Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 12 of 210
Found at i:4167358 original size:14 final size:15
Alignment explanation
Indices: 4167339--4167371 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4167329 ATCAGATAAC
4167339 ATTAAAATTA-GTTT
1 ATTAAAATTAGGTTT
*
4167353 ATTAAATTTAGGTTT
1 ATTAAAATTAGGTTT
4167368 ATTA
1 ATTA
4167372 TAATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (15 bp):
ATTAAAATTAGGTTT
Found at i:4169286 original size:16 final size:16
Alignment explanation
Indices: 4169262--4169310 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
4169252 TGTAATTTTG
*
4169262 TTATTAATTTAAAATT
1 TTATAAATTTAAAATT
*
4169278 TTATAAATTATAAAAAT
1 TTATAAATT-TAAAATT
*
4169295 TT-TAAATTAAAAATT
1 TTATAAATTTAAAATT
4169310 T
1 T
4169311 ATCATTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 8 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATAAATTTAAAATT
Found at i:4172070 original size:156 final size:162
Alignment explanation
Indices: 4171809--4172131 Score: 471
Period size: 157 Copynumber: 2.0 Consensus size: 162
4171799 TATAACACTT
4171809 TATTTTATTGTTAATTTTGCTATTATTTTAGAGGTATTTGTTTGTTAAGTTGCACTTATCTTAGT
1 TATTTTATTGTTAATTTTGCTATTATTTTAGAGGTATTTGTTTGTTAAGTTG-AC-TATCTTAGT
4171874 GTTAATTAAGTATAAAAGATTTTTTAATTTATTTTCAATTTGTT-GGAAAAACTTATTTTAATAT
64 GTTAATTAAGTATAAAAGATTTTTTAATTTATTTTCAATTTGTTGGGAAAAACTTATTTTAATAT
* * * *
4171938 TTTTAATATATTTGGTGTATTATATTTTTTAAAA
129 TTTTAACATATTTGGTATATTATATATTTAAAAA
4171972 TATTTTATTG-TAATTTTGCTATTATTTTAGAGGTATTTGTTTGTTAAGTTG-C-A-CTT-GTGT
1 TATTTTATTGTTAATTTTGCTATTATTTTAGAGGTATTTGTTTGTTAAGTTGACTATCTTAGTGT
* * * * *
4172032 TATTTAAGTAT-AAATATTTTTTAAATTTATTTTTAATTTGTTGGGAAATATTTATTTTAATATT
66 TAATTAAGTATAAAAGATTTTTT-AATTTATTTTCAATTTGTTGGGAAAAACTTATTTTAATATT
* *
4172096 TTTAGCATATTTTGTATATTATATATTTAAAAA
130 TTTAACATATTTGGTATATTATATATTTAAAAA
4172129 TAT
1 TAT
4172132 ATTTTTTAAA
Statistics
Matches: 147, Mismatches: 11, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
155 10 0.07
156 32 0.22
157 52 0.35
158 1 0.01
160 1 0.01
162 41 0.28
163 10 0.07
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.55
Consensus pattern (162 bp):
TATTTTATTGTTAATTTTGCTATTATTTTAGAGGTATTTGTTTGTTAAGTTGACTATCTTAGTGT
TAATTAAGTATAAAAGATTTTTTAATTTATTTTCAATTTGTTGGGAAAAACTTATTTTAATATTT
TTAACATATTTGGTATATTATATATTTAAAAA
Found at i:4180222 original size:3 final size:3
Alignment explanation
Indices: 4180216--4180243 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4180206 TACTATTATT
4180216 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
4180244 AGTACTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:4181400 original size:3 final size:3
Alignment explanation
Indices: 4181392--4181420 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4181382 GTGCTGAATA
4181392 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4181421 CTCCACCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4186014 original size:22 final size:22
Alignment explanation
Indices: 4185978--4186019 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4185968 TATTTTTCAT
*
4185978 ATTTTCATATAAATATAAATTG
1 ATTTTCATATAAATAGAAATTG
4186000 ATTTTGCATAT-AATAGAAAT
1 ATTTT-CATATAAATAGAAAT
4186020 AAAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTTTCATATAAATAGAAATTG
Found at i:4188444 original size:19 final size:19
Alignment explanation
Indices: 4188399--4188438 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4188389 AGTTCATGTT
* *
4188399 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
4188418 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
4188437 TT
1 TT
4188439 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:4188699 original size:44 final size:45
Alignment explanation
Indices: 4188626--4188807 Score: 197
Period size: 45 Copynumber: 4.1 Consensus size: 45
4188616 AAAGGTAGCA
* * * *
4188626 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
1 GTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * *
4188671 GTAACAAT-ACGGTAACAGTATTTGACACACAAAGTACCGAATCG
1 GTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * *
4188715 GTAACAGTAACAGTAACATTATTCGACACACAATGTGCCGAATCG
1 GTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
* * * * * * *
4188760 GTAAGAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCA
1 GTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
4188804 GTAA
1 GTAA
4188808 GACGGCAAAA
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
44 51 0.44
45 64 0.56
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
GTAACAATAACAGTAACAGTATTCGACACACAAAGTGCCGAATCG
Found at i:4188746 original size:45 final size:45
Alignment explanation
Indices: 4188626--4188777 Score: 207
Period size: 45 Copynumber: 3.4 Consensus size: 45
4188616 AAAGGTAGCA
* *
4188626 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCT
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * * * *
4188671 GTAACAAT-ACGGTAACAGTATTTGACACACAAAGTACCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
4188715 GTAACAGTAACAGTAACATTATTCGACACACAATGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
4188760 GTAAGAGTAACAGTAACA
1 GTAACAGTAACAGTAACA
4188778 GTAGTCGGCA
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 37 0.40
45 55 0.60
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:4191427 original size:11 final size:11
Alignment explanation
Indices: 4191411--4191435 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4191401 GGGTCCCTTT
4191411 ATATACAATAA
1 ATATACAATAA
4191422 ATATACAATAA
1 ATATACAATAA
4191433 ATA
1 ATA
4191436 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:4196854 original size:16 final size:16
Alignment explanation
Indices: 4196833--4196863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4196823 CTTTCTAATT
