTTTGAGTCGTTTCACTT
1 AAATAAAA-CATCTTTGAGTCGTTTCACTT
4455489 GAAACATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 3 0.12
31 15 0.58
32 8 0.31
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (30 bp):
AAATAAAACATCTTTGAGTCGTTTCACTTA
Found at i:4455504 original size:15 final size:15
Alignment explanation
Indices: 4455481--4455524 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
4455471 TTTTGAGTCG
*
4455481 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
4455496 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
4455511 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
4455525 AGATCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:4455854 original size:35 final size:37
Alignment explanation
Indices: 4455788--4455867 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 37
4455778 TGTTTCTTTG
* * *
4455788 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT-
1 GAAACAAAATTAAACATCTTTGAAACTGTTTCCCTTA
4455824 GAAACAAAA-TAAACATCTTTGAGAAC-GTTTCCCTTA
1 GAAACAAAATTAAACATCTTTGA-AACTGTTTCCCTTA
*
4455860 AAAACAAA
1 GAAACAAA
4455868 TTTTGTCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 20 0.53
36 18 0.47
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (37 bp):
GAAACAAAATTAAACATCTTTGAAACTGTTTCCCTTA
Found at i:4456251 original size:43 final size:43
Alignment explanation
Indices: 4456178--4456381 Score: 157
Period size: 43 Copynumber: 4.7 Consensus size: 43
4456168 TCATCCCCAG
* * *
4456178 ACCAGATCTCCTCATCACGTAGGAGTCGTGTCAACCATGGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * *
4456221 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * * ** *
4456267 GCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCACCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCA-TAGATA
*
4456308 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* *
4456351 ACCAG-CTGTCCTCATCACGTAGGAACCGTGT
1 ACCAGAC-CTCCTCATCACGTAGGAGCCGTGT
4456382 TATCACCTAA
Statistics
Matches: 122, Mismatches: 29, Indels: 20
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.02
41 30 0.25
42 1 0.01
43 54 0.44
44 3 0.02
45 3 0.02
46 28 0.23
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:4456365 original size:130 final size:129
Alignment explanation
Indices: 4456132--4456421 Score: 445
Period size: 130 Copynumber: 2.2 Consensus size: 129
4456122 CATTATTCCT
* * * * * *
4456132 AAGATGGCCAGTAGTCCTCATCACATAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACG
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCACCAGACCAGATCTCCTCATCACG
* * *
4456197 TAGGAGTCGTGTCAACCATGGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * *
4456261 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCACCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCA-TCACCAGACCAGATCTCCTCATCAC
*
4456326 GTAGGAGCCGTGTCAACCATAGATAACCAGCTGTCCTCATCACGTAGGAACCGTGTTATCACCTA
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
4456391 AAGATGGCCAAGAACTCTTCATCACGTAGGA
1 AAGATGGCC-AGAACTCTTCATCACGTAGGA
4456422 GAAGTGTCAT
Statistics
Matches: 144, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 31 0.22
130 93 0.65
131 20 0.14
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCACCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
Found at i:4456682 original size:3 final size:3
Alignment explanation
Indices: 4456669--4456718 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
4456659 TTTTTTATCG
4456669 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
4456713 ATA TTA
1 TTA TTA
4456719 CATTTTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4456884 original size:25 final size:25
Alignment explanation
Indices: 4456855--4457003 Score: 223
Period size: 25 Copynumber: 6.0 Consensus size: 25
4456845 CCAATAACCC
4456855 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
4456880 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
4456905 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
4456930 ATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
4456955 ATTA-ATTTAGGGTTTCAAACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
4456980 ATCA-ATTTAGGGTTTC-AACCCTAA
1 ATCAGA-TTAGGGTTTCAAACCCTAA
4457004 TCCCCTTCCA
Statistics
Matches: 119, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
24 8 0.07
25 111 0.93
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:4456922 original size:50 final size:50
Alignment explanation
Indices: 4456855--4457003 Score: 255
Period size: 50 Copynumber: 3.0 Consensus size: 50
4456845 CCAATAACCC
*
4456855 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
4456905 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
* * *
4456955 ATTAATTTAGGGTTTCAAACCCTAAATCAATTTAGGGTTTC-AACCCTAA
1 ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
4457004 TCCCCTTCCA
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 8 0.08
50 87 0.92
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (50 bp):
ATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAA
Found at i:4456944 original size:75 final size:74
Alignment explanation
Indices: 4456855--4457003 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 74
4456845 CCAATAACCC
* *
4456855 ATCAGATTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTTCAAACCCTAAATCAGTTTAGGGTTT
1 ATCAGATTAGGGTTTCAAACCCTAAATCAATTTAGGGTTTCAAACCCTAAATCAATTTAGGGTTT
4456920 CAAACCCTAA
66 C-AACCCTAA
* *
4456930 ATCAGTTTAGGGTTTCAAACCCTAAATTAATTTAGGGTTTCAAACCCTAAATCAATTTAGGGTTT
1 ATCAGATTAGGGTTTCAAACCCTAAATCAATTTAGGGTTTCAAACCCTAAATCAATTTAGGGTTT
4456995 CAACCCTAA
66 CAACCCTAA
4457004 TCCCCTTCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 8 0.11
75 62 0.89
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (74 bp):
ATCAGATTAGGGTTTCAAACCCTAAATCAATTTAGGGTTTCAAACCCTAAATCAATTTAGGGTTT
CAACCCTAA
Found at i:4471051 original size:17 final size:18
Alignment explanation
Indices: 4471018--4471051 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4471008 CCGTTATTAG
4471018 TGAACCGGTCGGAACCGC
1 TGAACCGGTCGGAACCGC
*
4471036 TGAACCGTTC-GAACCG
1 TGAACCGGTCGGAACCG
4471052 GACCTACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCGGAACCGC
Found at i:4472409 original size:14 final size:14
Alignment explanation
Indices: 4472390--4472417 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4472380 ATTATATTGC
4472390 ATTTTTAATTAATT
1 ATTTTTAATTAATT
4472404 ATTTTTAATTAATT
1 ATTTTTAATTAATT
