Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 27 of 28
Found at i:4166008 original size:12 final size:12
Alignment explanation
Indices: 4165993--4166017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4165983 TCATTTCATT
4165993 TTTCATCAAAAA
1 TTTCATCAAAAA
4166005 TTTCATCAAAAA
1 TTTCATCAAAAA
4166017 T
1 T
4166018 AGATTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCATCAAAAA
Found at i:4167638 original size:40 final size:40
Alignment explanation
Indices: 4167585--4167665 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
4167575 TAAATGCAAC
*
4167585 ATATATTGTTGATTGATAAAAGCATGTCATTGAATGTAAT
1 ATATATTGTTGATTAATAAAAGCATGTCATTGAATGTAAT
* *
4167625 ATATCTTGTTGATTAATAAAAGTATGTCATTGAATGTAAT
1 ATATATTGTTGATTAATAAAAGCATGTCATTGAATGTAAT
4167665 A
1 A
4167666 AATTTCCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (40 bp):
ATATATTGTTGATTAATAAAAGCATGTCATTGAATGTAAT
Found at i:4167788 original size:29 final size:30
Alignment explanation
Indices: 4167749--4167809 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
4167739 AGATTATTTT
*
4167749 GGAAACTAAAAGGGGGAGAA-TTTTTTTAA
1 GGAAACAAAAAGGGGGAGAATTTTTTTTAA
4167778 GGAAACAAAAAGGGGGAGAATTTTTTTTAA
1 GGAAACAAAAAGGGGGAGAATTTTTTTTAA
4167808 GG
1 GG
4167810 GGGAGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.26
Consensus pattern (30 bp):
GGAAACAAAAAGGGGGAGAATTTTTTTTAA
Found at i:4168550 original size:20 final size:20
Alignment explanation
Indices: 4168525--4168562 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4168515 ATACATGTTC
4168525 ATTATATCGATACATAAAGA
1 ATTATATCGATACATAAAGA
4168545 ATTATATCGATACATAAA
1 ATTATATCGATACATAAA
4168563 CTGGTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
ATTATATCGATACATAAAGA
Found at i:4169697 original size:18 final size:20
Alignment explanation
Indices: 4169682--4169718 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
4169672 GTAAAAAAGT
4169682 CCTAAAA-ATGT-TAAAATG
1 CCTAAAATATGTCTAAAATG
4169700 CCTAAAATATGTCTAAAAT
1 CCTAAAATATGTCTAAAAT
4169719 TCATGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 4 0.24
20 6 0.35
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (20 bp):
CCTAAAATATGTCTAAAATG
Found at i:4170367 original size:22 final size:23
Alignment explanation
Indices: 4170328--4170372 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4170318 CATTTTCCTT
*
4170328 TTTTTCTCTCTTTCTCTCTTCTC
1 TTTTTCTCTCTTTCTCTCCTCTC
4170351 TTTTTCT-TC-TTCTTCTCCTCTC
1 TTTTTCTCTCTTTC-TCTCCTCTC
4170373 GCTTATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 10 0.50
23 7 0.35
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTCTCTCTTTCTCTCCTCTC
Found at i:4171321 original size:168 final size:167
Alignment explanation
Indices: 4170984--4171322 Score: 382
Period size: 168 Copynumber: 2.0 Consensus size: 167
4170974 CATTTCAAGA
* * * * **
4170984 AAAAAATTCACAACTTATGAAAATAAATTAATTTTTTAAAATTGATTTAATATAAATTAAATAAT
1 AAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACAGATTTAATATAAATTAAATAAT
* * *
4171049 AATATTTGATAAATTTTAAATATTAAAAACCTAGAAAAATCCTCCCAAAAAACATTTGTAGAGTA
66 AATATTTGATAAATTTTAAATATTAAAAACCGAGAAAAATCCTCCCAAAAAACATTTGGAGAGAA
* *
4171114 GAAAACTCTGCATTTCGAAAACAGGAGAATTTCAAAG
131 GAAAACTCTGCATTTCGAAAACAAGAGAATTTAAAAG
* *
4171151 AAAAAATTCAAAAACTCATGAAAATAAATGAATTTTTGAAAACAGATTTAATATGAATTAAATGA
1 AAAAAATTC-AAAACTCATGAAAATAAATGAATTTTTGAAAACAGATTTAATATAAATTAAATAA
* ** * * *
4171216 TAATATTTGATGAATTTTAGAA-ATTTCAAATCGATG-AAAATCCTCTCGAAAAA-ATTTAGGA-
65 TAATATTTGATAAATTTTA-AATATTAAAAACCGA-GAAAAATCCTCCCAAAAAACATTT-GGAG
* * * *
4171277 AGAAGAAAACT-TCGTATTTTGGAAACAAGAGGATTCTAAAAG
127 AGAAGAAAACTCT-GCATTTCGAAAACAAGAGAATT-TAAAAG
4171319 AAAA
1 AAAA
4171323 TCAGTAACTC
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
166 1 0.01
167 40 0.28
168 99 0.69
169 3 0.02
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (167 bp):
AAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACAGATTTAATATAAATTAAATAAT
AATATTTGATAAATTTTAAATATTAAAAACCGAGAAAAATCCTCCCAAAAAACATTTGGAGAGAA
GAAAACTCTGCATTTCGAAAACAAGAGAATTTAAAAG
Found at i:4172029 original size:20 final size:20
Alignment explanation
Indices: 4172004--4172043 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4171994 ATGTTTTCTT
4172004 TTCCAAGCACTTCTTTGCTA
1 TTCCAAGCACTTCTTTGCTA
4172024 TTCCAAGCACTTCTTTGCTA
1 TTCCAAGCACTTCTTTGCTA
4172044 AGGTGATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (20 bp):
TTCCAAGCACTTCTTTGCTA
Found at i:4172643 original size:21 final size:23
Alignment explanation
Indices: 4172613--4172662 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
4172603 TTAAGGAAAA
4172613 GTATCCATAC-T-TCAAGTTTAG
1 GTATCCATACATATCAAGTTTAG
* *
4172634 GTATCGATACTATATTAAGTTTAG
1 GTATCCATAC-ATATCAAGTTTAG
4172658 GTATC
1 GTATC
4172663 ATTACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
23 1 0.04
24 14 0.58
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (23 bp):
GTATCCATACATATCAAGTTTAG
Found at i:4180039 original size:10 final size:10
Alignment explanation
Indices: 4180016--4180054 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
4180006 TAAATTAACA
*
4180016 AAAACAATTAT
1 AAAA-AATTTT
4180027 AAAAAATTTT
1 AAAAAATTTT
4180037 AAAAAAATTTT
1 -AAAAAATTTT
4180048 AAAAAAT
1 AAAAAAT
4180055 AAATTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.46
11 14 0.54
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:4180041 original size:11 final size:11
Alignment explanation
Indices: 4180027--4180053 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4180017 AAACAATTAT
4180027 AAAAAATTTTA
1 AAAAAATTTTA
4180038 AAAAAATTTTA
1 AAAAAATTTTA
4180049 AAAAA
1 AAAAA
4180054 TAAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:4180213 original size:16 final size:16
Alignment explanation
Indices: 4180192--4180223 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4180182 ATAAGCATAT
4180192 ATAATTAAAAAATAAA
1 ATAATTAAAAAATAAA
*
4180208 ATAATTATAAAATAAA
1 ATAATTAAAAAATAAA
4180224 TATGATCACT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATTAAAAAATAAA
Found at i:4182463 original size:16 final size:16
Alignment explanation
Indices: 4182442--4182473 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4182432 AACTTAAATA
*
4182442 TTTTTAAATTTTGACT
1 TTTTTAAATTTGGACT
4182458 TTTTTAAATTTGGACT
1 TTTTTAAATTTGGACT
4182474 ATCTTAGGTT
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:0.25, C:0.06, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTTTAAATTTGGACT
Found at i:4182695 original size:27 final size:29
Alignment explanation
Indices: 4182664--4182727 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
4182654 TTAAAATTTC
4182664 AAAATTAATA-AATA-TTTATATAAATA-T
1 AAAATTAATATAATAGTTT-TATAAATATT
*
4182691 AAAATT-ATATAATAGTTTTATATATATT
1 AAAATTAATATAATAGTTTTATAAATATT
4182719 AAATATTAA
1 AAA-ATTAA
4182728 AATATTAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 3 0.10
27 17 0.55
28 7 0.23
29 3 0.10
30 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
AAAATTAATATAATAGTTTTATAAATATT
Found at i:4182859 original size:14 final size:14
Alignment explanation
Indices: 4182840--4182889 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
4182830 TCTACTTATA
4182840 GTATAATATTATTT
1 GTATAATATTATTT
*
4182854 GTATAATATCCTTTTT
1 GTATAATAT--TATTT
4182870 AGTATAATATTATTT
1 -GTATAATATTATTT
4182885 GTATA
1 GTATA
4182890 TTTTGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 14 0.45
15 4 0.13
16 4 0.13
17 9 0.29
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (14 bp):
GTATAATATTATTT
Found at i:4183934 original size:14 final size:15
Alignment explanation
Indices: 4183900--4183937 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4183890 TATTCTTTAA
*
4183900 TTTAATTATTTAATTT
1 TTTAATT-TTTAATAT
4183916 TTTAATTTTT-ATAT
1 TTTAATTTTTAATAT
4183930 TTTAATTT
1 TTTAATTT
4183938 ACAAGACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTTTTAATAT
Found at i:4186141 original size:21 final size:21
Alignment explanation
Indices: 4186108--4186147 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4186098 AACACCCAAG
* *
4186108 CTTGAAATTTGATTTAGTTGT
1 CTTGAAATATGATTAAGTTGT
*
4186129 CTTGAACTATGATTAAGTT
1 CTTGAAATATGATTAAGTT
4186148 AAAACTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTGAAATATGATTAAGTTGT
Found at i:4188344 original size:21 final size:21
Alignment explanation
Indices: 4188295--4188352 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
4188285 CCGTTGGGCT
*
4188295 AATTGTATCGATATAATTCAGG
1 AATTGTATCGATA-CATTCAGG
*
4188317 -A-TGTATCGATACATTCTGG
1 AATTGTATCGATACATTCAGG
4188336 AATTGTATCGATACATT
1 AATTGTATCGATACATT
4188353 TGAAGGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 11 0.34
21 15 0.47
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
AATTGTATCGATACATTCAGG
Found at i:4188587 original size:22 final size:22
Alignment explanation
Indices: 4188537--4188595 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
4188527 GTGTATTTAC
*
4188537 TTGAAAAACATTATTTCTTTGT
1 TTGAAAAACATTTTTTCTTTGT
4188559 TTGAAAAACATTTTTTC-TTGT
1 TTGAAAAACATTTTTTCTTTGT
* **
4188580 CTCTAAAACATTTTTT
1 TTGAAAAACATTTTTT