4196833 ATTTAAAAAATTTATG
1 ATTTAAAAAATTTATG
*
4196849 ATTTAAAAAGTTTAT
1 ATTTAAAAAATTTAT
4196864 AAATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTAAAAAATTTATG
Found at i:4200929 original size:20 final size:20
Alignment explanation
Indices: 4200892--4200929 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4200882 TAGAGATCGA
**
4200892 ATTAAATTAATTGTTTTATT
1 ATTAAATTAATTAATTTATT
4200912 ATTAAATTAATTAATTTA
1 ATTAAATTAATTAATTTA
4200930 ATTTAACCCA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTAAATTAATTAATTTATT
Found at i:4201590 original size:25 final size:26
Alignment explanation
Indices: 4201545--4201618 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 26
4201535 TTTTAGTGAT
*
4201545 AAAATTCAATAAAAAATTAAAGCTAC
1 AAAATTCAATAAAAAATTAAAACTAC
* *
4201571 AAAAATCAAT-AAAAATTAAAACTGC
1 AAAATTCAATAAAAAATTAAAACTAC
* * *
4201596 AAAATTCAAGATAAAGTTAAAAC
1 AAAATTCAATAAAAAATTAAAAC
4201619 ATAGTGGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (26 bp):
AAAATTCAATAAAAAATTAAAACTAC
Found at i:4205158 original size:23 final size:24
Alignment explanation
Indices: 4205118--4205166 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
4205108 ATACAATGAT
*
4205118 TAATTTTTTAATAGTAAAAAATTAA
1 TAATTTTTT-ATAATAAAAAATTAA
4205143 TAATTTTTT-TAATAAAAAATTAA
1 TAATTTTTTATAATAAAAAATTAA
4205166 T
1 T
4205167 TTATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATTTTTTATAATAAAAAATTAA
Found at i:4205176 original size:24 final size:23
Alignment explanation
Indices: 4205132--4205179 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
4205122 TTTTTAATAG
*
4205132 TAAAAAATTAATAATTTTTTTAA
1 TAAAAAATTAATAATTATTTTAA
*
4205155 TAAAAAATTAATTTATTATTTTAA
1 TAAAAAATTAA-TAATTATTTTAA
4205179 T
1 T
4205180 CTAACGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAAAAATTAATAATTATTTTAA
Found at i:4221422 original size:2 final size:2
Alignment explanation
Indices: 4221417--4221441 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4221407 ATATATATAT
4221417 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4221442 TGTTCGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4229038 original size:25 final size:25
Alignment explanation
Indices: 4228984--4229039 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
4228974 ATAAAATCCA
*
4228984 TTGTCTGCTCTTGGTAGCACAATTT
1 TTGTCTGCTCTTGATAGCACAATTT
*
4229009 ATGTCTGCTCTTGATAGCA-AATGTT
1 TTGTCTGCTCTTGATAGCACAAT-TT
4229034 TTGTCT
1 TTGTCT
4229040 TTATGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (25 bp):
TTGTCTGCTCTTGATAGCACAATTT
Found at i:4237190 original size:14 final size:14
Alignment explanation
Indices: 4237171--4237199 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4237161 ACAGCACCTT
4237171 GCAGGGTGAAAGTA
1 GCAGGGTGAAAGTA
4237185 GCAGGGTGAAAGTA
1 GCAGGGTGAAAGTA
4237199 G
1 G
4237200 TAGGAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.45, T:0.14
Consensus pattern (14 bp):
GCAGGGTGAAAGTA
Found at i:4240463 original size:13 final size:14
Alignment explanation
Indices: 4240439--4240479 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
4240429 GTAAGTTAAG
4240439 TAAAATTTATAATA
1 TAAAATTTATAATA
4240453 TAAAA-TTATAATA
1 TAAAATTTATAATA
4240466 TATAACATTTATAA
1 TA-AA-ATTTATAA
4240480 AACAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 7 0.29
15 1 0.04
16 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATTTATAATA
Found at i:4244559 original size:33 final size:34
Alignment explanation
Indices: 4244479--4244549 Score: 135
Period size: 33 Copynumber: 2.1 Consensus size: 34
4244469 ACTTTATATT
4244479 TTATATAGTAAAAATAATTTAAAATGTTGTATAA
1 TTATATAGTAAAAATAATTTAAAATGTTGTATAA
4244513 TTATATAGTAAAAA-AATTTAAAATGTTGTATAA
1 TTATATAGTAAAAATAATTTAAAATGTTGTATAA
4244546 TTAT
1 TTAT
4244550 TTTTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 23 0.62
34 14 0.38
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (34 bp):
TTATATAGTAAAAATAATTTAAAATGTTGTATAA
Found at i:4245237 original size:7 final size:7
Alignment explanation
Indices: 4245227--4245263 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
4245217 TCATAAAAAA
*
4245227 AAAAAGT
1 AAAATGT
4245234 AAAA-GT
1 AAAATGT
4245240 AAAATGT
1 AAAATGT
4245247 AAAATGT
1 AAAATGT
4245254 AAAATGT
1 AAAATGT
4245261 AAA
1 AAA
4245264 GTTGCAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (7 bp):
AAAATGT
Found at i:4245237 original size:68 final size:71
Alignment explanation
Indices: 4245155--4245290 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 71
4245145 AAGTATTCAT
4245155 AAAAA-AAAAGTAAAA-GTAAAATGTAAAATGTAAAGTTGCAATAAGTAAGGTTGGACTCTAATT
1 AAAAAGAAAAGTAAAATGTAAAATGTAAAATGTAAAGTTGCAATAAGTAAGGTTGGACTCTAATT
4245218 CATAAAAAA
66 CAT---AAA
4245227 AAAAAGTAAAAGTAAAATGTAAAATGTAAAATGTAAAGTTGCAATAAGTAAGGTTGGACTCTAA
1 AAAAAG-AAAAGTAAAATGTAAAATGTAAAATGTAAAGTTGCAATAAGTAAGGTTGGACTCTAA
4245291 CTCCTGGTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
72 5 0.08
74 10 0.16
75 46 0.75
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (71 bp):
AAAAAGAAAAGTAAAATGTAAAATGTAAAATGTAAAGTTGCAATAAGTAAGGTTGGACTCTAATT
CATAAA
Found at i:4247155 original size:19 final size:19
Alignment explanation
Indices: 4247124--4247174 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
4247114 TTACGTCAAC
*
4247124 AAATAATTT-AAAATTTATA
1 AAAT-ATTTAAAAATTAATA
4247143 AAATATTTAAAAATTAATA
1 AAATATTTAAAAATTAATA
4247162 ATAA-ATTTAAAAA
1 A-AATATTTAAAAA
4247175 GTAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 23 0.79
20 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATATTTAAAAATTAATA
Found at i:4247669 original size:3 final size:3
Alignment explanation
Indices: 4247661--4247690 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4247651 AACCTGTTTG