4472418 TCTAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTAATTAATT
Found at i:4479294 original size:18 final size:18
Alignment explanation
Indices: 4479256--4479293 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
4479246 TTTAACAAAG
4479256 AAAGAAAAAAGCAAGATA
1 AAAGAAAAAAGCAAGATA
4479274 AAAG-AAAAAGCAAGATA
1 AAAGAAAAAAGCAAGATA
4479291 AAA
1 AAA
4479294 ATGTCATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAGAAAAAAGCAAGATA
Found at i:4480970 original size:73 final size:71
Alignment explanation
Indices: 4480841--4480976 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 71
4480831 TCATCCATGC
* * *
4480841 ATGCTCCATGATAAAAGAAACAAATAGTAAATCAGATAGCAGTCATGACCAGTTGAAGTTGGACA
1 ATGCTCCATAATAAAAGAAAAAAAGAGTAAATCAGATAGCAGTCATGACCAGTTGAAGTTGGACA
4480906 CAGTTA
66 CAGTTA
* * *
4480912 ATGCTCCATAATAAAAGAAAAAAAAAGAGTGAATCAGCTAGCAGTCATGTA-CATTTGAAGTTGG
1 ATGCTCCATAATAAAAG--AAAAAAAGAGTAAATCAGATAGCAGTCATG-ACCAGTTGAAGTTGG
4480976 A
63 A
4480977 TGCAATTACA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 16 0.29
73 39 0.70
74 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (71 bp):
ATGCTCCATAATAAAAGAAAAAAAGAGTAAATCAGATAGCAGTCATGACCAGTTGAAGTTGGACA
CAGTTA
Found at i:4482774 original size:16 final size:17
Alignment explanation
Indices: 4482743--4482778 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4482733 AAGTTTGAAA
4482743 TATAAGATATAATAATC
1 TATAAGATATAATAATC
*
4482760 TATAATATA-AATAATC
1 TATAAGATATAATAATC
4482776 TAT
1 TAT
4482779 TATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
TATAAGATATAATAATC
Found at i:4483514 original size:30 final size:31
Alignment explanation
Indices: 4483480--4483543 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
4483470 GATTACGTGA
*
4483480 TGTTAT-AAATAATCATTAGAA-TTATTAAAT
1 TGTTATAAAATAATCATT-GAATTTATCAAAT
4483510 TGTTATAAAATAATCATTGAATTTATCAAAT
1 TGTTATAAAATAATCATTGAATTTATCAAAT
4483541 TGT
1 TGT
4483544 ATTATTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
TGTTATAAAATAATCATTGAATTTATCAAAT
Found at i:4491463 original size:19 final size:19
Alignment explanation
Indices: 4491439--4491476 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4491429 TGACACAGTT
4491439 GTTAATGTTGATATTCCGG
1 GTTAATGTTGATATTCCGG
4491458 GTTAATGTTGATATTCCGG
1 GTTAATGTTGATATTCCGG
4491477 TTTCCAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (19 bp):
GTTAATGTTGATATTCCGG
Found at i:4502806 original size:110 final size:110
Alignment explanation
Indices: 4502656--4503184 Score: 576
Period size: 110 Copynumber: 5.0 Consensus size: 110
4502646 TAACGAGTTT
* * * * **
4502656 GCTCCCTATTCGTTCAGGGAGTATA-AGACTCGAACAATCTTCAGCAAACGTGTCTACTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACTTGTCCGCTCCCTAT
* *
4502720 TCATTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCC
65 TCATTCAGAGAGTATAGGACTCGAACAATCTTCA-ACAAACGGGTCC
* ** * *
4502766 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAAC-GGATCCGCTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTG-TCCGCTCCCTAT
* * * **
4502830 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCC
65 TCATTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGGGTCC
* * *
4502876 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCCGCTCCCTATT
* * *
4502937 CCTTCAGAGAGTATAGGACTCGAGCAATCTTCATA-AAACGGGTTC
66 CATTCAGAGAGTATAGGACTCGAACAATCTTCA-ACAAACGGGTCC
* *
4502982 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCCGCTCCCTATT
* **
4503047 CATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
66 CATTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGGGTCC
* * *
4503088 GCTCCCTATTCTTTCAGGGAGTATAGGACT----CAATCTTCAACAAACTTGTCCGCTCCCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCCGCTCCCTATT
* *
4503149 CTTTCAGGGAGTATAGGACT----CAATCTTCAACAAACG
66 CATTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACG
4503185 AATTTGCTTC
Statistics
Matches: 364, Mismatches: 45, Indels: 28
0.83 0.10 0.06
Matches are distributed among these distances:
102 62 0.17
105 1 0.00
106 130 0.36
107 2 0.01
109 2 0.01
110 166 0.46
111 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (110 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACTTGTCCGCTCCCTATT
CATTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGGGTCC
Found at i:4502931 original size:51 final size:52
Alignment explanation
Indices: 4502656--4503183 Score: 512
Period size: 55 Copynumber: 9.9 Consensus size: 52
4502646 TAACGAGTTT
* * * * * *
4502656 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT---ACAATCTTCAACAAACTTGTCC
* * * * **
4502711 ACTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT---ACAATCTTCA-ACAAACTTGTCC
* * ** *
4502766 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAAC-GGATCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT---ACAATCTTCAACAAACTTG-TCC
* * *
4502821 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT---ACAATCTTCAACAAACTTGTCC
* *
4502876 GCTCCCTATTCATTCAGAGAGTATAGGACT-CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTACAATCTTCAACAAACTTGTCC
** *
4502927 GCTCCCTATTCCTTCAGAGAGTATAGGACTCGAGCAATCTTCATA-AAACGGGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT--A-CAATCTTCA-ACAAACTTGTCC
* * *
4502982 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT---ACAATCTTCAACAAACTTGTCC
* *
4503037 GCTCCCTATTCATTCAGAGAGTATAGGACT-CAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTACAATCTTCAACAAACTTGTCC
* *
4503088 GCTCCCTATTCTTTCAGGGAGTATAGGACT-CAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTACAATCTTCAACAAACTTGTCC
* *
4503139 GCTCCCTATTCTTTCAGGGAGTATAGGACT-CAATCTTCAACAAAC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTACAATCTTCAACAAAC
4503184 GAATTTGCTT
Statistics
Matches: 422, Mismatches: 40, Indels: 26
0.86 0.08 0.05
Matches are distributed among these distances:
51 160 0.38
54 3 0.01
55 256 0.61
56 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (52 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTACAATCTTCAACAAACTTGTCC
Found at i:4502987 original size:161 final size:161
Alignment explanation
Indices: 4502647--4503118 Score: 669
Period size: 161 Copynumber: 2.9 Consensus size: 161
4502637 ATCTTCGAAT
* * * * * ** * *
4502647 AACGAGTTTGCTCCCTATTCGTTCAGGGAGTATA-AGACTCGAACAATCTTCAGCAAACGTGTCT
1 AACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAACTTGTCC
* * * * ** *
4502711 ACTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTAT
65 GCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGTCCGCTCCCTAT
* *
4502775 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGA
125 TCCTTCAGAGAGTATAGGACTCGAACAATCTTCATAA
* *
4502812 AACGGATCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCG
1 AACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCG
4502877 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC
66 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC
*
4502942 AGAGAGTATAGGACTCGAGCAATCTTCATAA
131 AGAGAGTATAGGACTCGAACAATCTTCATAA
4502973 AACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCG
1 AACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCG
*
4503038 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCTTTC
66 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC
*
4503103 AGGGAGTATAGGACTC
131 AGAGAGTATAGGACTC
4503119 AATCTTCAAC
Statistics
Matches: 280, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
160 1 0.00
161 200 0.71
165 78 0.28
166 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (161 bp):
AACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAACTTGTCCG
CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTC
AGAGAGTATAGGACTCGAACAATCTTCATAA
Found at i:4504407 original size:17 final size:17
Alignment explanation
Indices: 4504378--4504462 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
4504368 TGAACCCTCC
*
4504378 TTTT-ATTTCTCTCTTT
1 TTTTCATTTTTCTCTTT
4504394 TTTTCATTTTTCTCTTT
1 TTTTCATTTTTCTCTTT
*
4504411 TCTTT--TTTTT-T-TAT
1 T-TTTCATTTTTCTCTTT
*
4504425 TTTTCATTTTT-TCTTCCA
1 TTTTCATTTTTCTCTT--T
*
4504443 TTTTC-TTCTTCTCTTT
1 TTTTCATTTTTCTCTTT
4504459 TTTT
1 TTTT
4504463 TTTCGTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 7 0.13
16 14 0.25
17 16 0.29
18 12 0.22
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATTTTTCTCTTT
Found at i:4504416 original size:12 final size:11
Alignment explanation
Indices: 4504400--4504538 Score: 55
Period size: 11 Copynumber: 12.6 Consensus size: 11
4504390 CTTTTTTTCA
4504400 TTTTTCTCTTT
1 TTTTTCTCTTT
4504411 TCTTTT-T-TTT
1 T-TTTTCTCTTT
*
4504421 TTATTTTTCATTT
1 TT-TTTCTC-TTT
4504434 TTTCTTC-CATTT
1 TTT-TTCTC-TTT
4504446 TCTTCTTCTCTTT
1 T-TT-TTCTCTTT
* *
4504459 TTTTTTTCGTT
1 TTTTTCTCTTT
* *
4504470 TTTTCCATC-AT
1 TTTTTC-TCTTT
4504481 TTTTTC-C---
1 TTTTTCTCTTT
4504488 TTTTTCTCATTT
1 TTTTTCTC-TTT
4504500 TTTTTCTCTTT
1 TTTTTCTCTTT
4504511 TTTTT-TC-TT
1 TTTTTCTCTTT
*
4504520 CTTTTCTTCTTT
1 TTTTTC-TCTTT
*
4504532 TATTTCT
1 TTTTTCT
4504539 TCTTCAAGCG
Statistics
Matches: 101, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
7 6 0.06
8 1 0.01
9 8 0.08
10 9 0.09
11 30 0.30
12 29 0.29
13 17 0.17
14 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:4504436 original size:25 final size:24
Alignment explanation
Indices: 4504391--4504465 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
4504381 TATTTCTCTC
4504391 TTTTTTTCATTTTTCTCTTTTCTT
1 TTTTTTTCATTTTTCTCTTTTCTT
* *
4504415 TTTTTTTTATTTTTCATTTTTTCTT
1 TTTTTTTCATTTTTC-TCTTTTCTT
*** *
4504440 CCATTTTC-TTCTTCTCTTTT-TT
1 TTTTTTTCATTTTTCTCTTTTCTT
4504462 TTTT
1 TTTT
4504466 CGTTTTTTCC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
22 3 0.08
23 5 0.13
24 19 0.49
25 12 0.31
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTTCATTTTTCTCTTTTCTT
Found at i:4504539 original size:12 final size:11
Alignment explanation
Indices: 4504400--4504542 Score: 68
Period size: 10 Copynumber: 13.0 Consensus size: 11
4504390 CTTTTTTTCA
4504400 TTTTTC-TCTT
1 TTTTTCTTCTT
4504410 TTCTTT-TT-TT
1 TT-TTTCTTCTT
* *
4504420 TTTATTTTTCAT
1 TTT-TTCTTCTT
4504432 TTTTTCTTCCATT
1 TTTTTCTT-C-TT
*
4504445 TTCTTCTTCTCTT
1 TTTTTC-T-TCTT
*
4504458 TTTTTTTTCGTT
1 TTTTTCTTC-TT
* * *
4504470 TTTTCCATCAT
1 TTTTTCTTCTT
4504481 TTTTTC--CTT
1 TTTTTCTTCTT
* *
4504490 TTTCTCAT-TT
1 TTTTTCTTCTT
4504500 TTTTTC-TCTT
1 TTTTTCTTCTT
4504510 TTTTT-TTCTT
1 TTTTTCTTCTT
*
4504520 CTTTTCTTCTT
1 TTTTTCTTCTT
4504531 TTATTTCTTCTT
1 TT-TTTCTTCTT
4504543 CAAGCGAAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
9 9 0.09
10 30 0.30
11 24 0.24
12 23 0.23
13 12 0.12
14 2 0.02
15 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:4518458 original size:15 final size:16
Alignment explanation
Indices: 4518438--4518467 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4518428 GGCTGCTTTG
4518438 AATGCTTTG-ATTTTC
1 AATGCTTTGAATTTTC
4518453 AATGCTTTGAATTTT
1 AATGCTTTGAATTTT
4518468 TAACACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (16 bp):
AATGCTTTGAATTTTC
Found at i:4519438 original size:23 final size:23
Alignment explanation
Indices: 4519412--4519475 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
4519402 CAGCTTATAT
*
4519412 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACATAG
* * *
4519435 AATTTCACCAAAGTGCCGCATAG
1 AATTGCACCGAAGTGCCACATAG
*
4519458 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
4519476 TATAATAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:4520421 original size:2 final size:2
Alignment explanation
Indices: 4520414--4520451 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4520404 ATATCTCCTA
4520414 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4520452 TAATCTCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4531039 original size:17 final size:17
Alignment explanation
Indices: 4531017--4531055 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4531007 GCCTGACCCG
*
4531017 ACCCGACCCGTTGACCA
1 ACCCGACCAGTTGACCA
*
4531034 ACCCGACCAGTTGACCG
1 ACCCGACCAGTTGACCA
4531051 ACCCG
1 ACCCG
4531056 TTGACCCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.46, G:0.21, T:0.10
Consensus pattern (17 bp):
ACCCGACCAGTTGACCA
Found at i:4531109 original size:28 final size:28
Alignment explanation
Indices: 4531068--4531256 Score: 281
Period size: 28 Copynumber: 6.6 Consensus size: 28
4531058 GACCCGACAC
4531068 AGTGACATTTTGGGAATTATTTTGAAAA
1 AGTGACATTTTGGGAATTATTTTGAAAA
*
4531096 AGTGACATTCTGGGAATTATTTTGAAAA
1 AGTGACATTTTGGGAATTATTTTGAAAA
4531124 AGGTGACATTTTGGGAATTATTTTGAAAA
1 A-GTGACATTTTGGGAATTATTTTGAAAA
*
4531153 AGTGACATTATGGGAATTATTTTGAAAA
1 AGTGACATTTTGGGAATTATTTTGAAAA
* *
4531181 AGTGATATTTTAGGAATTATTTTGAAAA
1 AGTGACATTTTGGGAATTATTTTGAAAA
* *
4531209 AGGTGACATTATGAGAATTATTTTGAAAA
1 A-GTGACATTTTGGGAATTATTTTGAAAA
4531238 AGGTTG-CATTTTGGGAATT
1 A-G-TGACATTTTGGGAATT
4531257 TTCGAATGTG
Statistics
Matches: 146, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