4188596 ATACTTGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (22 bp):
TTGAAAAACATTTTTTCTTTGT
Found at i:4189186 original size:18 final size:17
Alignment explanation
Indices: 4189156--4189189 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4189146 TTCATAAATC
*
4189156 ATAAAAAGCATTCATAG
1 ATAAAAAGAATTCATAG
4189173 ATAAAAAGAAATTCATA
1 ATAAAAAG-AATTCATA
4189190 TACAAGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (17 bp):
ATAAAAAGAATTCATAG
Found at i:4190918 original size:79 final size:79
Alignment explanation
Indices: 4190754--4190920 Score: 246
Period size: 79 Copynumber: 2.1 Consensus size: 79
4190744 TATTTTGGAG
* * *
4190754 ATAAAACCGAGGTTGGAGTATCCTCTTGGAAATAATGGGGTTAGAGTATCCCCGATTATGAAAAA
1 ATAAAATCGAGGTTGGAGTATCCTCTTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAA
* **
4190819 TCGGTGTTTTGAAA
66 TCGATAATTTGAAA
* *
4190833 ATAAAATCTAGGTTGGAGTATCC-CTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAA
1 ATAAAATCGAGGTTGGAGTATCCTCTT-GAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAA
4190897 ATCGATAATTTGAAA
65 ATCGATAATTTGAAA
4190912 ATAAAATCG
1 ATAAAATCG
4190921 GAGTTGAAGT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 3 0.04
79 75 0.96
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
ATAAAATCGAGGTTGGAGTATCCTCTTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAA
TCGATAATTTGAAA
Found at i:4190966 original size:130 final size:131
Alignment explanation
Indices: 4190822--4191196 Score: 437
Period size: 130 Copynumber: 2.9 Consensus size: 131
4190812 TGAAAAATCG
** * * *
4190822 GTGTTTTGAAAATAAAATCT-AGGTTGGAGTATCC-CTTCGAAAATAACGGGGTTGGAGTATCCC
1 GTGTTTTGGGAATAAAATCTGGGGTTGGAGTATCCTC-TCGAAAATAACGGGATTAGAGTATCCC
4190885 CGATTATGAAAAATCGATAATTT-GA-AAATAAAATC-GGAGTTGAAGTAACCCCGATGGTGGAA
65 CGATTATGAAAAATC-A-AATTTCGAGAAATAAAATCAGG-GTTGAAGTAACCCCGATGGTGGAA
4190947 AATT-
127 AATTA
4190951 GATGTTTTGGGAATAAAAT-TGGGGTTGGAGTATCCTCTCGAAAATAACGGGATTAGAGTATCCC
1 G-TGTTTTGGGAATAAAATCTGGGGTTGGAGTATCCTCTCGAAAATAACGGGATTAGAGTATCCC
* * * * *
4191015 CGATTGTGAAAAATCAATTTTCTAGAAATAAAATCAGGGTTGGAGTATCCCCGATGGTGGAAAAT
65 CGATTATGAAAAATCAAATTTCGAGAAATAAAATCAGGGTTGAAGTAACCCCGATGGTGGAAAAT
4191080 TA
130 TA
* * *
4191082 GTGTTTTGGGAATAAAA-CTGGGGTTGGAGTATCCTCTCGAAAATAATAGGGA-TAAAGTATCCT
1 GTGTTTTGGGAATAAAATCTGGGGTTGGAGTATCCTCTCGAAAATAA-CGGGATTAGAGTATCCC
* * * * * * *
4191145 CGATTGTGGAAAATTAGTATTT-TAGAAATAAAATCAGGGTTGGAGTATCCCC
65 CGATTATGAAAAATCA-AATTTCGAGAAATAAAATCAGGGTTGAAGTAACCCC
4191197 AAAAATAACG
Statistics
Matches: 219, Mismatches: 17, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
128 4 0.02
129 4 0.02
130 200 0.91
131 11 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (131 bp):
GTGTTTTGGGAATAAAATCTGGGGTTGGAGTATCCTCTCGAAAATAACGGGATTAGAGTATCCCC
GATTATGAAAAATCAAATTTCGAGAAATAAAATCAGGGTTGAAGTAACCCCGATGGTGGAAAATT
A
Found at i:4191096 original size:51 final size:51
Alignment explanation
Indices: 4191006--4191115 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
4190996 AACGGGATTA
*
4191006 GAGTATCCCCGATTGTGAAAAATCAATTTTCTAGAAATAAAA-TCAGGGTTG
1 GAGTATCCCCGATGGTGAAAAATCAATTTTCTAGAAATAAAACT-AGGGTTG
* * * * * *
4191057 GAGTATCCCCGATGGTGGAAAATTAGTGTTT-TGGGAATAAAACTGGGGTTG
1 GAGTATCCCCGATGGTGAAAAATCAAT-TTTCTAGAAATAAAACTAGGGTTG
4191108 GAGTATCC
1 GAGTATCC
4191116 TCTCGAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 46 0.92
52 4 0.08
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATGGTGAAAAATCAATTTTCTAGAAATAAAACTAGGGTTG
Found at i:4191141 original size:79 final size:79
Alignment explanation
Indices: 4191050--4191535 Score: 578
Period size: 79 Copynumber: 6.2 Consensus size: 79
4191040 AAATAAAATC
* * * * *
4191050 AGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTGGGAATAAAACTGGGGTTGGAGTATC
1 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
4191115 CTCTCGAAAATAAT
66 CTCTCGAAAATAAT
* ** * * * * *
4191129 AGGGATAAAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAA-TCAGGGTTGGAGTAT
1 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACT-GGGGTTGGAGTAT
*
4191193 CC-C-CAAAAATAA-
65 CCTCTCGAAAATAAT
* * * * *
4191205 CGGGATTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAA-TCAGGGTTGGAGTA
1 AGGG-TTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACT-GGGGTTGGAGTA
4191269 T-CTCTTCGAAAATAAT
64 TCCTC-TCGAAAATAAT
*
4191285 -GGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAAC-CGGGTTGGAGTAT
1 AGG-GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTAT
* *
4191348 CTTTTCGAAAATAAT
65 CCTCTCGAAAATAAT
4191363 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATT
1 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTA-T
*
4191428 CC-CTC-AGAAATAAC
65 CCTCTCGA-AAATAAT
* * *
4191442 AGGGTTGGAGTATCCTCGATTGTAAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATC
1 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
*
4191507 CCCTCGAAAATAAT
66 CTCTCGAAAATAAT
* *
4191521 GGGGTTGGATTATCC
1 AGGGTTGGAGTATCC
4191536 CATCGAAAAT
Statistics
Matches: 354, Mismatches: 38, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
76 4 0.01
77 59 0.17
78 76 0.21
79 211 0.60
80 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (79 bp):
AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
CTCTCGAAAATAAT
Found at i:4191421 original size:157 final size:154
Alignment explanation
Indices: 4191050--4191536 Score: 579
Period size: 157 Copynumber: 3.1 Consensus size: 154
4191040 AAATAAAATC
* * * *
4191050 AGGGTTGGAGTATCCCCGATGGTGGAAAATTAGTGTTTTGGGAATAAAACTGGGGTTGGAGTATC
1 AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
* ** * * * *
4191115 -CTCTCGAAAATAATAGGGATAAAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAAT
66 TCT-TCGAAAATAAT-GGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA-
* * *
4191179 CAGGGTTGGAGTATCCCCAAAAATAA-
128 CCGGGTTGGAGTATCCTCGAAAATAAT
* * * *
4191205 CGGGATTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAA-TCAGGGTTGGAGTA
1 AGGG-TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACT-GGGGTTGGAGTA
4191269 TCTCTTCGAAAATAATGGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA
64 TCTCTTCGAAAATAATGG-GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA
*
4191334 CCGGGTTGGAGTATCTTTTCGAAAATAAT
128 CCGGGTTGGAGTATC--CTCGAAAATAAT
*
4191363 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTAT-
1 AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
* * * *
4191427 TCCCTC-AGAAATAACAGGGTTGGAGTATCCTCGATTGTAAAAAATTGGTGTTTTGAAAATAAAA
66 T-CTTCGA-AAATAA-TGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA
4191491 CCGGGGTTGGAGTATCCCCTCGAAAATAAT
128 CC-GGGTTGGAGTAT--CCTCGAAAATAAT
* *
4191521 GGGGTTGGATTATCCC
1 AGGGTTGGAGTATCCC
4191537 ATCGAAAATA
Statistics
Matches: 286, Mismatches: 32, Indels: 25
0.83 0.09 0.07
Matches are distributed among these distances:
155 20 0.07
156 104 0.36
157 119 0.42
158 42 0.15
160 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (154 bp):
AGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATC
TCTTCGAAAATAATGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCG
GGTTGGAGTATCCTCGAAAATAAT
Found at i:4191528 original size:28 final size:28
Alignment explanation
Indices: 4191493--4191547 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
4191483 AAATAAAACC
*
4191493 GGGGTTGGAGTATCCCCTCGAAAATAAT
1 GGGGTTGGAGTATCCCATCGAAAATAAT
*
4191521 GGGGTTGGATTATCCCATCGAAAATAA
1 GGGGTTGGAGTATCCCATCGAAAATAA
4191548 AAACATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCATCGAAAATAAT
Found at i:4193917 original size:50 final size:50
Alignment explanation
Indices: 4193831--4193960 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
4193821 TGCCTGAATG
* * * *
4193831 TATCGATACATTGAGA-AATGTATCGATACATCTGGGTACAATCCAGAATA
1 TATCGATACAATGA-ACAACGTATCGATACATCTGGGTAAAATCCAAAATA
* * * *
4193881 TATTGATACAATGAACAACGTATAGATACATTTGGGTAAAATCCAAAATG
1 TATCGATACAATGAACAACGTATCGATACATCTGGGTAAAATCCAAAATA
*
4193931 TATCGATACAATGAACAATGTATCGATACA
1 TATCGATACAATGAACAACGTATCGATACA
4193961 AATTGTGGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (50 bp):
TATCGATACAATGAACAACGTATCGATACATCTGGGTAAAATCCAAAATA
Found at i:4196897 original size:50 final size:51
Alignment explanation
Indices: 4196839--4196945 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
4196829 TGAATAGTAC
4196839 ATGTATCGATACATTCTG-TTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCA
* * *
4196889 ATGTATCGATATATTCTGTTTTTTTACCTAGATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCA
4196940 ATGTAT
1 ATGTAT
4196946 TGACACATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 17 0.32
51 36 0.68
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (51 bp):
ATGTATCGATACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:4197325 original size:15 final size:14
Alignment explanation
Indices: 4197307--4197339 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4197297 TTTGAATTTC
4197307 TACAATTTGTATCGA
1 TACAA-TTGTATCGA
4197322 TAC-ATTGTATCGA
1 TACAATTGTATCGA
4197335 TACAA
1 TACAA
4197340 AACTACTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.71
14 2 0.12
15 3 0.18
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (14 bp):