4247661 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4247691 AATTTGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4259815 original size:29 final size:29
Alignment explanation
Indices: 4259783--4259842 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
4259773 TATTTTAAAA
4259783 AGGAAATTGAAATTAAATATGGATTTGAG
1 AGGAAATTGAAATTAAATATGGATTTGAG
4259812 AGGAAATTGAAATTAAATATGGATTTGAG
1 AGGAAATTGAAATTAAATATGGATTTGAG
4259841 AG
1 AG
4259843 AATTTTGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (29 bp):
AGGAAATTGAAATTAAATATGGATTTGAG
Found at i:4259861 original size:22 final size:22
Alignment explanation
Indices: 4259836--4259891 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
4259826 AAATATGGAT
*
4259836 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
4259858 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
4259880 TTGAGAGGAATT
1 TTGAGA-GAATT
4259892 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:4259908 original size:12 final size:11
Alignment explanation
Indices: 4259876--4259908 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
4259866 ATTTTGGAAA
4259876 GAAATTGAGAG
1 GAAATTGAGAG
4259887 G-AATTGAGAG
1 GAAATTGAGAG
4259897 GAAATATGAGAG
1 GAAAT-TGAGAG
4259909 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:4260583 original size:16 final size:18
Alignment explanation
Indices: 4260544--4260585 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4260534 TAAGTTTAAA
4260544 ATATTT-TATATTATGCT
1 ATATTTATATATTATGCT
*
4260561 ATTTTTATATATTATG-T
1 ATATTTATATATTATGCT
4260578 A-ATTTATA
1 ATATTTATA
4260586 ACAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
ATATTTATATATTATGCT
Found at i:4261711 original size:21 final size:21
Alignment explanation
Indices: 4261685--4261729 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
4261675 TCTCTTGCAG
*
4261685 TTTTTAGGGTTTTCTCTTGTT
1 TTTTTAGGGTTTTATCTTGTT
*
4261706 TTTTTAGGTTTTTATCTTGTT
1 TTTTTAGGGTTTTATCTTGTT
4261727 TTT
1 TTT
4261730 GCTTTCCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.71
Consensus pattern (21 bp):
TTTTTAGGGTTTTATCTTGTT
Found at i:4270434 original size:19 final size:19
Alignment explanation
Indices: 4270410--4270449 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
4270400 TCTGGTTTCG
4270410 TTCTCCCGTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
*
4270429 TTCTCCCTTTCGTTCTCCC
1 TTCTCCCGTTCGTTCTCCC
4270448 TT
1 TT
4270450 TTGTTCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.45, G:0.07, T:0.47
Consensus pattern (19 bp):
TTCTCCCGTTCGTTCTCCC
Found at i:4270444 original size:12 final size:12
Alignment explanation
Indices: 4270405--4270458 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
4270395 ACCGATCTGG
4270405 TTTCGTTCTCCC
1 TTTCGTTCTCCC
*
4270417 GTTCGTTCT-CC
1 TTTCGTTCTCCC
4270428 ---C-TTCTCCC
1 TTTCGTTCTCCC
4270436 TTTCGTTCTCCC
1 TTTCGTTCTCCC
*
4270448 TTTTGTTCTCC
1 TTTCGTTCTCC
4270459 ATTGATTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
7 4 0.11
8 3 0.09
11 3 0.09
12 25 0.71
ACGTcount: A:0.00, C:0.41, G:0.09, T:0.50
Consensus pattern (12 bp):
TTTCGTTCTCCC
Found at i:4272014 original size:18 final size:18
Alignment explanation
Indices: 4271991--4272029 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
4271981 TTTACCAACT
4271991 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
4272009 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
4272027 TTA
1 TTA
4272030 AAGATACAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTATGGATAATAATTTAA
Found at i:4272035 original size:18 final size:18
Alignment explanation
Indices: 4271996--4272035 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4271986 CAACTTTATG
**
4271996 GATAATAATTTAATTATG
1 GATAATAATTTAATTAAA
4272014 GATAATAATTTAATTAAA
1 GATAATAATTTAATTAAA
4272032 GATA
1 GATA
4272036 CAGCATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
GATAATAATTTAATTAAA
Found at i:4272198 original size:26 final size:26
Alignment explanation
Indices: 4272168--4272221 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
4272158 CTCAAACTAG
4272168 AATCTAGATATCAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
* *
4272194 AATCTAGATTTTAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
4272220 AA
1 AA
4272222 ATTTTGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (26 bp):
AATCTAGATATCAAATTGGTCTCTAT
Found at i:4284954 original size:30 final size:30
Alignment explanation
Indices: 4284918--4285013 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
4284908 TTAAGGACAG
*
4284918 ATTAATATTTATTCATCTCAAAACG-GATAA
1 ATTAATATTTATTCATCTCAAAACGCG-CAA
4284948 ATTAATATTTATTCATCTCAAAACGCGCAA
1 ATTAATATTTATTCATCTCAAAACGCGCAA
4284978 ATTAATATTTATTCATCTCAAAACGCGCAA
1 ATTAATATTTATTCATCTCAAAACGCGCAA
4285008 ATTAAT
1 ATTAAT
4285014 TCCTCAATTA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
30 63 0.98
31 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (30 bp):
ATTAATATTTATTCATCTCAAAACGCGCAA
Found at i:4285339 original size:60 final size:60
Alignment explanation
Indices: 4285275--4285390 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
4285265 AAAAAATAAC
* * * * * *
4285275 AAATTTAGCCCTCAATATTTATAAAATTTGTCATTTTAGTTCTAATTCTAAAAATTTAAT
1 AAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTTCTAACTCTAAAAATTTAAT
* *
4285335 AAATTTGGCCCTCAACATTTACAACATCTATCAATTTAGTTCTAACTCTAAAAATT
1 AAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTTCTAACTCTAAAAATT
4285391 AAAAAATATA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (60 bp):
AAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTTCTAACTCTAAAAATTTAAT
Found at i:4290544 original size:15 final size:16
Alignment explanation