28 80 0.55
29 64 0.44
30 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (28 bp):
AGTGACATTTTGGGAATTATTTTGAAAA
Found at i:4531157 original size:57 final size:57
Alignment explanation
Indices: 4531069--4531256 Score: 308
Period size: 57 Copynumber: 3.3 Consensus size: 57
4531059 ACCCGACACA
*
4531069 GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTGGGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTATGGGAATTATTTTGAAAAAG
4531126 GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTATGGGAATTATTTTGAAAAA-
1 GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTATGGGAATTATTTTGAAAAAG
* * *
4531182 GTGATATTTTAGGAATTATTTTGAAAAAGGTGACATTATGAGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAA-GTGACATTATGGGAATTATTTTGAAAAAG
4531240 GTTG-CATTTTGGGAATT
1 G-TGACATTTTGGGAATT
4531257 TTCGAATGTG
Statistics
Matches: 122, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
56 26 0.21
57 82 0.67
58 12 0.10
59 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (57 bp):
GTGACATTTTGGGAATTATTTTGAAAAAGTGACATTATGGGAATTATTTTGAAAAAG
Found at i:4531211 original size:85 final size:85
Alignment explanation
Indices: 4531068--4531256 Score: 299
Period size: 85 Copynumber: 2.2 Consensus size: 85
4531058 GACCCGACAC
*
4531068 AGTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTGGGAATTATTTTGAAAAAGGTGACAT
1 AGTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTAGGAATTATTTTGAAAAAGGTGACAT
* *
4531133 TTTGGGAATTATTTTGAAAA
66 TATGAGAATTATTTTGAAAA
* * *
4531153 AGTGACATTATGGGAATTATTTTGAAAAAGTGATATTTTAGGAATTATTTTGAAAAAGGTGACAT
1 AGTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTAGGAATTATTTTGAAAAAGGTGACAT
4531218 TATGAGAATTATTTTGAAAA
66 TATGAGAATTATTTTGAAAA
4531238 AGGTTG-CATTTTGGGAATT
1 A-G-TGACATTTTGGGAATT
4531257 TTCGAATGTG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
85 80 0.84
86 13 0.14
87 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (85 bp):
AGTGACATTTTGGGAATTATTTTGAAAAAGTGACATTCTAGGAATTATTTTGAAAAAGGTGACAT
TATGAGAATTATTTTGAAAA
Found at i:4532183 original size:32 final size:31
Alignment explanation
Indices: 4532109--4532185 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
4532099 CTAATGTGAC
* * *
4532109 TCTTAGGTAGGCTCTGCGGCTCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
** **
4532140 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-CAT
4532172 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
4532186 CACGGCCCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATCAT
Found at i:4532301 original size:25 final size:25
Alignment explanation
Indices: 4532249--4532301 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
4532239 AGGATAACTC
*
4532249 TTTTATGAGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
4532274 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATAA
4532299 TTT
1 TTT
4532302 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:4534135 original size:68 final size:67
Alignment explanation
Indices: 4534031--4534156 Score: 216
Period size: 68 Copynumber: 1.9 Consensus size: 67
4534021 CAAAAATTCA
* * *
4534031 CTTATGTCTGATTACTTTTGAGTTCTGACTGTAGTAATCTTTTTAAAAAAAACTTTTTTTAAAAT
1 CTTATATCTGATTACTTCTGAGTTCTGACTGCAGTAATC-TTTTAAAAAAAACTTTTTTTAAAAT
4534096 GCT
65 GCT
4534099 CTTATATCTGATTACTTCTGAGTTCTGACTGCAGTAATCTTTTAAAAAAAACTTTTTT
1 CTTATATCTGATTACTTCTGAGTTCTGACTGCAGTAATCTTTTAAAAAAAACTTTTTT
4534157 ACTCGTTCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
67 19 0.35
68 36 0.65
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.46
Consensus pattern (67 bp):
CTTATATCTGATTACTTCTGAGTTCTGACTGCAGTAATCTTTTAAAAAAAACTTTTTTTAAAATG
CT
Found at i:4537001 original size:208 final size:201
Alignment explanation
Indices: 4536618--4537026 Score: 572
Period size: 208 Copynumber: 2.0 Consensus size: 201
4536608 CTTATTCAAG
* *
4536618 TATCGTGTGGAAACTTGAATTCATAAAATCGAAGTTTTTGTTTCAGAATAAGGTCCAGTACGAAA
1 TATCCTGTGGAAACTTGAATTCATAAAATCGAAGTTTCTGTTTCAGAATAAGGTCCAGTACGAAA
* * *
4536683 ATGTTATGAAAGAAAAGGTTCTTCCTCAAATTAAGGAGGTAGAGGCATAATATGTGGAACTAGAA
66 ATGTTATGAAAGAAAAGGTTCTTCCTCAAATTAAGGAGGCAGAGGCAGAAAATGTGGAACTAGAA
* *
4536748 AAGAATCAAGGTTGATATTTATGCCTTTATAGATATACTAACCAATTGTAGCCCATGTTATACTT
131 AAGAATCAAGGTTGATATTTATGCATCTATAGATATACTAACCAATTGTAGCCCATGTTATA-TT
4536813 CTGCAAC
195 CTGCAAC
* * * * *
4536820 TATCCTGTGGAAACTTGAATTCA-GAAATTGAAGTTTCTGTTTTAGAAT-TGAGTCCAGTATGAA
1 TATCCTGTGGAAACTTGAATTCATAAAATCGAAGTTTCTGTTTCAGAATAAG-GTCCAGTACGAA
*
4536883 AATGTTATGAAAG-AAAGGTTCTTCCTCAAATTAAGGAGGCAGAGGCAGAGGCAGAAAATGTGGG
65 AATGTTATGAAAGAAAAGGTTCTTCCTCAAATT-A--A-G--GAGGCAGAGGCAGAAAATGTGGA
*
4536947 ACTAGAAAAGAATCGTAAGGTTGATATTTATGCATCTCTAGATATACTAACCAATTGTAGCCCAT
124 ACTAGAAAAGAATC--AAGGTTGATATTTATGCATCTATAGATATACTAACCAATTGTAGCCCAT
*
4537012 GTTATATTTTGCAAC
187 GTTATATTCTGCAAC
4537027 ATTGCGGGAG
Statistics
Matches: 183, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
200 20 0.11
201 46 0.25
202 22 0.12
203 1 0.01
204 1 0.01
206 33 0.18
207 8 0.04
208 52 0.28
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (201 bp):
TATCCTGTGGAAACTTGAATTCATAAAATCGAAGTTTCTGTTTCAGAATAAGGTCCAGTACGAAA
ATGTTATGAAAGAAAAGGTTCTTCCTCAAATTAAGGAGGCAGAGGCAGAAAATGTGGAACTAGAA
AAGAATCAAGGTTGATATTTATGCATCTATAGATATACTAACCAATTGTAGCCCATGTTATATTC
TGCAAC
Found at i:4541547 original size:55 final size:54
Alignment explanation
Indices: 4541488--4542043 Score: 225
Period size: 51 Copynumber: 10.6 Consensus size: 54
4541478 AATGACGAGC
4541488 CTGCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATAAAACGTGT
1 CTGCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAACG-GT
* * * *
4541543 CTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATC-TTCATAAAAC-GGT
* * * *
4541599 CCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCAAAAAATCTTCA-ATAAACAGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCATA-AAAC-GGT
* * * * * *
4541654 CTGCTCCCTATTCTTTCAGGGAGTATAGGACT----CAATCCTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * *
4541705 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * *
4541756 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * *
4541807 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * * *
4541858 CCGCTCCCTATTCATTCAGAAAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * *
4541909 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ATGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * * * *
4541960 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-GGT
* * *
4542011 CCGCTCCCTATTCATTCAGAGAGTATAGGACTC
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTC
4542044 AATCTTCAAC
Statistics
Matches: 464, Mismatches: 30, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
51 343 0.74
54 1 0.00
55 73 0.16
56 46 0.10
57 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (54 bp):
CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGGT
Found at i:4541617 original size:56 final size:56
Alignment explanation
Indices: 4541488--4541686 Score: 226
Period size: 55 Copynumber: 3.6 Consensus size: 56
4541478 AATGACGAGC
* *
4541488 CTGCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATC-TTCATAAAACGTGT
1 CTGCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTTAATAAAACGGGT
* * *
4541543 CTGCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTTAATAAAACGGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGT
* * * * * *
4541599 CCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCAAAAAATCTTCAAT-AAACAGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTTAATAAAACGGGT
* * *
4541654 CTGCTCCCTATTCTTTCAGGGAGTATAGGACTC
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTC
4541687 AATCCTCAAC
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
55 71 0.58
56 52 0.42
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (56 bp):
CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACGGGT
Found at i:4541729 original size:51 final size:51
Alignment explanation
Indices: 4541597--4542057 Score: 769
Period size: 51 Copynumber: 9.0 Consensus size: 51
4541587 AATAAAACGG
* * * ** **
4541597 GTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCAAAAAATCTTCAATAAACAG
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAACGAACTT
* * * *
4541652 GTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCAATCCTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
4541703 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
4541754 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
4541805 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
4541856 GTCCGCTCCCTATTCATTCAGAAAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
4541907 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAATGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
4541958 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
4542009 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
4542058 GAATTTGCTT
Statistics
Matches: 388, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
51 358 0.92
55 30 0.08
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:4543210 original size:10 final size:10
Alignment explanation
Indices: 4543195--4543252 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
4543185 TTTCATTTTC
4543195 TCTTTTTCTT
1 TCTTTTTCTT
4543205 TCTTTTT-TT
1 TCTTTTTCTT
*
4543214 T-TTCTTCCCTT
1 TCTT-TT-TCTT
4543225 TCATTTTT-TCT
1 TC-TTTTTCT-T
4543236 TCTTTTTCTT
1 TCTTTTTCTT
4543246 TCTTTTT
1 TCTTTTT
4543253 TTCCATCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
8 2 0.05
9 5 0.13
10 21 0.54
11 7 0.18
12 2 0.05
13 2 0.05
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:4543225 original size:20 final size:21
Alignment explanation
Indices: 4543202--4543255 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4543192 TTCTCTTTTT
*
4543202 CTTTCTTTTTTTTTTC-TTCC
1 CTTTCTTTTTTTCTTCTTTCC
* **
4543222 CTTTCATTTTTTCTTCTTTTT
1 CTTTCTTTTTTTCTTCTTTCC
4543243 CTTTCTTTTTTTC
1 CTTTCTTTTTTTC
4543256 CATCATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTCTTTTTTTCTTCTTTCC
Found at i:4543271 original size:38 final size:41
Alignment explanation
Indices: 4543190--4543280 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 41
4543180 TCTTTTTTCA
* * *
4543190 TTTTC-TCTTTTTCTTTCTTTTTTTTTTCTTCCCTTTCA-TT
1 TTTTCTTCTTTTTCTTTC-TTTTTTTTCCATCCATTTCATTT
4543230 TTTTCTTCTTTTTCTTTC-TTTTTTTCCAT-CATTT-ATCTT
1 TTTTCTTCTTTTTCTTTCTTTTTTTTCCATCCATTTCAT-TT
*
4543269 TTTTCTTATTTT
1 TTTTCTTCTTTT
4543281 CTCATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
37 1 0.02
38 4 0.09
39 22 0.50
40 5 0.11
41 12 0.27
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (41 bp):
TTTTCTTCTTTTTCTTTCTTTTTTTTCCATCCATTTCATTT
Found at i:4543413 original size:124 final size:125
Alignment explanation
Indices: 4543260--4543508 Score: 484
Period size: 124 Copynumber: 2.0 Consensus size: 125
4543250 TTTTTCCATC
4543260 ATTTATCTTTTTTCTTATTTTCTCATTTTTTTCTCTTTTATTTCTTCTTCAAGC-AAATATCTCT
1 ATTTATCTTTTTTCTTATTTTCTCATTTTTTTCTCTTTTATTTCTTCTTCAAGCAAAATATCTCT
4543324 TAACAACATCGGAATTCACTGGATATGGTAATTCTGATCCGTCCATTTCAGTTAGGACTA
66 TAACAACATCGGAATTCACTGGATATGGTAATTCTGATCCGTCCATTTCAGTTAGGACTA
4543384 ATTTATC-TTTTTCTTATTTTCTCATTTTTTTCTCTTTTATTTCTTCTTCAAGCAAAATATCTCT
1 ATTTATCTTTTTTCTTATTTTCTCATTTTTTTCTCTTTTATTTCTTCTTCAAGCAAAATATCTCT
4543448 TAACAACATCGGAATTCACTGGATATGGTAATTCTGATCCGTCCATTTCAGTTAGGACTA
66 TAACAACATCGGAATTCACTGGATATGGTAATTCTGATCCGTCCATTTCAGTTAGGACTA
4543508 A
1 A
4543509 AGCTCCCCCA
Statistics
Matches: 124, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 46 0.37
124 78 0.63
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (125 bp):
ATTTATCTTTTTTCTTATTTTCTCATTTTTTTCTCTTTTATTTCTTCTTCAAGCAAAATATCTCT
TAACAACATCGGAATTCACTGGATATGGTAATTCTGATCCGTCCATTTCAGTTAGGACTA
Found at i:4548513 original size:38 final size:37
Alignment explanation
Indices: 4548461--4548536 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 37
4548451 TCTCAGACTC
4548461 TTTAGGTGATTAAGAGAATAACACCTACCACTTCTAG
1 TTTAGGTGATTAAGAGAATAACACCTACCACTTCTAG
4548498 TTTAGGTGGATTAAGAGAATAACACCTACCACTTCTAG
1 TTTAGGT-GATTAAGAGAATAACACCTACCACTTCTAG
4548536 T
1 T
4548537 AAAGCATCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (37 bp):
TTTAGGTGATTAAGAGAATAACACCTACCACTTCTAG
Found at i:4551577 original size:95 final size:95
Alignment explanation
Indices: 4551414--4551604 Score: 357
Period size: 95 Copynumber: 2.0 Consensus size: 95
4551404 TCAACTGTTC
4551414 CTCCACCGGCTGATATTTTCTGGATTCACCCATCGGAATATTGTCATGTACTCGACCGCTTCTCC
1 CTCCACCGGCTGATATTTTCTGGATTCACCCATCGGAATATTGTCATGTACTCGACCGCTTCTCC
4551479 ACTGCTCGTACTGTTGAGACAACTCGAGAT
66 ACTGCTCGTACTGTTGAGACAACTCGAGAT
*
4551509 CTCCACCGGCTGAATATTTTCTGGATTCA-CCATCGGAATATTGTCATTTACTCGACCGCTTCTC
1 CTCCACCGGCTG-ATATTTTCTGGATTCACCCATCGGAATATTGTCATGTACTCGACCGCTTCTC