TACAATTGTATCGA
Found at i:4197331 original size:13 final size:13
Alignment explanation
Indices: 4197313--4197338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4197303 TTTCTACAAT
4197313 TTGTATCGATACA
1 TTGTATCGATACA
4197326 TTGTATCGATACA
1 TTGTATCGATACA
4197339 AAACTACTAT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4197435 original size:20 final size:20
Alignment explanation
Indices: 4197372--4197438 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
4197362 GAAATGCATT
*
4197372 GATACACTTA-TCATTGTATC
1 GATACA-TTATTCAATGTATC
*
4197392 CATACATTATTCAATGTATC
1 GATACATTATTCAATGTATC
*
4197412 GATACATTATTCAATGTATT
1 GATACATTATTCAATGTATC
4197432 GATACAT
1 GATACAT
4197439 GCAGGCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (20 bp):
GATACATTATTCAATGTATC
Found at i:4205109 original size:79 final size:79
Alignment explanation
Indices: 4205016--4205201 Score: 257
Period size: 79 Copynumber: 2.4 Consensus size: 79
4205006 GGTGTTTTGA
* * * *
4205016 AAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAATATCCCAGATTGTGGAA
1 AAATAAAATAGGGGTTGGAGTATCCCCGCAAAAATAACGGGGTTGGAATATCCCAGATTATGAAA
4205081 AATTGATGCTTTAG
66 AATTGATGCTTTAG
* * * *
4205095 AAATAAGACT-GGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAA
1 AAATAA-AATAGGGGTTGGAGTATCCCCGCAAAAATAACGGGGTTGGAATATCCCAGATTATGAA
* *
4205159 AAATTGGTGTTTTAG
65 AAATTGATGCTTTAG
*
4205174 AAATAAAATAGGGGTTGGAGTATTCCCG
1 AAATAAAATAGGGGTTGGAGTATCCCCG
4205202 ATTGTGAGAA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.02
79 90 0.96
80 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (79 bp):
AAATAAAATAGGGGTTGGAGTATCCCCGCAAAAATAACGGGGTTGGAATATCCCAGATTATGAAA
AATTGATGCTTTAG
Found at i:4205223 original size:51 final size:52
Alignment explanation
Indices: 4205133--4205252 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 52
4205123 CGAAAATAAC
*** * * *
4205133 GGGGTTGGAGTA-TCCCTGATTATGAAAAATTGGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATTCCCTGATTATGAAAAATCAATATTTTAAAAATAAAACA
* * * *
4205184 GGGGTTGGAGTATTCCC-GATTGTGAGAAATCAATATTTTAAAAATAAAGCC
1 GGGGTTGGAGTATTCCCTGATTATGAAAAATCAATATTTTAAAAATAAAACA
*
4205235 GGGGTTGGAGTATCCCCT
1 GGGGTTGGAGTATTCCCT
4205253 CAAAAATAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
51 52 0.93
52 4 0.07
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
GGGGTTGGAGTATTCCCTGATTATGAAAAATCAATATTTTAAAAATAAAACA
Found at i:4205354 original size:130 final size:129
Alignment explanation
Indices: 4205105--4205343 Score: 293
Period size: 130 Copynumber: 1.8 Consensus size: 129
4205095 AAATAAGACT
* * * * *
4205105 GGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGGTGTT
1 GGGGTTGGAGTATCCCCGCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGCT
* ** * * * * *
4205170 TTAGAAATAAAATAGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATATTTTAAAAATAAAGCC
66 TTAGAAATAAAACAGGAATTAGAGTATCCCCGA-TGTAAAAAATCAATAATTTAAAAATAAAGCC
*
4205235 GGGGTTGGAGTATCCCCTCAAAAATAA-GGGGATTAGAGTATCCCCGATTATGAAAAATTGATGC
1 GGGGTTGGAGTATCCCCGCAAAAATAACGGGG-TTAGAGTATCCCCGATTATGAAAAATTGATGC
* *
4205299 TTTGGAAATAAAACCGGAATTAGAGTATCCCCGA-GATAAAAAATC
65 TTTAGAAATAAAACAGGAATTAGAGTATCCCCGATG-TAAAAAATC
4205344 TAGAAATTTA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
128 1 0.01
129 11 0.12
130 80 0.87
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (129 bp):
GGGGTTGGAGTATCCCCGCAAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGCT
TTAGAAATAAAACAGGAATTAGAGTATCCCCGATGTAAAAAATCAATAATTTAAAAATAAAGCC
Found at i:4206091 original size:24 final size:25
Alignment explanation
Indices: 4206058--4206110 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
4206048 TTGGCTTGTC
*
4206058 CATTGGATTAAACTCATGCTACGGA
1 CATTGGATTAAACTCATGCTACGAA
4206083 CATT-GATTAAACTCATGCTACGAA
1 CATTGGATTAAACTCATGCTACGAA
4206107 CATT
1 CATT
4206111 CGAACGTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (25 bp):
CATTGGATTAAACTCATGCTACGAA
Found at i:4207701 original size:13 final size:13
Alignment explanation
Indices: 4207683--4207711 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4207673 TAAACCTAAG
4207683 ATGTATCGATACA
1 ATGTATCGATACA
4207696 ATGTATCGATACA
1 ATGTATCGATACA
4207709 ATG
1 ATG
4207712 AACAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4207718 original size:20 final size:20
Alignment explanation
Indices: 4207693--4207748 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
4207683 ATGTATCGAT
4207693 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* **
4207713 ACAATGTATTGATATGATGA
1 ACAATGTATCGATACAATGA
4207733 ACAATGTATCGATACA
1 ACAATGTATCGATACA
4207749 TCTACGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:4218429 original size:79 final size:78
Alignment explanation
Indices: 4218222--4218440 Score: 185
Period size: 79 Copynumber: 2.8 Consensus size: 78
4218212 AACGGGGCTA
* * *
4218222 GAGTATCCCCAATTAT-AGAAAATAGGTGTTTT-GAAAATAAAATCAA-GGTTGGAGTATCCTCT
1 GAGTATCCCCGATTATGA-AAAATAGGTGTTTTAG-AAATAAAAT-AAGGGTT-GAGTATCCCCA
* *
4218284 TGAAAATAACGGGGTTG
62 CGAAAATAACGAGGTTG
* * ** *****
4218301 GAGTATCCCCGATTATGGAAAATCA-ATGCCTTAGAAATAAGGCCGGGGTTAGAGTATCCCCACG
1 GAGTATCCCCGATTATGAAAAAT-AGGTGTTTTAGAAATAAAATAAGGGTT-GAGTATCCCCACG
*
4218365 AAAATAGCGAGGTTG
64 AAAATAACGAGGTTG
* * *
4218380 GAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAAGGGTTGAAGTATCCCC
1 GAGTATCCCCGATTATGAAAAATAGGTGTTTTAGAAATAAAATAAGGGTTG-AGTATCCCC
4218441 GATTATGAGA
Statistics
Matches: 106, Mismatches: 28, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
78 1 0.01
79 103 0.97
80 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
GAGTATCCCCGATTATGAAAAATAGGTGTTTTAGAAATAAAATAAGGGTTGAGTATCCCCACGAA
AATAACGAGGTTG
Found at i:4218439 original size:51 final size:51
Alignment explanation
Indices: 4218375--4218471 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
4218365 AAAATAGCGA
* * * *** *
4218375 GGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAAG
1 GGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATAAG
*
4218426 GGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAA
1 GGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAA
4218472 GCCGGGACTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATAAG
Found at i:4220955 original size:20 final size:20
Alignment explanation
Indices: 4220930--4220983 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
4220920 TGAACAATGT
4220930 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
4220950 AATGTATCGATACGATGAAC
1 AATGTATCGATACAATGAAC
4220970 AATGTATCGATACA
1 AATGTATCGATACA
4220984 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:4226163 original size:37 final size:38
Alignment explanation
Indices: 4226122--4226207 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
4226112 TGCCACAATC
4226122 ATGCATTTGTGACATTCATAACA-TTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTTCATTTTGCATG
4226159 ATGCATTTGTGACATTCATAACATTTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTTCATTTTGCATG
4226197 ATGCATTTGTG
1 ATGCATTTGTG
4226208 CTTCATCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 23 0.48
38 25 0.52
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (38 bp):
ATGCATTTGTGACATTCATAACATTTTCATTTTGCATG
Found at i:4226630 original size:28 final size:28
Alignment explanation
Indices: 4226566--4227091 Score: 479
Period size: 28 Copynumber: 18.6 Consensus size: 28
4226556 GGCATTCCTC
*
4226566 ACCTTCCAAAGCCCACAAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
4226594 TCTTTTCAAAAGCCCACAGGTCAGTGGCA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
* * *
4226623 ACCTTCAAAAACCCACAAATCGGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
* *
4226651 CCCCCTTC-AAAGCCCACAAGTCAATGGCA
1 --ACCTTCAAAAGCCCACAAGTCAGTGGCA
* * *
4226680 TCTTTTC-AAAGCCCACAAGTCAATGGCA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
* *
4226708 ACCTTTAGAAGCCCACAAGTCAGTGGC-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
4226735 ACCTTTTC-AAAGCCCACAAATCAGTGGC-
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
*
4226763 ACCTTTTTAAAAGCCCACAAGTCAGTGGC-
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
*
4226792 ACCATTTTC-AAAGCCCACAAGTTAGTGGCA
1 ACC---TTCAAAAGCCCACAAGTCAGTGGCA
* * *
4226822 TCTTTTCAAAAGCCCACAAGTCAGTGGTA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
* *
4226851 TCTTTTC-AAAGCCCACAAGTCAGTGGCA
1 AC-CTTCAAAAGCCCACAAGTCAGTGGCA
* *
4226879 ACCTTTAGAAGCCCACAAGTCAGTGGC-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
4226906 ACCTTTTC-AAAGCCCACAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
**
4226935 ACCTTCAAAAGCCCATGAGTCAGTGGCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
*
4226963 ACCTTCAGAAGCCCACAAGTCAGTGGC-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
4226990 ACCTTTTC-AAAGCCCACAAGTCAGTGGCA
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCA
* *
4227019 ACCTT-TAAAGCCCATAAAG-CAGTGGCA
1 ACCTTCAAAAGCCCA-CAAGTCAGTGGCA
* **
4227046 ACCTTCAAAAGCACACAAGTTGGT-GCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCA
4227073 ACCCTTTCAAAAGCCCACA
1 A-CC-TTCAAAAGCCCACA
4227092 CAAGTTGGTG
Statistics