Indices: 4290506--4290551 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
4290496 CTTCATAAAC
*
4290506 ATATATCATTCATTTT
1 ATATATCAATCATTTT
4290522 ATTATATCAAT-ATTTT
1 A-TATATCAATCATTTT
4290538 ATATATC-ATCATTT
1 ATATATCAATCATTT
4290552 CCATGCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 7 0.26
17 8 0.30
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATATCAATCATTTT
Found at i:4290986 original size:24 final size:24
Alignment explanation
Indices: 4290934--4290988 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
4290924 AAGCTCATGC
* ** *
4290934 GAGCCAATAACGGGTAGCTCCGTA
1 GAGCCATTAACGGAAAGCTCCGGA
4290958 GAGCCATTAACGGAAAGCTCCGGA
1 GAGCCATTAACGGAAAGCTCCGGA
*
4290982 TAGCCAT
1 GAGCCAT
4290989 ATATTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.16
Consensus pattern (24 bp):
GAGCCATTAACGGAAAGCTCCGGA
Found at i:4291157 original size:24 final size:24
Alignment explanation
Indices: 4291124--4291186 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
4291114 CACAACCGAT
* *
4291124 CGGGATGCTCCGAAAAGC-TATTAA
1 CGGGAAGCTCCGAAAACCATATT-A
4291148 CGGGAAGCTCAC-AATAACCATATTA
1 CGGGAAGCTC-CGAA-AACCATATTA
4291173 CGGGAAGCT-CGAAA
1 CGGGAAGCTCCGAAA
4291187 GGGTTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.06
24 13 0.39
25 14 0.42
26 4 0.12
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCCGAAAACCATATTA
Found at i:4294631 original size:27 final size:27
Alignment explanation
Indices: 4294571--4294634 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
4294561 CCTAGGGAAG
* *
4294571 AGGCGACACCGGTCACGCCTTCCCCAT
1 AGGCGGCACCGGTCACGCCATCCCCAT
*
4294598 AGGCGGCACCGGTCACGCCATCCCGAT
1 AGGCGGCACCGGTCACGCCATCCCCAT
*
4294625 AGTCGGCACC
1 AGGCGGCACC
4294635 CACTTCCCCC
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:0.19, C:0.42, G:0.27, T:0.12
Consensus pattern (27 bp):
AGGCGGCACCGGTCACGCCATCCCCAT
Found at i:4294887 original size:85 final size:85
Alignment explanation
Indices: 4294798--4295092 Score: 246
Period size: 85 Copynumber: 3.3 Consensus size: 85
4294788 TTATATAATT
4294798 TGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTATTATGATTTGCTAGTAAGTT
1 TGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTATTATGATTTGCTAGTAAGTT
4294863 TTGTGTTTAGATTAATTATG
66 TTGTGTTTAGATTAATTATG
*
4294883 TGTTTATTGTGAATGTTATGTTTTAT-TTTT-TTTT-AA--TATATTTGAAATTTTTTATG-TTA
1 TGTTTA----G--TGTTAT-TTTTATGTTTTGTTTTAAAGTTAT-TTTG---TTTATTATGATT-
* * * * * *
4294942 GTAACTATTAAAAATTAAT-TG-TTAGTATTATATAATT
54 -T-GCTAGT--AAGTT-TTGTGTTTAG-ATTA-ATTATG
*
4294979 TGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTATTACGATTTGCTAGTAAGTT
1 TGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTATTATGATTTGCTAGTAAGTT
4295044 TTGTGTTTAGATTAATTATG
66 TTGTGTTTAGATTAATTATG
* * * * *
4295064 TGTTTATTGTGAATGTTATGTTTTATTTT
1 TGTTTAGTGTTATTTTTATGTTTTGTTTT
4295093 TTTTAAGATA
Statistics
Matches: 163, Mismatches: 20, Indels: 54
0.69 0.08 0.23
Matches are distributed among these distances:
85 35 0.21
86 10 0.06
87 7 0.04
88 8 0.05
89 10 0.06
90 23 0.14
91 24 0.15
92 10 0.06
93 8 0.05
94 7 0.04
95 10 0.06
96 11 0.07
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.59
Consensus pattern (85 bp):
TGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTATTATGATTTGCTAGTAAGTT
TTGTGTTTAGATTAATTATG
Found at i:4295083 original size:181 final size:180
Alignment explanation
Indices: 4294779--4295147 Score: 711
Period size: 181 Copynumber: 2.0 Consensus size: 180
4294769 AAAAAATAGT
4294779 TTGTTAGTATTATATAATTTGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTAT
1 TTGTTAGTATTATATAATTTGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTAT
*
4294844 TATGATTTGCTAGTAAGTTTTGTGTTTAGATTAATTATGTGTTTATTGTGAATGTTATGTTTTAT
66 TACGATTTGCTAGTAAGTTTTGTGTTTAGATTAATTATGTGTTTATTGTGAATGTTATGTTTTA-
*
4294909 TTTTTTTTAATATATTTGAAATTTTTTATGTTAGTAACTATTAAAAATTAA
130 TTTTTTTTAAGATATTTGAAATTTTTTATGTTAGTAACTATTAAAAATTAA
4294960 TTGTTAGTATTATATAATTTGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTAT
1 TTGTTAGTATTATATAATTTGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTAT
4295025 TACGATTTGCTAGTAAGTTTTGTGTTTAGATTAATTATGTGTTTATTGTGAATGTTATGTTTTAT
66 TACGATTTGCTAGTAAGTTTTGTGTTTAGATTAATTATGTGTTTATTGTGAATGTTATGTTTTAT
4295090 TTTTTTTAAGATATTTGAAATTTTTTATGTTAGTAACTATTAAAAATTAA
131 TTTTTTTAAGATATTTGAAATTTTTTATGTTAGTAACTATTAAAAATTAA
4295140 TTGTTAGT
1 TTGTTAGT
4295148 TAGTGATAAC
Statistics
Matches: 186, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
180 58 0.31
181 128 0.69
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.58
Consensus pattern (180 bp):
TTGTTAGTATTATATAATTTGTTTAGTGTTATTTTTATGTTTTGTTTTAAAGTTATTTTGTTTAT
TACGATTTGCTAGTAAGTTTTGTGTTTAGATTAATTATGTGTTTATTGTGAATGTTATGTTTTAT
TTTTTTTAAGATATTTGAAATTTTTTATGTTAGTAACTATTAAAAATTAA
Found at i:4297853 original size:62 final size:61
Alignment explanation
Indices: 4297747--4297925 Score: 204
Period size: 64 Copynumber: 2.9 Consensus size: 61
4297737 CCAATGTACC
* * *
4297747 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTT-ATATTGCAA
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATGTATTTAATTTCA-ATT--AA
* * *
4297810 -AATTTATATTACAATGTTTGTTCCAAGTTTTATTGTTGCAATGT-TGTAATGTTGCAATTAA
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATGTATTTAAT-TT-CAATTAA
4297871 TCTAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAAT-TATTCTAATT
1 --TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATGTATT-TAATT
4297926 AAATAAATAC
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
61 7 0.07
62 41 0.41
63 4 0.04
64 43 0.43
65 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (61 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAATGTATTTAATTTCAATTAA
Found at i:4299027 original size:14 final size:14