4551573 CACTGCTCGTACTGTTGAGACAACTCGAGAT
65 CACTGCTCGTACTGTTGAGACAACTCGAGAT
4551604 C
1 C
4551605 ATAGGTAAAC
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 78 0.83
96 16 0.17
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.31
Consensus pattern (95 bp):
CTCCACCGGCTGATATTTTCTGGATTCACCCATCGGAATATTGTCATGTACTCGACCGCTTCTCC
ACTGCTCGTACTGTTGAGACAACTCGAGAT
Found at i:4553080 original size:44 final size:47
Alignment explanation
Indices: 4553015--4553111 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 47
4553005 GTTATCCATA
4553015 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGC-TTATTC-
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
* * *
4553060 AAAAATAAA-CCTAACTGCATGATATCTAGTTCGCATGCATTTATTCG
1 AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCA-TTATTCG
4553107 AAAAA
1 AAAAA
4553112 ACGAAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
44 27 0.59
45 8 0.17
46 6 0.13
47 5 0.11
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (47 bp):
AAAAAGAAATCCTAACCGCATGATATCTAATTCGCATGCATTATTCG
Found at i:4563191 original size:35 final size:36
Alignment explanation
Indices: 4563105--4563225 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 36
4563095 ATCCCATTAT
*
4563105 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4563142 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4563178 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4563213 CAATTTTTCAAAG
1 C-ATTTTTCAAAG
4563226 TTGGTTGCCA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.43
36 7 0.09
37 38 0.48
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4567097 original size:37 final size:37
Alignment explanation
Indices: 4567039--4567157 Score: 163
Period size: 37 Copynumber: 3.3 Consensus size: 37
4567029 TCCCATTATC
* * **
4567039 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAATT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
4567075 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
4567111 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
4567147 ATTTTTCAAAG
1 ATTTTTCAAAG
4567158 TTGGTTGCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 28 0.38
36 17 0.23
37 29 0.39
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
Found at i:4567123 original size:35 final size:36
Alignment explanation
Indices: 4567038--4567157 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
4567028 ATCCCATTAT
* * *
4567038 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAT
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4567074 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4567110 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4567145 CAATTTTTCAAAG
1 C-ATTTTTCAAAG
4567158 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4570033 original size:19 final size:19
Alignment explanation
Indices: 4570009--4570060 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
4569999 AATAGCCTGA
*
4570009 GTGCATCGATGCATGGCTG
1 GTGCATTGATGCATGGCTG
4570028 GTGCATTGATGCATGGCTG
1 GTGCATTGATGCATGGCTG
4570047 GTGCATTGATGCAT
1 GTGCATTGATGCAT
4570061 CAAATGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (19 bp):
GTGCATTGATGCATGGCTG
Found at i:4570116 original size:84 final size:83
Alignment explanation
Indices: 4569964--4570126 Score: 224
Period size: 84 Copynumber: 2.0 Consensus size: 83
4569954 TGCACTAAGA
* *
4569964 GTGCATTGATGCATAAAATACATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTGG
1 GTGCATTGATGCATAAAATACATTCGATGTTTCAAAATAGCATGAGTGCATCGATGCATAGCTGG
4570029 TGCATTGATGCATGGCTG
66 TGCATTGATGCATGGCTG
* *
4570047 GTGCATTGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTATGAGTGCATCGATGCATAG-
1 GTGCATTGATGCATAAAATACATTCGATG-TTTCA-AAATAGC-ATGAGTGCATCGATGCATAGC
*
4570109 TATGTGCATTGATGCATG
63 T-GGTGCATTGATGCATG
4570127 AAATGCATTC
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
83 29 0.41
84 39 0.55
85 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (83 bp):
GTGCATTGATGCATAAAATACATTCGATGTTTCAAAATAGCATGAGTGCATCGATGCATAGCTGG
TGCATTGATGCATGGCTG
Found at i:4570181 original size:65 final size:63
Alignment explanation
Indices: 4570026--4570192 Score: 158
Period size: 65 Copynumber: 2.6 Consensus size: 63
4570016 GATGCATGGC
* * * *
4570026 TGGTGCATTGATGCATGGCTGGTGCATTGATGCATCAAATGCATTCGATGTTTTCATAAAACTA
1 TGGTGCATCGATGCATGGTTGGTGCATTGATGCATCAAATGCATTCGATG-TTACATAAAACCA
* * * **
4570090 TGAGTGCATCGATGCATAGTAT-GTGCATTGATGCATGAAATGCATTCGATG-TACAATTTATTC
1 TG-GTGCATCGATGCATGGT-TGGTGCATTGATGCATCAAATGCATTCGATGTTAC-A-TAAAAC
*
4570153 CG
62 CA
* *
4570155 TGGTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
1 TGGTGCATCGATGCATGG-TTGGTGCATTGATGCATCA
4570193 CTTTGAAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
63 2 0.02
64 19 0.23
65 61 0.73
66 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (63 bp):
TGGTGCATCGATGCATGGTTGGTGCATTGATGCATCAAATGCATTCGATGTTACATAAAACCA
Found at i:4570794 original size:2 final size:2
Alignment explanation
Indices: 4570787--4570812 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4570777 ACCAAACCAA
4570787 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4570813 CAATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4572894 original size:21 final size:22
Alignment explanation
Indices: 4572842--4572939 Score: 87
Period size: 23 Copynumber: 4.5 Consensus size: 22
4572832 CAACGGATGC
* *
4572842 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACCTTCAAGG-GTGT
* *
4572865 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACCTTCAAGGGTGT
4572886 ATCGATGCACCTTCAAAGGGATGT
1 ATCGATGCACCTTC-AAGGG-TGT
*
4572910 ATCGATGCA-CTGTTAA--GTGT
1 ATCGATGCACCT-TCAAGGGTGT
4572930 ATCGATGCAC
1 ATCGATGCAC
4572940 TAAGCACTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
20 12 0.19
21 17 0.27
22 2 0.03
23 19 0.30
24 13 0.21
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (22 bp):
ATCGATGCACCTTCAAGGGTGT
Found at i:4580323 original size:55 final size:55
Alignment explanation
Indices: 4580255--4580552 Score: 219
Period size: 55 Copynumber: 5.5 Consensus size: 55
4580245 CAAATGACGA
*
4580255 GTCTGCTCCCTATTCCTTCAG-GAAGTATAAGAATCGAACAATCTTC-ATAAAATGT
1 GTCTGCTCCCTATTCATTCAGAG-AGTATAAGAATCGAACAATCTTCAATAAAA-GT
* * * ** *
4580310 GTCTGCTCTCTATTCATTCATAGAGTATAAGACTTAAACAATCTTCAATAAAACGG
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGAATCGAACAATCTTCAATAAAA-GT
* * * *