Matches: 419, Mismatches: 53, Indels: 51
0.80 0.10 0.10
Matches are distributed among these distances:
27 47 0.11
28 228 0.54
29 134 0.32
30 10 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (28 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCA
Found at i:4226735 original size:56 final size:56
Alignment explanation
Indices: 4226572--4227091 Score: 559
Period size: 56 Copynumber: 9.2 Consensus size: 56
4226562 CCTCACCTTC
* * * *
4226572 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCAACTTTT
* * * * * * * *
4226628 CAAAAACCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTCAATGGCATCTTTT
1 C-AAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCAACTTTT
* * *
4226686 CAAAGCCCACAAGTCAATGGCAACCTTTAGAAGCCCACAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACTTTT
* *
4226742 CAAAGCCCACAAATCAGTGGC-ACCTTTTTAAAAGCCCACAAGTCAGTGGCACCATTTT
1 CAAAGCCCACAAGTCAGTGGCAACC--TTTAAAAGCCCACAAGTCAGTGGCAAC-TTTT
* * * * *
4226800 CAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGTATCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCAACTTTT
* *
4226857 CAAAGCCCACAAGTCAGTGGCAACCTTTAGAAGCCCACAAGTCAGTGGCACCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACTTTT
* ** *
4226913 CAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATGAGTCAGTGGCAAC-CTT
1 CAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACTTTT
* *
4226968 CAGAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTT
1 CA-AAGCCCACAAGTCAGTGGCAACC-TTTAAAAGCCCACAAGTCAGTGGCAACTTTT
* * * ** *
4227025 -AAAGCCCATAAAG-CAGTGGCAACCTTCAAAAGCACACAAGTTGGT-GCAACCCTTT
1 CAAAGCCCA-CAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAA-CTTTT
4227080 CAAAAGCCCACA
1 C-AAAGCCCACA
4227092 CAAGTTGGTG
Statistics
Matches: 394, Mismatches: 54, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
54 4 0.01
55 45 0.11
56 170 0.43
57 123 0.31
58 51 0.13
59 1 0.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (56 bp):
CAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCAACTTTT
Found at i:4226921 original size:199 final size:197
Alignment explanation
Indices: 4226566--4227045 Score: 580
Period size: 199 Copynumber: 2.4 Consensus size: 197
4226556 GGCATTCCTC
* * *
4226566 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCAGTGGCAACCTTCAA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTCAA
* * *
4226631 AAACCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCCCAC
65 AAACCCACAAATCAGTGGCACCCCCTTCAAAGCCCACAAGTCAATGGCAACCTTTCAAAGCCCAC
4226696 AAGTCAATGGCAACCTTTAGAAGCCCACAAGTCAGTGGC-ACCTTTTC-AAAGCCCACAAATCAG
130 AAGTCAATGGCAACCTTTAGAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACAAATCAG
4226759 TGGC-
193 TGGCA
* * * *
4226763 ACCTTTTTAAAAGCCCACAAGTCAGTGGCACCATTTTCAAAGCCCACAAGTTAGTGGCATCTTTT
1 ACC--TTCAAAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAGTGGCAAC-CTT
* * * * ** *
4226828 CAAAAGCCCACAAGTCAGTGGTA-TCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTT-AGAAGC
62 CAAAAACCCACAAATCAGTGGCACCCCCTTCAAAGCCCACAAGTCAATGGCAACCTTTCA-AAGC
* ** *
4226891 CCACAAGTCAGTGGC-ACCTTTTCA-AAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATGAG
126 CCACAAGTCAATGGCAACC-TTT-AGAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAA
4226954 TCAGTGGCA
189 TCAGTGGCA
* *
4226963 ACCTTCAGAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTT-TAA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
* * *
4227027 AGCCCATAAAGCAGTGGCA
66 AACCCACAAATCAGTGGCA
4227046 ACCTTCAAAA
Statistics
Matches: 242, Mismatches: 31, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
195 17 0.07
196 2 0.01
197 29 0.12
198 32 0.13
199 129 0.53
200 33 0.14
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (197 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
AACCCACAAATCAGTGGCACCCCCTTCAAAGCCCACAAGTCAATGGCAACCTTTCAAAGCCCACA
AGTCAATGGCAACCTTTAGAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAATCAGTGG
CA
Found at i:4226956 original size:84 final size:85
Alignment explanation
Indices: 4226572--4227091 Score: 608
Period size: 84 Copynumber: 6.1 Consensus size: 85
4226562 CCTCACCTTC
* * * * *
4226572 CAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCAGTGGCAACCTTCAAAAACCC
1 CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCC
* * **
4226637 ACAAATCGGTGGCACCCCCTT
66 ACAAGTCAGTGGCA-CCTTTT
* * * * *
4226658 CAAAGCCCACAAGTCAATGGCATCTTTTC-AAAGCCCACAAGTCAATGGCAACCTTTAGAAGCCC
1 CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCC
4226722 ACAAGTCAGTGGCACCTTTT
66 ACAAGTCAGTGGCACCTTTT
* * * *
4226742 CAAAGCCCACAAATCAGTGGCACCTTTTTAAAAGCCCACAAGTCAGTGGC-ACCATTTTCA-AAG
1 CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACC---TTCAGAAG
* *
4226805 CCCACAAGTTAGTGGCATCTTTT
63 CCCACAAGTCAGTGGCACCTTTT
* * * *
4226828 CAAAAGCCCACAAGTCAGTGGTATCTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTAGAAGCC
1 C-AAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCC
4226892 CACAAGTCAGTGGCACCTTTT
65 CACAAGTCAGTGGCACCTTTT
**
4226913 CAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCATGAGTCAGTGGCAACCTTCAGAAGCCC
1 CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCC
4226977 ACAAGTCAGTGGCACCTTTT
66 ACAAGTCAGTGGCACCTTTT
* * * *
4226997 CAAAGCCCACAAGTCAGTGGCAAC-CTT-TAAAGCCCATAAAG-CAGTGGCAACCTTCAAAAGCA
1 CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCA-CAAGTCAGTGGCAACCTTCAGAAGCC
** *
4227059 CACAAGTTGGT-GCAACCCTTT
65 CACAAGTCAGTGGC-ACCTTTT
4227080 CAAAAGCCCACA
1 C-AAAGCCCACA
4227092 CAAGTTGGTG
Statistics
Matches: 384, Mismatches: 39, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
82 2 0.01
83 46 0.12
84 147 0.38
85 86 0.22
86 73 0.19
87 30 0.08
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (85 bp):
CAAAGCCCACAAGTCAGTGGCAACTCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCC
ACAAGTCAGTGGCACCTTTT
Found at i:4227165 original size:43 final size:45
Alignment explanation
Indices: 4227113--4227243 Score: 158
Period size: 49 Copynumber: 2.9 Consensus size: 45
4227103 CATCTTCTTC
*
4227113 TAAGTCCAATATCGTTGGCATTGAATCAGCATATTGGCA-C-CTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCACTT
* * *
4227156 TAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTCCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA---CCA-CTT
**
4227205 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
4227244 TCTGTAACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 35 0.48
47 1 0.01
49 37 0.51
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCACTT
Found at i:4227284 original size:52 final size:50
Alignment explanation
Indices: 4227155--4227296 Score: 153
Period size: 49 Copynumber: 2.8 Consensus size: 50
4227145 ATTGGCACCT
* * * *
4227155 TTAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCA-CCTCCATCT
1 TTAAGCCCAATGTTGTTGGCCTTGAATCAGCATATTGGCATCCTACATCC
* * *** *
4227204 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTGTAACATTCC
1 TTAAGCCCAATGTTGTTGGCCTTGAATCAGCATATTGGCATC-CT-ACA-TCC
4227257 TTAA-CCCAATGTTGTTGGCCTTGAATCAGCATATTGGCAT
1 TTAAGCCCAATGTTGTTGGCCTTGAATCAGCATATTGGCAT
4227297 TCTTCTCATC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
49 35 0.46
50 1 0.01
51 1 0.01
52 33 0.43
53 6 0.08
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (50 bp):
TTAAGCCCAATGTTGTTGGCCTTGAATCAGCATATTGGCATCCTACATCC
Found at i:4227320 original size:52 final size:50
Alignment explanation
Indices: 4227155--4227370 Score: 179
Period size: 52 Copynumber: 4.2 Consensus size: 50
4227145 ATTGGCACCT
* *
4227155 TTAAGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGCA-CCTC-CATC
1 TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTCTCATC
* ** * **
4227203 TTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATCTGTAACATTCC
1 -TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCT-TCTCA-T-C
* * *
4227257 TTAA-CCCAATGTTGTTGGCCTTGAATCAGCATATTGGCATTCTTCTCATC
1 TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-TCTTCTCATC
* * * *
4227307 TTCAAGTCTAATGTCGTTGACCGTGAATCAGCACATTGACATTCTT-TACATC
1 TT-AAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-TCTTCT-CATC
*
4227359 TTTAAGCCCAAT
1 -TTAAGTCCAAT
4227371 ATCACTAGTC
Statistics
Matches: 134, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
49 35 0.26
50 4 0.03
51 5 0.04
52 79 0.59
53 10 0.07
54 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (50 bp):
TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTCTCATC
Found at i:4228147 original size:13 final size:13
Alignment explanation
Indices: 4228129--4228156 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4228119 CATTATTCAA
4228129 TGTATCGATACAT
1 TGTATCGATACAT
4228142 TGTATCGATACAT
1 TGTATCGATACAT
4228155 TG
1 TG
4228157 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4229121 original size:20 final size:20
Alignment explanation
Indices: 4229076--4229121 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4229066 GTTAACAGCC
*
4229076 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
4229096 CTATGTTTCATGCA-TTTGCAG
1 C-ATGTTTCATGCATTTTG-AG
4229117 CATGT
1 CATGT
4229122 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:4234384 original size:31 final size:31
Alignment explanation