Alignment explanation
Indices: 4299005--4299039 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4298995 CAAATTACAT
4299005 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
4299019 GTTATAATAGTATC
1 GTTAGAATAGTATC
*
4299033 ATTAGAA
1 GTTAGAA
4299040 AAAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:4300572 original size:27 final size:27
Alignment explanation
Indices: 4300542--4300595 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4300532 CTAATTTATC
*
4300542 TCACTAATTCCA-ACTCAATGATCTCAT
1 TCACAAATTCCATA-TCAATGATCTCAT
*
4300569 TCACAAATTCCATATCAATGGTCTCAT
1 TCACAAATTCCATATCAATGATCTCAT
4300596 CTTTTACCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (27 bp):
TCACAAATTCCATATCAATGATCTCAT
Found at i:4301731 original size:8 final size:8
Alignment explanation
Indices: 4301707--4301758 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
4301697 CCTTCCCACC
*
4301707 CTCTCCTT
1 CTCTTCTT
4301715 CTCCTTCTT
1 CT-CTTCTT
4301724 CTCTTCTT
1 CTCTTCTT
*
4301732 CTCTTATT
1 CTCTTCTT
*
4301740 TTCTTCTT
1 CTCTTCTT
4301748 CT-TTC-T
1 CTCTTCTT
4301754 CTCTT
1 CTCTT
4301759 TCGGCTGACC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 3 0.08
7 5 0.14
8 22 0.59
9 7 0.19
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.62
Consensus pattern (8 bp):
CTCTTCTT
Found at i:4304750 original size:24 final size:24
Alignment explanation
Indices: 4304714--4304761 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4304704 ATAAAAAAAT
4304714 TATTTTTCGGGGTGGAGGGAGAGA
1 TATTTTTCGGGGTGGAGGGAGAGA
**
4304738 TATTTTTTTGGGTGGAGGGAGAGA
1 TATTTTTCGGGGTGGAGGGAGAGA
4304762 GATGGGCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (24 bp):
TATTTTTCGGGGTGGAGGGAGAGA
Found at i:4316783 original size:2 final size:2
Alignment explanation
Indices: 4316776--4316804 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4316766 TGCTACAAAC
4316776 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 A
4316805 GAGAGAGAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4316809 original size:2 final size:2
Alignment explanation
Indices: 4316804--4316828 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4316794 ATATATATAT
4316804 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4316829 TCAAGCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4316880 original size:2 final size:2
Alignment explanation
Indices: 4316875--4316899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4316865 ATATATATAT
4316875 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4316900 TCAAGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4316903 original size:71 final size:71
Alignment explanation
Indices: 4316787--4316930 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 71
4316777 TATATATATA
**
4316787 TATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGATCAAGCTCCCGCACTAAAATTAA
1 TATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGATCAAGCTCAAGCACTAAAATTAA
4316852 GAACTT
66 GAACTT
* *
4316858 TATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGATCAAGTTCAAGCATTAAAATTAA
1 TATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGATCAAGCTCAAGCACTAAAATTAA
4316923 GAACTT
66 GAACTT
4316929 TA
1 TA
4316931 AATAGATTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (71 bp):
TATATATATATATATATAGAGAGAGAGAGAGAGAGAGAGAGATCAAGCTCAAGCACTAAAATTAA
GAACTT
Found at i:4322539 original size:6 final size:6
Alignment explanation
Indices: 4322528--4322560 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4322518 ATCCCCAAAC
*
4322528 GCCGAA GCCGAA GCCGAA GCCGAT GCCGAA GCC
1 GCCGAA GCCGAA GCCGAA GCCGAA GCCGAA GCC
4322561 CCTGTTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.27, C:0.36, G:0.33, T:0.03
Consensus pattern (6 bp):
GCCGAA
Found at i:4326596 original size:17 final size:16
Alignment explanation
Indices: 4326561--4326603 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
4326551 AATGAGATCC
4326561 TTAAAATATT-ATATA
1 TTAAAATATTAATATA
4326576 --AAAATATTAATCATA
1 TTAAAATATTAAT-ATA
4326591 TTAAAATATTAAT
1 TTAAAATATTAAT
4326604 TGAACTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 8 0.33
14 2 0.08
15 3 0.12
17 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAATATTAATATA
Found at i:4328066 original size:102 final size:102
Alignment explanation
Indices: 4328001--4328212 Score: 379
Period size: 102 Copynumber: 2.1 Consensus size: 102
4327991 ATTTTTATTT
4328001 TTAATATTACCGTCCATTAATTTTTTTTCAAGGATCTATTTTAAAGGTATAACTACAATCGTAAT
1 TTAATATTACC-TCCATTAATTTTTTTTCAAGGATCTATTTTAAAGGTATAACTACAATCGTAAT
* *
4328066 TATAATAAATCTATTTATATAATTATAATCAAAATTAA
65 TATAATAAATCTATTAAAATAATTATAATCAAAATTAA
4328104 TTAATATTACCTCCATTAATTTTTTTTCAAGGATCTATTTTAAAGGTATAACTACAATCGTAATT
1 TTAATATTACCTCCATTAATTTTTTTTCAAGGATCTATTTTAAAGGTATAACTACAATCGTAATT
* *
4328169 ATAATAAATCTATTTATATAATTATAATCAAAATTAA
66 ATAATAAATCTATTAAAATAATTATAATCAAAATTAA
4328206 TTAATAT
1 TTAATAT
4328213 ATAAAAACAT
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 98 0.90
103 11 0.10
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (102 bp):
TTAATATTACCTCCATTAATTTTTTTTCAAGGATCTATTTTAAAGGTATAACTACAATCGTAATT
ATAATAAATCTATTAAAATAATTATAATCAAAATTAA
Found at i:4328900 original size:26 final size:28
Alignment explanation
Indices: 4328866--4328922 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
4328856 TCAAAATAAC
4328866 ATTTATAAAA-T-AATATATAA-AATGT
1 ATTTATAAAATTAAATATATAATAATGT
*
4328891 ATTTAGTAAAATTAAATATATAATAATTT
1 ATTTA-TAAAATTAAATATATAATAATGT
4328920 ATT
1 ATT
4328923 AATTACGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 1 0.04
28 9 0.33
29 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTTATAAAATTAAATATATAATAATGT
Found at i:4331516 original size:15 final size:15