4580366 GTCCGCTCTCTATTCTTTCAGAGAGTAT-AGAACTCGAAAAATCTTCAATAAACA-T
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGAA-TCGAACAATCTTCAATAAA-AGT
* * * * * * *
4580421 GTCTGCTCCCTATTCTTTTAGAGAGTAT-AGGA-C--TCAATCTTTAACAAACGT
1 GTCTGCTCCCTATTCATTCAGAGAGTATAAGAATCGAACAATCTTCAATAAAAGT
* * * *
4580472 GTCCGCTCCCTATTTC-TTCAGAGAGTATAGGACTCG----ATCTTC-CTAAAATGT
1 GTCTGCTCCCTA-TTCATTCAGAGAGTATAAGAATCGAACAATCTTCAATAAAA-GT
* *
4580523 GTCCGCTCCCTATTCCTTCAGAGAGTATAA
1 GTCTGCTCCCTATTCATTCAGAGAGTATAA
4580553 AACTCGATCT
Statistics
Matches: 197, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
50 6 0.03
51 66 0.34
52 4 0.02
53 2 0.01
55 69 0.35
56 49 0.25
57 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (55 bp):
GTCTGCTCCCTATTCATTCAGAGAGTATAAGAATCGAACAATCTTCAATAAAAGT
Found at i:4580403 original size:111 final size:109
Alignment explanation
Indices: 4580229--4580552 Score: 314
Period size: 111 Copynumber: 3.0 Consensus size: 109
4580219 GGGATAAATG
** * *
4580229 AGACTTGAAA-AATCTTCAAATGACGAGTCTGCTCCCTATTCCTTCAG-GAAGTATAAGAA-TCG
1 AGACTT-AAACAATCTTCAAAAAACGAGTCCGCTCCCTATTCTTTCAGAG-AGTAT-AGAACTCG
* *
4580291 AACAATCTTCATAAAATGTGTCTGCTCTCTATTCATTCATAGAGTATA
63 AA-AATCTTCATAAAATGTGTCTGCTCCCTATTCATTCAGAGAGTATA
* *
4580339 AGACTTAAACAATCTTCAATAAAACGGGTCCGCTCTCTATTCTTTCAGAGAGTATAGAACTCGAA
1 AGACTTAAACAATCTTCAA-AAAACGAGTCCGCTCCCTATTCTTTCAGAGAGTATAGAACTCG-A
* *
4580404 AAATCTTCAATAAACA--TGTCTGCTCCCTATTCTTTTAGAGAGTATA
64 AAATCTTC-ATAAA-ATGTGTCTGCTCCCTATTCATTCAGAGAGTATA
* * * * *
4580450 GGAC-T---CAATCTTTAACAAACGTGTCCGCTCCCTATT-TCTTCAGAGAGTATAGGACTCG--
1 AGACTTAAACAATCTTCAAAAAACGAGTCCGCTCCCTATTCT-TTCAGAGAGTATAGAACTCGAA
* * *
4580508 -ATCTTCCTAAAATGTGTCCGCTCCCTATTCCTTCAGAGAGTATA
65 AATCTTCATAAAATGTGTCTGCTCCCTATTCATTCAGAGAGTATA
4580552 A
1 A
4580553 AACTCGATCT
Statistics
Matches: 183, Mismatches: 21, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
100 1 0.01
101 4 0.02
102 33 0.18
105 1 0.01
106 37 0.20
107 9 0.05
109 3 0.02
110 20 0.11
111 66 0.36
112 8 0.04
113 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (109 bp):
AGACTTAAACAATCTTCAAAAAACGAGTCCGCTCCCTATTCTTTCAGAGAGTATAGAACTCGAAA
ATCTTCATAAAATGTGTCTGCTCCCTATTCATTCAGAGAGTATA
Found at i:4580558 original size:51 final size:51
Alignment explanation
Indices: 4580259--4580572 Score: 215
Period size: 51 Copynumber: 5.9 Consensus size: 51
4580249 TGACGAGTCT
*
4580259 GCTCCCTATTCCTTCAG-GAAGTATAAGAA-TCGAACAATCTTCATAAAATGTGTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAA-AACTCG----ATCTTCATAAAATGTGTCC
* * * * * * *
4580314 GCTCTCTATTCATTCATAGAGTATAAGACTTAAACAATCTTCAATAAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAAAC-T---CGATCTTC-ATAAAATGTGTCC
* * * *
4580370 GCTCTCTATTCTTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACA--TGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAAACTCG----ATCTTC-ATAAA-ATGTGTCC
* * ** * * *
4580425 GCTCCCTATTCTTTTAGAGAGTATAGGACTCAATCTTTA-ACAAACGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAAACTCGATCTTCATA-AAATGTGTCC
* ** *
4580476 GCTCCCTATTTCTTCAGAGAGTATAGGACTCGATCTTCCTAAAATGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAAACTCGATCTTCATAAAATGTGTCC
*
4580527 GCTCCCTATTCCTTCAGAGAGTATAAAACTCGATCTTAATAAAATG
1 GCTCCCTATTCCTTCAGAGAGTATAAAACTCGATCTTCATAAAATG
4580573 AGTTTGCTTC
Statistics
Matches: 210, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
49 2 0.01
50 3 0.01
51 92 0.44
52 2 0.01
54 1 0.00
55 59 0.28
56 49 0.23
57 1 0.00
59 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAAAACTCGATCTTCATAAAATGTGTCC
Found at i:4580615 original size:37 final size:36
Alignment explanation
Indices: 4580574--4580645 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
4580564 AATAAAATGA
*
4580574 GTTTGCTTCACTAATCTTCCGTGAAGTCTTACAGATG
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTA-AGATG
*
4580611 GTTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGAT
4580646 TGACCTGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (36 bp):
GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGATG
Found at i:4581913 original size:45 final size:45
Alignment explanation
Indices: 4581838--4581923 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
4581828 AATTTAAAAC
* *
4581838 TCAAGCCGCCCTTTACAGGTTTTTAACTTGAGA-CCTCATTTGGTT
1 TCAAGACGCCCTTTACAGGTTTTCAACTTGA-ACCCTCATTTGGTT
* *
4581883 TCAAGACGCCCTTTGC-GGATTTTCATCTTGAACCCTCATTT
1 TCAAGACGCCCTTTACAGG-TTTTCAACTTGAACCCTCATTT
4581924 TATTTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 3 0.09
45 32 0.91
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (45 bp):
TCAAGACGCCCTTTACAGGTTTTCAACTTGAACCCTCATTTGGTT
Found at i:4581946 original size:16 final size:16
Alignment explanation
Indices: 4581927--4582113 Score: 84
Period size: 16 Copynumber: 11.3 Consensus size: 16
4581917 CTCATTTTAT
4581927 TTCTTTTTCTTTTTTC
1 TTCTTTTTCTTTTTTC
*
4581943 TTCTTTTTCATTTTTC
1 TTCTTTTTCTTTTTTC
* *
4581959 -TCTTTTTTCATTTTCC
1 TTC-TTTTTCTTTTTTC
*
4581975 AT-TTTTTCTTTTTT-
1 TTCTTTTTCTTTTTTC
*
4581989 TTCTTCTTTTCATTTTTCC
1 TTC-T-TTTTC-TTTTTTC
*
4582008 ATCATTTTTCTTTTTTC
1 TTC-TTTTTCTTTTTTC
* *
4582025 TCATTTTTTTCTTCTTT-
1 T--TCTTTTTCTTTTTTC
* *
4582042 TTCTTCTTCTTATTT-
1 TTCTTTTTCTTTTTTC
*
4582057 TTATTATTAT-TTTTTTC
1 TTCTT-TT-TCTTTTTTC
*
4582074 AT-TTTTTCATTTTTTC
1 TTCTTTTTC-TTTTTTC
4582090 ATT-TTTTCTCTTTTATTTC
1 -TTCTTTT-TC-TTT-TTTC
4582109 TTCTT
1 TTCTT
4582114 CAAGTGAAAT
Statistics
Matches: 132, Mismatches: 21, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.02
15 29 0.22
16 43 0.33
17 20 0.15
18 28 0.21
19 10 0.08
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTTTTCTTTTTTC
Found at i:4581949 original size:15 final size:15
Alignment explanation
Indices: 4581931--4582114 Score: 64
Period size: 15 Copynumber: 12.0 Consensus size: 15
4581921 TTTTATTTCT
4581931 TTTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
4581946 TTTTTCATTTTTCTCTT-
1 -TTTTC-TTTTT-TCTTC
* *
4581963 TTTTCATTTTCCATT-
1 TTTTCTTTTTTC-TTC
4581978 TTTTCTTTTTTTTCTTC
1 TTTTC--TTTTTTCTTC
* *
4581995 TTTTCATTTTTCCATC
1 TTTTC-TTTTTTCTTC
4582011 ATTTTTCTTTTTTC-TC
1 --TTTTCTTTTTTCTTC
*
4582027 --AT-TTTTTTCTTC
1 TTTTCTTTTTTCTTC
* *
4582039 TTTT-TCTTCTTCTTA
1 TTTTCT-TTTTTCTTC
* * *
4582054 TTTT-TATTATTATTT
1 TTTTCT-TTTTTCTTC
4582069 TTTTCATTTTTTCATT-
1 TTTTC-TTTTTTC-TTC
4582085 TTTTCATTTTTTC-TC
1 TTTTC-TTTTTTCTTC
* *
4582100 TTTTATTTCTTCTTC
1 TTTTCTTTTTTCTTC