Indices: 4234349--4234407 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
4234339 AAAAACACAC
4234349 AAAAAAAACAACACAAAAAAACAAAAAAATG
1 AAAAAAAACAACACAAAAAAACAAAAAAATG
*
4234380 AAAAAAAACAACAGAAAAAAACAAAAAA
1 AAAAAAAACAACACAAAAAAACAAAAAA
4234408 TAGGGGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.02
Consensus pattern (31 bp):
AAAAAAAACAACACAAAAAAACAAAAAAATG
Found at i:4234396 original size:14 final size:15
Alignment explanation
Indices: 4234336--4234400 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 15
4234326 CATCCTTTGT
4234336 AAAAAAAAC-ACAC-
1 AAAAAAAACAACACG
*
4234349 AAAAAAAACAACACA
1 AAAAAAAACAACACG
* * *
4234364 AAAAAACAAAAAAATG
1 AAAAAA-AACAACACG
4234380 AAAAAAAACAACA-G
1 AAAAAAAACAACACG
4234394 AAAAAAA
1 AAAAAAA
4234401 CAAAAAATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 9 0.21
14 12 0.28
15 11 0.26
16 11 0.26
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.02
Consensus pattern (15 bp):
AAAAAAAACAACACG
Found at i:4236003 original size:32 final size:31
Alignment explanation
Indices: 4235967--4236206 Score: 309
Period size: 32 Copynumber: 7.6 Consensus size: 31
4235957 AGAAACCTTT
*
4235967 TCCAAAGCCCACATAAGTTGGTGGCAACCTTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACC-TC
4235999 TCCAAAGCCCACACAAGTTGGTGGCAACCTTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACC-TC
* *
4236031 TTCAAAGCCCACACAAGTTGGTGGTAACCTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTC
* *
4236062 TTCTAAAGCCCACACGAGTTGGTGGCAACCTC
1 -TCCAAAGCCCACACAAGTTGGTGGCAACCTC
* *
4236094 TTCAAAGCTCACACAAGTTGGTGGCAACCTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTC
*
4236125 TTCCAAAGCCCACACGAGTTGGTGGCAACCTC
1 -TCCAAAGCCCACACAAGTTGGTGGCAACCTC
* * * * *
4236157 TTCAAAGCCTATACGAGTTGGTGACAACCTC
1 TCCAAAGCCCACACAAGTTGGTGGCAACCTC
*
4236188 TTCAAAAGCCCACACAAGT
1 -TCCAAAGCCCACACAAGT
4236207 CGATGGTGAC
Statistics
Matches: 182, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
31 56 0.31
32 126 0.69
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (31 bp):
TCCAAAGCCCACACAAGTTGGTGGCAACCTC
Found at i:4236124 original size:63 final size:63
Alignment explanation
Indices: 4235960--4236235 Score: 356
Period size: 63 Copynumber: 4.3 Consensus size: 63
4235950 CCAGTGGAGA
* * *
4235960 AACCTTTTCCAAAGCCCACATAAGTTGGTGGCAACCT-TCTCCAAAGCCCACACAAGTTGGTGGC
1 AACCTCTT-CAAAGCCCACACAAGTTGGTGGCAACCTCT-TCCAAAGCCCACACGAGTTGGTGGC
* *
4236024 AACCTTCTTCAAAGCCCACACAAGTTGGTGGTAACCTCTTCTAAAGCCCACACGAGTTGGTGGC
1 AACC-TCTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCCAAAGCCCACACGAGTTGGTGGC
*
4236088 AACCTCTTCAAAGCTCACACAAGTTGGTGGCAACCTCTTCCAAAGCCCACACGAGTTGGTGGC
1 AACCTCTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCCAAAGCCCACACGAGTTGGTGGC
* * * * * * * * *
4236151 AACCTCTTCAAAGCCTATACGAGTTGGTGACAACCTCTTCAAAAGCCCACACAAGTCGATGGT
1 AACCTCTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCCAAAGCCCACACGAGTTGGTGGC
* * *
4236214 GACCCCTTTAAAGCCCACACAA
1 AACCTCTTCAAAGCCCACACAA
4236236 AAGCTCACGA
Statistics
Matches: 186, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
63 125 0.67
64 57 0.31
65 4 0.02
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (63 bp):
AACCTCTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTCCAAAGCCCACACGAGTTGGTGGC
Found at i:4236132 original size:95 final size:94
Alignment explanation
Indices: 4235960--4236206 Score: 352
Period size: 95 Copynumber: 2.6 Consensus size: 94
4235950 CCAGTGGAGA
* ** *
4235960 AACCTTTTCCAAAGCCCACATAAGTTGGTGGCAACCTTCTCCAAAGCCCACACAAGTTGGTGGCA
1 AACCTCTT-CAAAGCCCACACGAGTTGGTGGCAACC-TCTTCAAAGCCCACACAAGTTGGTGGCA
*
4236025 ACCTTCTTCAAAGCCCACACAAGTTGGTGGT
64 ACCTTCTTCAAAGCCCACACAAGTTGGTGGC
*
4236056 AACCTCTTCTAAAGCCCACACGAGTTGGTGGCAACCTCTTCAAAGCTCACACAAGTTGGTGGCAA
1 AACCTCTTC-AAAGCCCACACGAGTTGGTGGCAACCTCTTCAAAGCCCACACAAGTTGGTGGCAA
*
4236121 CC-TCTTCCAAAGCCCACACGAGTTGGTGGC
65 CCTTCTT-CAAAGCCCACACAAGTTGGTGGC
* * *
4236151 AACCTCTTCAAAGCCTATACGAGTTGGTGACAACCTCTTCAAAAGCCCACACAAGT
1 AACCTCTTCAAAGCCCACACGAGTTGGTGGCAACCTCTTC-AAAGCCCACACAAGT
4236207 CGATGGTGAC
Statistics
Matches: 137, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
94 32 0.23
95 74 0.54
96 31 0.23
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (94 bp):
AACCTCTTCAAAGCCCACACGAGTTGGTGGCAACCTCTTCAAAGCCCACACAAGTTGGTGGCAAC
CTTCTTCAAAGCCCACACAAGTTGGTGGC
Found at i:4245020 original size:21 final size:19
Alignment explanation
Indices: 4244976--4245020 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4244966 ATGTTTAACA
4244976 ATATCGATACATTAGAAAT
1 ATATCGATACATTAGAAAT
* *
4244995 GTATCGATACATATCTGAAAT
1 ATATCGATACAT-T-AGAAAT
4245016 ATATC
1 ATATC
4245021 AATATAGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 11 0.52
20 1 0.05
21 9 0.43
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (19 bp):
ATATCGATACATTAGAAAT
Found at i:4248216 original size:13 final size:13
Alignment explanation
Indices: 4248198--4248224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4248188 ACATGCTGCT
4248198 TTGTATCGATACA
1 TTGTATCGATACA
4248211 TTGTATCGATACA
1 TTGTATCGATACA
4248224 T
1 T
4248225 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4248221 original size:33 final size:32
Alignment explanation
Indices: 4248179--4248243 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
4248169 CACACCCAGA
*
4248179 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
4248212 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
4248244 GGATAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:4248233 original size:19 final size:19
Alignment explanation
Indices: 4248209--4248265 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
4248199 TGTATCGATA
*
4248209 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGAT
4248228 CATTGTATCGATACATGGAT
1 CATTGTATCGATACAT-GAT
*
4248248 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
4248266 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:4248254 original size:20 final size:20
Alignment explanation
Indices: 4248205--4248264 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
4248195 GCTTTGTATC
4248205 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* *
4248225 GTTCATTGTATCGATACATG
1 GATAATTGTATCGATACATG
4248245 GATAATTGTATCGATACATG
1 GATAATTGTATCGATACATG
4248265 AAACTGGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:4248330 original size:13 final size:13
Alignment explanation
Indices: 4248309--4248339 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4248299 CGATACTTGG
*
4248309 TACAATGTATCGA
1 TACATTGTATCGA
4248322 TACATTGTATCGA
1 TACATTGTATCGA
4248335 TACAT
1 TACAT
4248340 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4248335 original size:33 final size:32
Alignment explanation
Indices: 4248293--4248359 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
4248283 CTATCACTAT
*
4248293 TTGTATCGATACTTG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
4248326 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
4248359 T
1 T
4248360 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:4248634 original size:18 final size:17
Alignment explanation
Indices: 4248587--4248634 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
4248577 CGTCTAGAGA
4248587 TCAAAAGCTTTCAAAGT
1 TCAAAAGCTTTCAAAGT
* * *
4248604 TCAAAGAGTTTTCACATT
1 TCAAA-AGCTTTCAAAGT
4248622 TCCAAAAGCTTTC
1 T-CAAAAGCTTTC
4248635 GTTTTCATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (17 bp):
TCAAAAGCTTTCAAAGT
Found at i:4254528 original size:13 final size:13
Alignment explanation
Indices: 4254510--4254551 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
4254500 ACAACATTCC
4254510 TTGTATCGATACA
1 TTGTATCGATACA
4254523 TTGTATCGATACCA
1 TTGTATCGATA-CA
4254537 -TGTAATCGATACA
1 TTGT-ATCGATACA
4254550 TT
1 TT
4254552 AGATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4256448 original size:12 final size:12
Alignment explanation
Indices: 4256431--4256455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4256421 TAAGGGGGAG
4256431 AATTTTTTTTAA
1 AATTTTTTTTAA
4256443 AATTTTTTTTAA
1 AATTTTTTTTAA
4256455 A
1 A
4256456 TGAGGAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTTTTTTTAA
Found at i:4257045 original size:19 final size:20
Alignment explanation
Indices: 4257021--4257073 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
4257011 CACACCCAGA
**
4257021 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
4257040 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
4257060 TGTATCGATACATG
1 TGTATCGATACATG
4257074 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:4260629 original size:13 final size:13
Alignment explanation
Indices: 4260611--4260635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4260601 ACATTTGGTC
4260611 ATGTATCGATACA
1 ATGTATCGATACA
4260624 ATGTATCGATAC
1 ATGTATCGATAC
4260636 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4265615 original size:20 final size:20
Alignment explanation
Indices: 4265590--4265646 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
4265580 ACTGCAAAAA
*
4265590 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATTACT
*