Alignment explanation
Indices: 4331496--4331528 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4331486 TATCTCAAGC
4331496 TTCCATGGCTAGGTT
1 TTCCATGGCTAGGTT
4331511 TTCCATGGCTAGGTT
1 TTCCATGGCTAGGTT
4331526 TTC
1 TTC
4331529 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.42
Consensus pattern (15 bp):
TTCCATGGCTAGGTT
Found at i:4333349 original size:25 final size:25
Alignment explanation
Indices: 4333319--4333414 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
4333309 AGCACTAACA
4333319 TGCTAATAATCAGAGAGCACAGATG
1 TGCTAATAATCAGAGAGCACAGATG
* * *
4333344 TACTAATAATCAGAGAGCACTGACG
1 TGCTAATAATCAGAGAGCACAGATG
*
4333369 TGCTAATAATCAGAGAGCACTGATG
1 TGCTAATAATCAGAGAGCACAGATG
*
4333394 TGCTAATAATTAGAGAGCACA
1 TGCTAATAATCAGAGAGCACA
4333415 CTAAGGTTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
TGCTAATAATCAGAGAGCACAGATG
Found at i:4333363 original size:50 final size:50
Alignment explanation
Indices: 4333309--4333413 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
4333299 AATGTACTAA
4333309 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
1 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
* * * * *
4333359 AGCACTGACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAATTAGAG
1 AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
4333409 AGCAC
1 AGCAC
4333414 ACTAAGGTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (50 bp):
AGCACTAACATGCTAATAATCAGAGAGCACAGATGTACTAATAATCAGAG
Found at i:4348941 original size:8 final size:8
Alignment explanation
Indices: 4348928--4348968 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
4348918 TGTTTTATAT
4348928 ATATAATA
1 ATATAATA
4348936 ATATAATA
1 ATATAATA
*
4348944 TTATAATA
1 ATATAATA
4348952 ATATAATTA
1 ATATAA-TA
4348961 ATATAATA
1 ATATAATA
4348969 CCTATTTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:4349008 original size:28 final size:27
Alignment explanation
Indices: 4348928--4349008 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
4348918 TGTTTTATAT
4348928 ATATAAT-AATATAATATTA-TAA-TA
1 ATATAATAAATATAATATTATTAACTA
* * **
4348952 ATATAATTAATATAATACCTATTTCCTA
1 ATATAATAAATATAATA-TTATTAACTA
4348980 AGTA-AATAAATATAATATATATTAACTA
1 A-TATAATAAATATAATAT-TATTAACTA
4349008 A
1 A
4349009 AATATCTCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 7 0.16
25 9 0.20
26 2 0.05
27 1 0.02
28 23 0.52
29 2 0.05
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (27 bp):
ATATAATAAATATAATATTATTAACTA
Found at i:4350725 original size:25 final size:26
Alignment explanation
Indices: 4350695--4350850 Score: 98
Period size: 25 Copynumber: 6.3 Consensus size: 26
4350685 TCTCAAGCAC
*
4350695 TATAACGGGAAGCTCACAAAGAG-CT
1 TATAACGGGAAGCTCACAAAGAGCCA
* *
4350720 TATAACGGGTAGCTC-CAAAAAG-CA
1 TATAACGGGAAGCTCACAAAGAGCCA
* *
4350744 CT-TAACGGGAAG-T-ATCAGATAGCCA
1 -TATAACGGGAAGCTCA-CAAAGAGCCA
* * **
4350769 TATAACGAGAAGTTCA-AGCGAG-CA
1 TATAACGGGAAGCTCACAAAGAGCCA
* *
4350793 -CTAACGGGAAGCTTACAAAGAGCC-
1 TATAACGGGAAGCTCACAAAGAGCCA
* *
4350817 TTTAATCGGGAAGCTCACAAAGAGTCA
1 TATAA-CGGGAAGCTCACAAAGAGCCA
4350844 TATAACG
1 TATAACG
4350851 AGACTCTCAT
Statistics
Matches: 100, Mismatches: 19, Indels: 23
0.70 0.13 0.16
Matches are distributed among these distances:
23 12 0.12
24 28 0.28
25 34 0.34
26 21 0.21
27 5 0.05
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (26 bp):
TATAACGGGAAGCTCACAAAGAGCCA
Found at i:4350749 original size:24 final size:26
Alignment explanation
Indices: 4350689--4350755 Score: 86
Period size: 24 Copynumber: 2.7 Consensus size: 26
4350679 GCTCTCTCTC
4350689 AAGCACTATAACGGGAAGCTCACAAA
1 AAGCACTATAACGGGAAGCTCACAAA
* * *
4350715 GAGC-TTATAACGGGTAGCTC-CAAA
1 AAGCACTATAACGGGAAGCTCACAAA
4350739 AAGCACT-TAACGGGAAG
1 AAGCACTATAACGGGAAG
4350756 TATCAGATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 16 0.47
25 15 0.44
26 3 0.09
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.15
Consensus pattern (26 bp):
AAGCACTATAACGGGAAGCTCACAAA
Found at i:4353654 original size:1 final size:1
Alignment explanation
Indices: 4353605--4353634 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
4353595 CTTCTTCTTC
4353605 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4353635 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4355067 original size:20 final size:20
Alignment explanation
Indices: 4355042--4355079 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4355032 TATGTTTGAA
4355042 ATGTTA-CGTTTTAGTCACTT
1 ATGTTATCGTTTT-GTCACTT
4355062 ATGTTATCGTTTTGTCAC
1 ATGTTATCGTTTTGTCAC
4355080 AACGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (20 bp):
ATGTTATCGTTTTGTCACTT
Found at i:4367861 original size:3 final size:3
Alignment explanation
Indices: 4367853--4367878 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4367843 CAGGACGCCC
4367853 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
4367879 CTCACTGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:4370143 original size:52 final size:52
Alignment explanation
Indices: 4370081--4370185 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
4370071 ATAGCAACAA
4370081 ACAAAGTCAAGAACAAAAGGATAATGGAGAGATACCAATCTCGAAACTGGAC
1 ACAAAGTCAAGAACAAAAGGATAATGGAGAGATACCAATCTCGAAACTGGAC
4370133 ACAAAGTCAAGAACAAAAGGATAATGGAGAGATACCAATCTCGAAACTGGAC
1 ACAAAGTCAAGAACAAAAGGATAATGGAGAGATACCAATCTCGAAACTGGAC
4370185 A
1 A
4370186 AGCACCCTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (52 bp):
ACAAAGTCAAGAACAAAAGGATAATGGAGAGATACCAATCTCGAAACTGGAC
Found at i:4370663 original size:22 final size:22
Alignment explanation
Indices: 4370633--4370682 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4370623 AAAATTTTTT
4370633 TAAAAAATAAATTAAAAAAAAC
1 TAAAAAATAAATTAAAAAAAAC
* * * *
4370655 TAAAGAATATATT-TAAAAAAG