4582115 AAGTGAAATA
Statistics
Matches: 131, Mismatches: 20, Indels: 35
0.70 0.11 0.19
Matches are distributed among these distances:
11 7 0.05
12 3 0.02
14 10 0.08
15 39 0.30
16 39 0.30
17 24 0.18
18 9 0.07
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:4582006 original size:33 final size:32
Alignment explanation
Indices: 4581946--4582033 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 32
4581936 TTTTTTCTTC
*
4581946 TTTTTCATTTTTCTCTTTTTTCATTTTCCAT-
1 TTTTTCTTTTTTCTCTTTTTTCATTTTCCATA
*
4581977 TTTTTCTTTTTTTTCTTCTTTTCATTTTTCCATCA
1 TTTTTCTTTTTTCTCTT-TTTTCA-TTTTCCAT-A
4582012 TTTTTCTTTTTTCTCATTTTTT
1 TTTTTCTTTTTTCTC-TTTTTT
4582034 TCTTCTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
31 15 0.31
32 6 0.12
33 8 0.16
35 18 0.37
36 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTTCTTTTTTCTCTTTTTTCATTTTCCATA
Found at i:4582103 original size:9 final size:8
Alignment explanation
Indices: 4581930--4582097 Score: 95
Period size: 8 Copynumber: 20.8 Consensus size: 8
4581920 ATTTTATTTC
4581930 TTTTTC-T
1 TTTTTCAT
*
4581937 TTTTTCTT
1 TTTTTCAT
4581945 CTTTTTCAT
1 -TTTTTCAT
4581954 TTTTCTC-T
1 TTTT-TCAT
4581962 TTTTTCA-
1 TTTTTCAT
*
4581969 TTTTCCAT
1 TTTTTCAT
*
4581977 TTTTTCTTT
1 TTTTTC-AT
4581986 TTTTTC-T
1 TTTTTCAT
4581993 TCTTTTCAT
1 T-TTTTCAT
*
4582002 TTTTCCAT
1 TTTTTCAT
*
4582010 CATTTTTCTT
1 --TTTTTCAT
4582020 TTTTCTCATT
1 TTTT-TCA-T
*
4582030 TTTTTCTT
1 TTTTTCAT
4582038 CTTTTTC-T
1 -TTTTTCAT
4582046 TCTTCTT-A-
1 T-TT-TTCAT
4582054 TTTTT-A-
1 TTTTTCAT
*
4582060 TTATT-ATT
1 TTTTTCA-T
4582068 TTTTTCAT
1 TTTTTCAT
4582076 TTTTTCAT
1 TTTTTCAT
4582084 TTTTTCAT
1 TTTTTCAT
4582092 TTTTTC
1 TTTTTC
4582098 TCTTTTATTT
Statistics
Matches: 131, Mismatches: 11, Indels: 37
0.73 0.06 0.21
Matches are distributed among these distances:
6 8 0.06
7 19 0.15
8 62 0.47
9 31 0.24
10 11 0.08
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:4582110 original size:9 final size:8
Alignment explanation
Indices: 4581930--4582110 Score: 89
Period size: 9 Copynumber: 21.0 Consensus size: 8
4581920 ATTTTATTTC
4581930 TTTTTC-T
1 TTTTTCTT
4581937 TTTTTCTT
1 TTTTTCTT
*
4581945 CTTTTTC-A
1 -TTTTTCTT
4581953 TTTTTCTCT
1 TTTTTCT-T
*
4581962 TTTTTC-A
1 TTTTTCTT
* *
4581969 TTTTCCAT
1 TTTTTCTT
4581977 TTTTTCTTT
1 TTTTTC-TT
4581986 TTTTTCTT
1 TTTTTCTT
* *
4581994 CTTTTCAT
1 TTTTTCTT
* *
4582002 TTTTCCATCA
1 TTTTTC-T-T
4582012 TTTTTCTT
1 TTTTTCTT
4582020 TTTTCTCATT
1 TTTT-TC-TT
4582030 TTTTTCTT
1 TTTTTCTT
4582038 CTTTTTCTT
1 -TTTTTCTT
*
4582047 CTTCTTATTTT
1 -TT-TT-TCTT
*
4582058 TATTATTATT
1 T-TT-TTCTT
*
4582068 TTTTTCAT
1 TTTTTCTT
*
4582076 TTTTTCAT
1 TTTTTCTT
4582084 TTTTTCATT
1 TTTTTC-TT
4582093 TTTTCTCTT
1 TTTT-TCTT
4582102 TTATTTCTT
1 TT-TTTCTT
4582111 CTTCAAGTGA
Statistics
Matches: 136, Mismatches: 20, Indels: 34
0.72 0.11 0.18
Matches are distributed among these distances:
7 17 0.12
8 41 0.30
9 50 0.37
10 23 0.17
11 5 0.04
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCTT
Found at i:4587072 original size:19 final size:19
Alignment explanation
Indices: 4587048--4587086 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4587038 TCGAATGTAT
4587048 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
4587067 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
4587086 T
1 T
4587087 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:4587103 original size:65 final size:64
Alignment explanation
Indices: 4586985--4587193 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
4586975 TATTCAAAGG
* * *
4586985 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGT
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
4587046 ATTC
61 ATTT
4587050 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
4587115 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
4587179 CATGCATCGATGCAC
1 CATGCACCGATGCAC
4587194 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.42
65 64 0.51
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:4587211 original size:64 final size:65
Alignment explanation
Indices: 4587034--4587196 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
4587024 GAATTAATTG
* * * * *
4587034 AACATCGAATGTATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
4587099 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
4587162 A
65 A
4587163 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
4587197 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:4590937 original size:155 final size:153
Alignment explanation
Indices: 4590646--4590947 Score: 570
Period size: 155 Copynumber: 2.0 Consensus size: 153
4590636 CTTTTTATTA
4590646 ACAATGCACCAAATAATTGTTCAGATTTTTATATTATTATAAGTTGATATTTTCAGCTTTATTTA
1 ACAATGCACCAAATAATTGTTCAGATTTTTATATTATTATAAGTTGATATTTTCAGCTTTATTTA
4590711 CTCTATTCAAAATACTAAATCAAGATTTTTTTATTTTACTTAAAATATTAGTACATTCCATTAAA
66 CTCTATTCAAAATACTAAATCAAGATTTTTTTATTTTACTTAAAATATTAGTACATTCCATTAAA
4590776 TTAACTTATTGTTAATATAATCT
131 TTAACTTATTGTTAATATAATCT
4590799 ACAATGCACCAAATAATTGTTCAGA-TTTTATATTATTATAAGTTGATATTTTCAGCTTTATTTA
1 ACAATGCACCAAATAATTGTTCAGATTTTTATATTATTATAAGTTGATATTTTCAGCTTTATTTA
4590863 CTCTATTCACAAATACTAAAATCAAGATTTTTTTTATTTTACTTAAAATATTAGTACATTCCATT
66 CTCTATTCA-AAATACT-AAATCAAGA-TTTTTTTATTTTACTTAAAATATTAGTACATTCCATT
4590928 AAATTAACTTATTGTTAATA
128 AAATTAACTTATTGTTAATA
4590948 ATTATAATCT
Statistics
Matches: 146, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
152 48 0.33
153 32 0.22
154 9 0.06
155 57 0.39
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (153 bp):
ACAATGCACCAAATAATTGTTCAGATTTTTATATTATTATAAGTTGATATTTTCAGCTTTATTTA
CTCTATTCAAAATACTAAATCAAGATTTTTTTATTTTACTTAAAATATTAGTACATTCCATTAAA
TTAACTTATTGTTAATATAATCT
Found at i:4591059 original size:2 final size:2
Alignment explanation
Indices: 4591054--4591082 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4591044 TCTCTCTCTC
4591054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4591083 GCATAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4598348 original size:26 final size:26
Alignment explanation
Indices: 4598297--4598348 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
4598287 TAGCATAAGA
* * *
4598297 TATATTTTTAATATATATTAATTATT
1 TATATTTTAAATATATAATAAGTATT
4598323 TATATTTATAAATA-ATAATAAGTATT
1 TATATTT-TAAATATATAATAAGTATT
4598349 AGCGGAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TATATTTTAAATATATAATAAGTATT
Done.