4265610 AAATGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* *
4265630 CATTGTATCGATACATT
1 AAATGTATCGATACATT
4265647 CTAGGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:4268102 original size:94 final size:95
Alignment explanation
Indices: 4267931--4268138 Score: 273
Period size: 95 Copynumber: 2.2 Consensus size: 95
4267921 TCTATTGATC
* * *
4267931 CGAATGGATACTCCAACCCCGCTTTTAAACTTCTCAAGTTTTAAATCTTATTTTGCTTAAATTAT
1 CGAAGGGATACTCCAACCCCGCTTTTAAACTTCTCAAG-TTTAAATCGTATTTTGCCTAAATTAT
*
4267996 TATCATCGGGGACACTCCAA-CCCACTTC-TT
65 CATCATCGGGGACACTCCAACCCCA-TTCTTT
*
4268026 CGAAGGGATACTCCAACCCCGTTTTTAAACTTGC-CAA-TTTAAATCGTATTTTTGCCTAAATTA
1 CGAAGGGATACTCCAACCCCGCTTTTAAACTT-CTCAAGTTTAAATCGTA-TTTTGCCTAAATTA
*
4268089 TCATCATCGGGGACACTTCAACCCCATTCTTT
64 TCATCATCGGGGACACTCCAACCCCATTCTTT
*
4268121 CG-AGGGAATACTCTAACC
1 CGAAGGG-ATACTCCAACC
4268139 TTATTTTCAA
Statistics
Matches: 101, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
93 10 0.10
94 39 0.39
95 51 0.50
96 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (95 bp):
CGAAGGGATACTCCAACCCCGCTTTTAAACTTCTCAAGTTTAAATCGTATTTTGCCTAAATTATC
ATCATCGGGGACACTCCAACCCCATTCTTT
Found at i:4269153 original size:141 final size:145
Alignment explanation
Indices: 4268895--4269161 Score: 355
Period size: 141 Copynumber: 1.9 Consensus size: 145
4268885 ATCGAGGATC
* *
4268895 GGTTAGATAGGCGATTCATATATCAATCTTTCCCACTTCAATTAATATTATTCTCATCATGCCAT
1 GGTTAGATAGGCAATTCATATATCAATCTTTCCCACTTCAATTAACATTATTCTCATCATGCCAT
* * * *
4268960 AAAAATCCCCAATCATAAGGGATATTAAGCCGAGCGCGCTTTATTTTCCCTATCACCGGGGTCAA
66 AAAAATCCCCAATCACAAGAGATATTAAGCCGAGCGCGCCTCATTTTCCCTATCACCGGGGTCAA
4269025 GCGCACTTCACGACA
131 GCGCACTTCACGACA
* * * *
4269040 GGTTAGATGGGCAATTCATCTGTCAATC-TTCCTCACTTCAA-T-ACA-T-TTCTTATCATGCCA
1 GGTTAGATAGGCAATTCATATATCAATCTTTCC-CACTTCAATTAACATTATTCTCATCATGCCA
* * ** *
4269100 TAGAAATCCTCAATCACAAGAGATATTAAGTTGGGCGCGCCTCATTTTCCCTATCACCGGGG
65 TAAAAATCCCCAATCACAAGAGATATTAAGCCGAGCGCGCCTCATTTTCCCTATCACCGGGG
4269162 CGAGGGCATG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
141 66 0.62
142 1 0.01
143 2 0.02
144 5 0.05
145 32 0.30
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (145 bp):
GGTTAGATAGGCAATTCATATATCAATCTTTCCCACTTCAATTAACATTATTCTCATCATGCCAT
AAAAATCCCCAATCACAAGAGATATTAAGCCGAGCGCGCCTCATTTTCCCTATCACCGGGGTCAA
GCGCACTTCACGACA
Found at i:4272101 original size:21 final size:20
Alignment explanation
Indices: 4272077--4272119 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4272067 TATGTATACT
4272077 TATATAAAGGTTATCATATGC
1 TATATAAAGGTTATCATA-GC
**
4272098 TATATGTAGGTTATCATAGC
1 TATATAAAGGTTATCATAGC
4272118 TA
1 TA
4272120 GATACGATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (20 bp):
TATATAAAGGTTATCATAGC
Found at i:4274021 original size:19 final size:19
Alignment explanation
Indices: 4273951--4274021 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
4273941 AACATTTTAA
*
4273951 AAAT-TTATATATTTATGT
1 AAATATTATATATTTATTT
4273969 -AATATT-TAT-TTTATTTTT
1 AAATATTATATATTTA--TTT
*
4273987 ATATATTATA-ATTTTATTT
1 AAATATTATATA-TTTATTT
4274006 AAATATTATATATTTA
1 AAATATTATATATTTA
4274022 ATAAATTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
16 4 0.10
17 6 0.14
18 4 0.10
19 21 0.50
20 3 0.07
21 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
AAATATTATATATTTATTT
Found at i:4274124 original size:20 final size:19
Alignment explanation
Indices: 4274086--4274122 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4274076 TTCATATATT
4274086 ATTTTTATATTATATTTTA
1 ATTTTTATATTATATTTTA
4274105 ATTTTTATAATTA-ATTTT
1 ATTTTTAT-ATTATATTTT
4274123 TATTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTATATTATATTTTA
Found at i:4274563 original size:16 final size:16
Alignment explanation
Indices: 4274520--4274571 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
4274510 GCTACAGCAT
**
4274520 ATTTATATATTTTTATA
1 ATTTATATAAATTTA-A
4274537 ATTT-T-TAAATTTAA
1 ATTTATATAAATTTAA
4274551 ATTTATATAAATTTAA
1 ATTTATATAAATTTAA
4274567 ATTTA
1 ATTTA
4274572 AATTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 15 0.48
17 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTATATAAATTTAA
Found at i:4274579 original size:5 final size:6
Alignment explanation
Indices: 4274540--4274579 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
4274530 TTTTATAATT
*
4274540 TTTAAA TTTAAA TTT--A TATAAA TTTAAA TTTAAA -TTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
4274580 ATTTTTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
4 3 0.10
5 5 0.17
6 21 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:4274902 original size:39 final size:40
Alignment explanation
Indices: 4274834--4274911 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 40
4274824 AAAATTTTTA
* * *
4274834 TTTAAAATTAATTATAAATATTAATATAATTTTTTAATTT
1 TTTAAAATTAATTATAAATAATAAAATAATTTTTAAATTT
* *
4274874 TTTAATATT-ATTTTAAATAATAAAATAATTTTTAAATT
1 TTTAAAATTAATTATAAATAATAAAATAATTTTTAAATT
4274912 AATTTAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 25 0.76
40 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (40 bp):
TTTAAAATTAATTATAAATAATAAAATAATTTTTAAATTT
Found at i:4276308 original size:16 final size:18
Alignment explanation
Indices: 4276276--4276316 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
4276266 ATTATTTTAT
4276276 AAAA-TTAAATAATTAAA
1 AAAATTTAAATAATTAAA
4276293 AAAATTTAAA-AA-TAAA
1 AAAATTTAAATAATTAAA
*
4276309 AAATTTTA
1 AAAATTTA
4276317 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
17 6 0.27
18 5 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTTAAATAATTAAA
Found at i:4277570 original size:13 final size:13
Alignment explanation
Indices: 4277554--4277609 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
4277544 TTTTTTAAAA
4277554 AAATTTATGTTTT
1 AAATTTATGTTTT
*
4277567 AAATTTATTTTTT
1 AAATTTATGTTTT
*
4277580 AATATTTATG-TAT
1 AA-ATTTATGTTTT
* *
4277593 ATATTTATCTTTT
1 AAATTTATGTTTT
4277606 AAAT
1 AAAT
4277610 ATATAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
12 6 0.18
13 22 0.65
14 6 0.18
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (13 bp):
AAATTTATGTTTT
Found at i:4278737 original size:18 final size:17
Alignment explanation
Indices: 4278714--4278765 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
4278704 AGTAGTTAAT
*
4278714 TATTTTTTTAATTATAAA
1 TATTTTTTTAATAAT-AA
*
4278732 TATTTTTTAAATAATAA
1 TATTTTTTTAATAATAA
*
4278749 TTTTTTATTTAATAATA
1 TATTTT-TTTAATAATA
4278766 TTATATACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTTTAATAATAA
Found at i:4280481 original size:17 final size:16
Alignment explanation
Indices: 4280452--4280497 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4280442 TCATTGGTAA
*
4280452 TTAATATATTTATATT
1 TTAATATAATTATATT
4280468 TTAATTATAATTATA-T
1 TTAA-TATAATTATATT
*
4280484 TTAAAAT-ATTATAT
1 TTAATATAATTATAT
4280498 ATATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.23
15 2 0.08
16 9 0.35
17 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAATATAATTATATT
Found at i:4280614 original size:18 final size:20
Alignment explanation
Indices: 4280580--4280626 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
4280570 TAAAAAAATT
4280580 ATAAAAATATCAAATTAAAA
1 ATAAAAATATCAAATTAAAA
4280600 ATAAAAAT-T-AAATT-AAA
1 ATAAAAATATCAAATTAAAA
*
4280617 TTAAAAATAT
1 ATAAAAATAT
4280627 TTTAATAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 6 0.24
19 1 0.04
20 8 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAAAATATCAAATTAAAA
Found at i:4280684 original size:36 final size:38
Alignment explanation
Indices: 4280642--4280726 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 38
4280632 TAGTTTAATC
4280642 TTAAAAAATAATTAAT-TAAAAAATTA-ATATTA-TTT
1 TTAAAAAATAATTAATCTAAAAAATTATATATTATTTT
* * * *
4280677 TTAAAAAATTATTTATCTAAAAAATTATTTTTTATTTT
1 TTAAAAAATAATTAATCTAAAAAATTATATATTATTTT
4280715 TTAATAAAATAA
1 TTAA-AAAATAA
4280727 ATTTTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 14 0.34
36 10 0.24
37 4 0.10
38 7 0.17
39 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (38 bp):
TTAAAAAATAATTAATCTAAAAAATTATATATTATTTT
Found at i:4280699 original size:16 final size:14
Alignment explanation
Indices: 4280670--4280708 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 14
4280660 AAAAATTAAT
4280670 ATTATTTTTAAAAA
1 ATTATTTTTAAAAA
4280684 ATTATTTATCTAAAAA
1 ATTATTT-T-TAAAAA
4280700 ATTATTTTT
1 ATTATTTTT
4280709 TATTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 2 0.09
16 13 0.57
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTATTTTTAAAAA
Found at i:4280805 original size:11 final size:11
Alignment explanation
Indices: 4280765--4280808 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
4280755 TTTTATATCA
* *
4280765 TATATTTTTCT
1 TATATTTATAT
4280776 TATATTT-TAT
1 TATATTTATAT
4280786 TAT-TTTATAT
1 TATATTTATAT
4280796 TATATTTATAT
1 TATATTTATAT
4280807 TA
1 TA
4280809 CATAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 3 0.10
10 11 0.37
11 16 0.53
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:4282366 original size:7 final size:7
Alignment explanation
Indices: 4282354--4282451 Score: 76