1 TAAAAAATAAATTAAAAAAAAC
4370676 TAAAAAA
1 TAAAAAA
4370683 ATTAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
TAAAAAATAAATTAAAAAAAAC
Found at i:4371134 original size:6 final size:6
Alignment explanation
Indices: 4371118--4371164 Score: 58
Period size: 6 Copynumber: 7.2 Consensus size: 6
4371108 ATGCACGTTA
4371118 AAAATAT AAAAAT AAAAAT AAAAAT AAAATAT AAAAAAAT AAAAAT A
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAA-AT --AAAAAT AAAAAT A
4371165 TGATAACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 25 0.68
7 6 0.16
8 2 0.05
9 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:4372263 original size:3 final size:3
Alignment explanation
Indices: 4372255--4372295 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
4372245 GAAAGAACAT
* * *
4372255 GAC GAC GAC GAC GAC GAG GAT GAC GAC GAC GAC GAT GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
4372296 TGATAAGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.37, T:0.05
Consensus pattern (3 bp):
GAC
Found at i:4372279 original size:21 final size:21
Alignment explanation
Indices: 4372253--4372298 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4372243 GAGAAAGAAC
*
4372253 ATGACGACGACGACGACGAGG
1 ATGACGACGACGACGACGACG
*
4372274 ATGACGACGACGACGATGACG
1 ATGACGACGACGACGACGACG
4372295 ATGA
1 ATGA
4372299 TAAGGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.35, T:0.09
Consensus pattern (21 bp):
ATGACGACGACGACGACGACG
Found at i:4372281 original size:15 final size:15
Alignment explanation
Indices: 4372255--4372295 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4372245 GAAAGAACAT
*
4372255 GACGACGACGACGAC
1 GACGATGACGACGAC
*
4372270 GAGGATGACGACGAC
1 GACGATGACGACGAC
4372285 GACGATGACGA
1 GACGATGACGA
4372296 TGATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.24, G:0.37, T:0.05
Consensus pattern (15 bp):
GACGATGACGACGAC
Found at i:4379957 original size:31 final size:31
Alignment explanation
Indices: 4379922--4379984 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
4379912 TGAGAAACTA
4379922 AGAGAAGCGACAACAGGAGTGGGTTTGATTG
1 AGAGAAGCGACAACAGGAGTGGGTTTGATTG
4379953 AGAGAAGCGACAACAGGAGTGGGTTTGATTG
1 AGAGAAGCGACAACAGGAGTGGGTTTGATTG
4379984 A
1 A
4379985 AAACTGGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.38, T:0.19
Consensus pattern (31 bp):
AGAGAAGCGACAACAGGAGTGGGTTTGATTG
Found at i:4382997 original size:96 final size:96
Alignment explanation
Indices: 4382880--4383090 Score: 404
Period size: 96 Copynumber: 2.2 Consensus size: 96
4382870 GAGGGAAGGG
*
4382880 GAAGAGAGGAGTTTGAGGATGAGGGAATGGGAGGGCGAGTGGGTGGAACGGAGGATGTGGGCGTG
1 GAAGAGAGGGGTTTGAGGATGAGGGAATGGGAGGGCGAGTGGGTGGAACGGAGGATGTGGGCGTG
4382945 GACTTGTTTGAAGTGGGCGAGGGAGTGGGAA
66 GACTTGTTTGAAGTGGGCGAGGGAGTGGGAA
4382976 GAAGAGAGGGGTTTGAGGATGAGGGAATGGGAGGGCGAGTGGGTGGAACGGAGGATGTGGGCGTG
1 GAAGAGAGGGGTTTGAGGATGAGGGAATGGGAGGGCGAGTGGGTGGAACGGAGGATGTGGGCGTG
4383041 GACTTGTTTGAAGTGGGCGAGGGAGTGGGAA
66 GACTTGTTTGAAGTGGGCGAGGGAGTGGGAA
*
4383072 GAAGAGAGGGTTTTGAGGA
1 GAAGAGAGGGGTTTGAGGA
4383091 GGGTTGTGGG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 113 1.00
ACGTcount: A:0.24, C:0.05, G:0.53, T:0.18
Consensus pattern (96 bp):
GAAGAGAGGGGTTTGAGGATGAGGGAATGGGAGGGCGAGTGGGTGGAACGGAGGATGTGGGCGTG
GACTTGTTTGAAGTGGGCGAGGGAGTGGGAA
Found at i:4387897 original size:4 final size:4
Alignment explanation
Indices: 4387888--4387914 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4387878 ATATGTCTCT
4387888 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
4387915 TAAATGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4389461 original size:3 final size:3
Alignment explanation
Indices: 4389453--4389509 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
4389443 TAACCCAAAC
4389453 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4389501 ATT ATT ATT
1 ATT ATT ATT
4389510 TGTCTGTGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4395109 original size:15 final size:14
Alignment explanation
Indices: 4395093--4395136 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
4395083 GATCATATAT
4395093 TTTATATTTAAATA
1 TTTATATTTAAATA
*
4395107 TTT-T-TTTAAAGA
1 TTTATATTTAAATA
*
4395119 ATTATATTTAAATA
1 TTTATATTTAAATA
4395133 TTTA
1 TTTA
4395137 CGTGACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTTATATTTAAATA
Found at i:4397667 original size:20 final size:19
Alignment explanation
Indices: 4397616--4397667 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
4397606 TTTTTTTAAA
4397616 TATAACTAATTTATATATTT
1 TATAAC-AATTTATATATTT
* *
4397636 TA-ATACATTTTATTTAATTT
1 TATA-ACAATTTATAT-ATTT
4397656 TATAACAATTTA
1 TATAACAATTTA
4397668 ATTAGTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.31
20 17 0.65
21 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAACAATTTATATATTT
Found at i:4427631 original size:28 final size:28
Alignment explanation
Indices: 4427591--4427651 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
4427581 CCTTTTTGGC
*
4427591 TTCTTGTTCCTTAGGTTGCCATTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
* * *
4427619 TTCTTGTTCCTTATGCTGTCGTTTCAAT
1 TTCTTGTTCCTTAGGCTGCCATTTCAAT
4427647 TTCTT
1 TTCTT
4427652 TCCTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.21, G:0.13, T:0.54
Consensus pattern (28 bp):
TTCTTGTTCCTTAGGCTGCCATTTCAAT
Found at i:4429041 original size:10 final size:10
Alignment explanation
Indices: 4429026--4429050 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4429016 TTTATAATAA
4429026 ATTTTGATTT
1 ATTTTGATTT
4429036 ATTTTGATTT
1 ATTTTGATTT
4429046 ATTTT
1 ATTTT
4429051 CGACAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:4430359 original size:41 final size:41
Alignment explanation
Indices: 4430301--4430621 Score: 310