Period size: 7 Copynumber: 13.4 Consensus size: 7
4282344 TTATAAAAAT
4282354 TATTATA
1 TATTATA
4282361 TATTATA
1 TATTATA
4282368 TATTATA
1 TATTATA
4282375 TATTATA
1 TATTATA
* *
4282382 AATGATA
1 TATTATA
4282389 TATTATATTA
1 TA-T-TA-TA
4282399 TATTATA
1 TATTATA
4282406 TACCTTTATA
1 TA---TTATA
4282416 CTATTATA
1 -TATTATA
*
4282424 TA-AATA
1 TATTATA
*
4282430 TATT-TT
1 TATTATA
4282436 TATT-TA
1 TATTATA
4282442 TATTATA
1 TATTATA
4282449 TAT
1 TAT
4282452 AAAATATAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
6 15 0.20
7 38 0.51
8 8 0.11
9 2 0.03
10 9 0.12
11 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (7 bp):
TATTATA
Found at i:4282381 original size:33 final size:33
Alignment explanation
Indices: 4282331--4282451 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
4282321 AAACATAAAT
4282331 TATTTATATTAT-T-TTATAAAAAT-TATTATA
1 TATTTATATTATATATTATAAAAATATATTATA
*
4282361 TATTATATATTATATATTATAAATGATATATTATATTA
1 TATT-TATATTATATATTATAAA-AATATA-T-TA-TA
* *
4282399 TATTATATACCTTTATACTATTATATAAATATATT-TT
1 TATT-TATA---TTATA-TATTATAAAAATATATTATA
4282436 TATTTATATTATATAT
1 TATTTATATTATATAT
4282452 AAAATATAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
30 4 0.05
31 8 0.11
32 4 0.05
33 12 0.16
34 2 0.03
35 2 0.03
36 5 0.07
37 7 0.09
38 11 0.15
39 1 0.01
40 1 0.01
41 10 0.13
42 8 0.11
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (33 bp):
TATTTATATTATATATTATAAAAATATATTATA
Found at i:4286458 original size:22 final size:23
Alignment explanation
Indices: 4286412--4286458 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
4286402 TTTATATATT
*
4286412 ATAATTTTTATATAATAATATAA
1 ATAATTTTTATATAATAATAAAA
* *
4286435 ATAATTTTTTTA-AATATTAAAA
1 ATAATTTTTATATAATAATAAAA
4286457 AT
1 AT
4286459 TGGTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAATTTTTATATAATAATAAAA
Found at i:4286874 original size:23 final size:25
Alignment explanation
Indices: 4286848--4286899 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 25
4286838 TATAGTAAAA
4286848 ATTATATCATTAAGTTAAATAGGATTAG
1 ATTATATCATTAAGTTAAATAGG---AG
4286876 ATTATATCATTAAGTTAAATAGGA
1 ATTATATCATTAAGTTAAATAGGA
4286900 TCGTAGATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 1 0.04
28 23 0.96
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (25 bp):
ATTATATCATTAAGTTAAATAGGAG
Found at i:4287269 original size:3 final size:3
Alignment explanation
Indices: 4287261--4287311 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
4287251 ATTAAAATAA
*
4287261 ATT ATT ATT ATT ATT ATT -TT ATT ATA ATT -TT ATT -TT ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4287304 ATT -TT ATT
1 ATT ATT ATT
4287312 GTAATGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 12 0.29
3 29 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
ATT
Found at i:4287284 original size:11 final size:11
Alignment explanation
Indices: 4287261--4287306 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
4287251 ATTAAAATAA
4287261 ATTATTATTATT
1 ATTATT-TTATT
4287273 ATTATTTTATT
1 ATTATTTTATT
*
4287284 ATAATTTTATT
1 ATTATTTTATT
4287295 -TTATTTT-TT
1 ATTATTTTATT
4287304 ATT
1 ATT
4287307 TTATTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 2 0.06
10 8 0.26
11 15 0.48
12 6 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:4287295 original size:5 final size:5
Alignment explanation
Indices: 4287262--4287330 Score: 57
Period size: 5 Copynumber: 12.6 Consensus size: 5
4287252 TTAAAATAAA
*
4287262 TTATT ATTATT ATTATT TTATT ATAATT TTATT TTATTTT TTATT TTATT
1 TTATT -TTATT -TTATT TTATT -TTATT TTATT TTA--TT TTATT TTATT
* *
4287312 GTAATG TTATT TTATT TTA
1 -TTATT TTATT TTATT TTA
4287331 ATGAGTCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
5 30 0.57
6 18 0.34
7 5 0.09
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (5 bp):
TTATT
Found at i:4287295 original size:16 final size:16
Alignment explanation
Indices: 4287262--4287332 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
4287252 TTAAAATAAA
*
4287262 TTATTATTATTATTATT
1 TTATTATAATT-TTATT
4287279 TTATTATAATTTTATT
1 TTATTATAATTTTATT
4287295 TTA-T-T--TTTTATT
1 TTATTATAATTTTATT
* *
4287307 TTATTGTAATGTTATT
1 TTATTATAATTTTATT
*
4287323 TTATTTTAAT
1 TTATTATAAT
4287333 GAGTCAAACG
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
12 10 0.21
13 1 0.02
14 2 0.04
15 1 0.02
16 23 0.49
17 10 0.21
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTATTATAATTTTATT
Found at i:4287305 original size:28 final size:29
Alignment explanation
Indices: 4287265--4287330 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
4287255 AAATAAATTA
*
4287265 TTATTATTATTATTTTATTATAATTTTATT
1 TTATT-TTATTATTTTATTATAATGTTATT
*
4287295 TTATTTT-TTATTTTATTGTAATGTTATT
1 TTATTTTATTATTTTATTATAATGTTATT
4287323 TTATTTTA
1 TTATTTTA
4287331 ATGAGTCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 26 0.79
29 2 0.06
30 5 0.15
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (29 bp):
TTATTTTATTATTTTATTATAATGTTATT
Found at i:4287919 original size:15 final size:15
Alignment explanation
Indices: 4287855--4287921 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
4287845 TCTGAACCTT
* *
4287855 AATAACTTAAATCTA
1 AATAATTTAAATTTA
4287870 ACAT-ATTTAAATTTAA
1 A-ATAATTTAAATTT-A
*
4287886 AATAATTTAAAATTAA
1 AATAATTT-AAATTTA
4287902 AATAATTTAAATTTA
1 AATAATTTAAATTTA
4287917 AATAA
1 AATAA
4287922 ATCTAAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 22 0.50
16 17 0.39
17 5 0.11
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATTTAAATTTA
Found at i:4287929 original size:16 final size:16
Alignment explanation
Indices: 4287855--4287918 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
4287845 TCTGAACCTT
* *
4287855 AATAACTTAAATCTAA
1 AATAATTTAAATTTAA
*
4287871 CAT-ATTTAAATTTAA
1 AATAATTTAAATTTAA
*
4287886 AATAATTTAAAATTAA
1 AATAATTTAAATTTAA
4287902 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
4287918 A
1 A
4287919 TAAATCTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.29
16 29 0.71
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:4288787 original size:19 final size:18
Alignment explanation
Indices: 4288768--4288802 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4288758 ATTATTAAAT
4288768 TTTAAAATAAATATTTAA
1 TTTAAAATAAATATTTAA
*
4288786 TTTAAAATTAAT-TTTAA
1 TTTAAAATAAATATTTAA
4288803 ATAGATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAAATAAATATTTAA
Found at i:4289186 original size:16 final size:15
Alignment explanation
Indices: 4289152--4289189 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4289142 TTAATAGTAT
*
4289152 ATATATATATATATG
1 ATATATTTATATATG
4289167 -TATATTTATATCATG
1 ATATATTTATAT-ATG
4289182 ATATATTT
1 ATATATTT
4289190 TTTTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (15 bp):
ATATATTTATATATG
Found at i:4292057 original size:20 final size:22
Alignment explanation
Indices: 4292032--4292077 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
4292022 ATTTTTATCT
*
4292032 AATTATCAAGAAAAA-TAA-AA
1 AATTATCAAAAAAAATTAATAA
*
4292052 AATTATTAAAAAAAATTAATAA
1 AATTATCAAAAAAAATTAATAA
4292074 AATT
1 AATT
4292078 TTAGCCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AATTATCAAAAAAAATTAATAA
Found at i:4297869 original size:52 final size:52
Alignment explanation
Indices: 4297795--4297984 Score: 238
Period size: 52 Copynumber: 3.7 Consensus size: 52
4297785 TAAGTTGACT
* * * *
4297795 CAAGGCCAGCAACA-TGGAACTTAAGGATGACAAAGGTGTCAACGTGTTGATC
1 CAAGGCCAGCAACATTAG-ACTTAAAGATGACAAAGGTGCCAACGTGTCGATC
* * * *
4297847 CAAGGCTAGCAACATTAGACTTAAAGTTGAGAAAGGTGCCAACGTGCCGATC
1 CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGTGCCAACGTGTCGATC
* * * *
4297899 CAAGGCCAACAACATTGGACTTAAAGATGAGAAAGGTGCCAACATGTCGATC
1 CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGTGCCAACGTGTCGATC
* *
4297951 CAAGGCCAGCGACATTAGACTTAGAGATGACAAA
1 CAAGGCCAGCAACATTAGACTTAAAGATGACAAA
4297985 TTTTGACAAG
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
52 116 0.98
53 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (52 bp):
CAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGTGCCAACGTGTCGATC
Found at i:4315173 original size:51 final size:52
Alignment explanation
Indices: 4315113--4315251 Score: 192
Period size: 51 Copynumber: 2.7 Consensus size: 52
4315103 ATTTGCCTAC
*
4315113 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGGTCA-AAACCCAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTCACAAACCCAGA
* * * * **
4315164 ATGTATCGATGCAATGAATAATGCATTAATACATTTGGGTCACAAACCCAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTCACAAACCCAGA
4315216 ATGTATCGATACAATT-AAAAATGTATCGATACATTT
1 ATGTATCGATAC-ATTGAAAAATGTATCGATACATTT
4315252 TCTTTCTAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
51 36 0.49
52 36 0.49
53 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTCACAAACCCAGA
Found at i:4315224 original size:52 final size:51
Alignment explanation
Indices: 4315113--4315251 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 51
4315103 ATTTGCCTAC
* * *
4315113 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAACCCAGA
1 ATGTATCGATACAATGAAGAATGCATCAATACATTTGGGTCAAAACCCAGA
* * *
4315164 ATGTATCGATGCAATGAATAATGCATTAATACATTTGGGTCACAAACCCAGA
1 ATGTATCGATACAATGAAGAATGCATCAATACATTTGGGTCA-AAACCCAGA
* * * *
4315216 ATGTATCGATACAATTAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAGAATGCATCAATACATTT
4315252 TCTTTCTAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 36 0.48
52 39 0.52
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGCATCAATACATTTGGGTCAAAACCCAGA
Found at i:4315355 original size:21 final size:20
Alignment explanation
Indices: 4315288--4315355 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
4315278 GGCATGGTCT
***
4315288 TGTATCGATACATTTCAGACA
1 TGTATCGATACA-TTCACTTA
* *
4315309 TGTATTGATATATTCACTTA
1 TGTATCGATACATTCACTTA
*
4315329 TGTATCGATACATTCATTTA
1 TGTATCGATACATTCACTTA
4315349 TTGTATC
1 -TGTATC
4315356 AATATGAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:4316351 original size:13 final size:13
Alignment explanation
Indices: 4316333--4316389 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
4316323 CATAAAGTGT
4316333 TGTATCGATACAA
1 TGTATCGATACAA
4316346 TGTATCGATACATAA
1 TGTATCGATAC--AA
4316361 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
4316378 TGTATTGATACA
1 TGTATCGATACA
4316390 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4316368 original size:32 final size:32
Alignment explanation
Indices: 4316313--4316413 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
4316303 TTCAATGATT
4316313 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4316346 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
4316378 TGTATTGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4316410 TGTA
1 TGTA
4316414 AGCTACTACC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4316370 original size:19 final size:18
Alignment explanation
Indices: 4316311--4316408 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
4316301 ATTTCAATGA
4316311 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4316330 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4316346 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4316362 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
4316378 --TGTATTGATACATAAG
1 TTTGTATCGATACATAAG
4316394 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4316409 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4316528 original size:52 final size:52
Alignment explanation
Indices: 4316484--4316612 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
4316474 CACTGATCTT
*
4316484 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
*
4316536 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
4316588 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4316613 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCGATACACTATAAAA
Found at i:4324613 original size:52 final size:52
Alignment explanation
Indices: 4324525--4324654 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
4324515 ATTACTCTAG
* *
4324525 ATGTATCGATACATGCAGGCAAATATGCCTAAATGTATCGATACACTATAAA
1 ATGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAA
* * * *
4324577 ATGTATCGATACATACAAGCAAATTTGCCCAGATGTATCGATACACTATGAA
1 ATGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAA
4324629 ATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACATGCAGGCAAATTT
4324655 TCATATTTCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAA
Found at i:4331529 original size:2 final size:2
Alignment explanation
Indices: 4331522--4331563 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4331512 TAAAGATTAC
4331522 AT AT 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 AT AT
4331564 CCTTGAGCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4333949 original size:21 final size:22
Alignment explanation
Indices: 4333925--4333965 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4333915 GAATTAAAAG
4333925 AATTTT-AAAAATAAATAAATA
1 AATTTTAAAAAATAAATAAATA
4333946 AATTTTAAAAAATAAATAAA
1 AATTTTAAAAAATAAATAAA
4333966 ATAACAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTTAAAAAATAAATAAATA
Found at i:4334665 original size:20 final size:20
Alignment explanation
Indices: 4334642--4334679 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4334632 TTTTAGAATG
* *
4334642 AATTAATTTAATTTTAATTA
1 AATTAATTAAAATTTAATTA
4334662 AATTAATTAAAATTTAAT
1 AATTAATTAAAATTTAAT
4334680 AAACTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTAATTAAAATTTAATTA
Found at i:4334990 original size:23 final size:23
Alignment explanation
Indices: 4334948--4335008 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
4334938 AAGTGATTAA
4334948 AAAAATA-TTTTTTTATAAAAAT
1 AAAAATATTTTTTTTATAAAAAT
**
4334970 AAGGATAGTTTTTTTTA-AAAAAT
1 AAAAATA-TTTTTTTTATAAAAAT
4334993 AAAAATATTTTTTTTA
1 AAAAATATTTTTTTTA
4335009 CGCGAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 14 0.42
23 11 0.33
24 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
AAAAATATTTTTTTTATAAAAAT
Found at i:4335039 original size:20 final size:21
Alignment explanation
Indices: 4335013--4335070 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 21
4335003 TTTTTACGCG
4335013 AAATTTTTTTAAAAAATGAAT
1 AAATTTTTTTAAAAAATGAAT
* *
4335034 -AATTTTTTTAAAAAATTATT
1 AAATTTTTTTAAAAAATGAAT
4335054 AAATTTTTTTAAAAAAT
1 AAATTTTTTTAAAAAAT
4335071 TATACCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTTTTTAAAAAATGAAT
Found at i:4335071 original size:21 final size:21
Alignment explanation
Indices: 4335013--4335073 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
4335003 TTTTTACGCG
* *
4335013 AAATTTTTTTAAAAAATGAAT
1 AAATTTTTTTAAAAAATTATT
4335034 -AATTTTTTTAAAAAATTATT
1 AAATTTTTTTAAAAAATTATT
4335054 AAATTTTTTTAAAAAATTAT
1 AAATTTTTTTAAAAAATTAT
4335074 ACCTAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATTTTTTTAAAAAATTATT
Found at i:4342969 original size:16 final size:15
Alignment explanation
Indices: 4342943--4343014 Score: 67
Period size: 16 Copynumber: 4.7 Consensus size: 15
4342933 AATTTATATT
*
4342943 TTTATTAAATATTTA
1 TTTATTTAATATTTA
4342958 TTATATTTAATATTTA
1 TT-TATTTAATATTTA
*
4342974 TTTGATATTAA-AATTA
1 TTT-AT-TTAATATTTA
*
4342990 TTTATTTTATATTTAA
1 TTTATTTAATATTT-A
4343006 TTT-TTTAAT
1 TTTATTTAAT
4343015 TAAAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.06
15 13 0.28
16 27 0.57
17 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (15 bp):
TTTATTTAATATTTA
Found at i:4343129 original size:41 final size:41
Alignment explanation
Indices: 4343084--4343165 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4343074 CTCATTAGTG
4343084 TAACTTCTCATATCTAGCATTTTGACGAACAGTAGCTTCTA
1 TAACTTCTCATATCTAGCATTTTGACGAACAGTAGCTTCTA
4343125 TAACTTCTCATATCTAGCATTTTGACGAACAGTAGCTTCTA
1 TAACTTCTCATATCTAGCATTTTGACGAACAGTAGCTTCTA
4343166 CTGTTGGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (41 bp):
TAACTTCTCATATCTAGCATTTTGACGAACAGTAGCTTCTA
Found at i:4343453 original size:19 final size:18
Alignment explanation
Indices: 4343416--4343454 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4343406 TGTATAATAT
**
4343416 AAATTTATAAATATTTTA
1 AAATTTATAAATACGTTA
4343434 AAATTTATATAATACGTTA
1 AAATTTATA-AATACGTTA
4343453 AA
1 AA
4343455 TATAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AAATTTATAAATACGTTA
Found at i:4345989 original size:39 final size:40
Alignment explanation
Indices: 4345899--4345989 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
4345889 GTTAACTTTC
* * *
4345899 GTAAATATTAATTTGTATTGCATAAGACATTAAAAGTTTT
1 GTAAATATTAATCTGAACTGCATAAGACATTAAAAGTTTT
* *
4345939 GTAAATATTAATCTGAACTGCATAAGGCATTACAA-TTTT
1 GTAAATATTAATCTGAACTGCATAAGACATTAAAAGTTTT
4345978 GTAAATATTAAT
1 GTAAATATTAAT
4345990 TTAATTTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.35
40 30 0.65
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (40 bp):
GTAAATATTAATCTGAACTGCATAAGACATTAAAAGTTTT
Found at i:4345997 original size:20 final size:20
Alignment explanation
Indices: 4345972--4346011 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4345962 AAGGCATTAC
4345972 AATTTTGTAAATATTAATTT
1 AATTTTGTAAATATTAATTT
*
4345992 AATTTTGTATATATTAATTT
1 AATTTTGTAAATATTAATTT
4346012 GTATTACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTTTGTAAATATTAATTT
Found at i:4347762 original size:2 final size:2
Alignment explanation
Indices: 4347755--4347787 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4347745 AATGAGAAAA
4347755 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 A
4347788 ATGGTACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4348534 original size:33 final size:31
Alignment explanation
Indices: 4348496--4348598 Score: 84
Period size: 33 Copynumber: 3.1 Consensus size: 31
4348486 TTTAACTATC
4348496 AAAATATAAAAATGATTAAAATTATATTTATAT
1 AAAATATAAAAAT-ATTAAAATT-TATTTATAT
* * * *
4348529 TAAATA-ACAAAATATATTATATTTATGTTAAAT
1 AAAATATA-AAAATAT-TAAAATTTAT-TTATAT
4348562 AATAAT-TAAAAATTATTAAAATTCTATTTATAT
1 AA-AATATAAAAA-TATTAAAATT-TATTTATAT
4348595 AAAA
1 AAAA
4348599 AATGAATAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
32 8 0.15
33 37 0.67
34 10 0.18
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
AAAATATAAAAATATTAAAATTTATTTATAT
Done.