Period size: 41 Copynumber: 7.9 Consensus size: 41
4430291 CTTTGAGTTT
* * * * * *
4430301 TCGGGGCTTTAGTGGCGTTTCTCAAAAAGCGCCGCTAGTGC
1 TCGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
*
4430342 TCGGGCCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * *
4430383 TCTGGCCTTTAGCGGCGTTTTTGTGGAAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * * *
4430424 TCTGGCCTTTAGCGGCGTTTTTGTGGAAGCACCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
** * *
4430465 TTTGGTCTATAGCGGCGTTTTTG-GTAAAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTGAG-AAAGCGCCGCTAATGC
* * * *
4430506 TCTGGTCTATAGCGGCGTTTTTTGTG-AAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCG-TTTTTGAGAAAGCGCCGCTAATGC
* * * *
4430547 TCTGGTCTATAGCGGCGTTTTTGATG-AAGCGCCGCTAATGG
1 TCGGGCCTTTAGCGGCGTTTTTGA-GAAAGCGCCGCTAATGC
* **
4430588 TCTGATCTTT-GCGGCGTTTTTCGA-AAAGCGCCGC
1 TCGGGCCTTTAGCGGCGTTTTT-GAGAAAGCGCCGC
4430622 AAAATGTATT
Statistics
Matches: 253, Mismatches: 21, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
40 27 0.11
41 219 0.87
42 6 0.02
43 1 0.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (41 bp):
TCGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
Found at i:4430444 original size:82 final size:81
Alignment explanation
Indices: 4430327--4430608 Score: 381
Period size: 82 Copynumber: 3.5 Consensus size: 81
4430317 GTTTCTCAAA
* * * *
4430327 AAGCGCCGCTAGTGCTCGGGCCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGCCTT
1 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGG-AAGCGCCGCTAATGCTCTGGTCTA
4430392 TAGCGGCGTTTTTGTGG
65 TAGCGGCGTTTTTGTGG
* *
4430409 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGTGGAAGCACCGCTAATGCTTTGGTCTA
1 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTG-GGAAGCGCCGCTAATGCTCTGGTCTA
*
4430474 TAGCGGCGTTTTTG-GTA
65 TAGCGGCGTTTTTGTG-G
* * *
4430491 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTTGTGAAGCGCCGCTAATGCTCTGGTCTA
1 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCG-TTTTTGGGAAGCGCCGCTAATGCTCTGGTCTA
4430556 TAGCGGCGTTTTTGAT-G
65 TAGCGGCGTTTTTG-TGG
* **
4430573 AAGCGCCGCTAATGGTCTGATCTTT-GCGGCGTTTTT
1 AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTT
4430609 CGAAAAGCGC
Statistics
Matches: 179, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.03
81 7 0.04
82 159 0.89
83 8 0.04
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (81 bp):
AAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGGGAAGCGCCGCTAATGCTCTGGTCTAT
AGCGGCGTTTTTGTGG
Found at i:4430526 original size:123 final size:122
Alignment explanation
Indices: 4430350--4430621 Score: 395
Period size: 123 Copynumber: 2.2 Consensus size: 122
4430340 GCTCGGGCCT
* *
4430350 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCG-TTTTTGTGGAAGCG
1 TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGCCTATAGCGGCGTTTTTTGT-GAAGCG
* * *
4430414 CCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTG-TGGAAGCACCGCTAATGCTTTGGTC
65 CCGCTAATGCTCTGGCCTATAGCGGCGTTTTTGAT-GAAGCACCGCTAATGCTCTGATC
* *
4430472 TATAGCGGCGTTTTTGGTAAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTTGTGAAGCG
1 T-TAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGCCTATAGCGGCGTTTTTTGTGAAGCG
* * *
4430537 CCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATGAAGCGCCGCTAATGGTCTGATC
65 CCGCTAATGCTCTGGCCTATAGCGGCGTTTTTGATGAAGCACCGCTAATGCTCTGATC
* *
4430595 TTTGCGGCGTTTTTCGAAAAGCGCCGC
1 TTAGCGGCGTTTTTGGAAAAGCGCCGC
4430622 AAAATGTATT
Statistics
Matches: 135, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
122 24 0.18
123 103 0.76
124 8 0.06
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.32
Consensus pattern (122 bp):
TTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGCCTATAGCGGCGTTTTTTGTGAAGCGC
CGCTAATGCTCTGGCCTATAGCGGCGTTTTTGATGAAGCACCGCTAATGCTCTGATC
Found at i:4431120 original size:22 final size:21
Alignment explanation
Indices: 4431088--4431137 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4431078 AGGTTTTAGG
*
4431088 GGTTTAAGGGTTGGGGTTTAA
1 GGTTTAAGGGTTGGGATTTAA
* *
4431109 GGTTTAAGGGGTTGTGATTTAG
1 GGTTTAA-GGGTTGGGATTTAA
4431131 GGTTTAA
1 GGTTTAA
4431138 AGGATAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTGGGATTTAA
Found at i:4431731 original size:39 final size:41
Alignment explanation
Indices: 4431666--4431795 Score: 126
Period size: 39 Copynumber: 3.3 Consensus size: 41
4431656 AATGGACCGT
* *** * *
4431666 TAGCGGCGTTTATGAAAAAATACCGCAAAATGTA-AGA-AA
1 TAGCGGCGTTTATGGAAAAGCGCCGCAAAACGAATAGACAA
**
4431705 TAGCGGCGTTTATGGAAAAGCGCCGC-AAACGAATAGACCGT
1 TAGCGGCGTTTATGGAAAAGCGCCGCAAAACGAATAGA-CAA
*
4431746 TAGCGGCGTTTATGGAAAAGCGCCGCAAAA-GAAGA-ACAA
1 TAGCGGCGTTTATGGAAAAGCGCCGCAAAACGAATAGACAA
*
4431785 TAGTGGCGTTT
1 TAGCGGCGTTT
4431796 TTCTTCCAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 5 0.07
39 36 0.48
40 1 0.01
41 30 0.40
42 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (41 bp):
TAGCGGCGTTTATGGAAAAGCGCCGCAAAACGAATAGACAA
Found at i:4436855 original size:43 final size:43
Alignment explanation
Indices: 4436756--4437311 Score: 491
Period size: 43 Copynumber: 12.8 Consensus size: 43
4436746 ATGGTATTTT
* ** *
4436756 TAGCGGCGTTTGTAATTAAAGCGTCGCTAAAGGTCTT-ATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
4436798 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
4436841 TAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
4436884 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCATGGTTTCTTTAAAAAA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTC-TTG-ATC--T-----A
* * * ** * * ** * * *
4436936 TTTAGTGGCGTTTTTCCA-TGAA-CGCTGCCAAA-GAATGGTATTTT
1 --TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCTTG-ATCTA
* ** *
4436980 TAGCGGCGTTTGTAATTAAAGCGTCGCTAAAGGTCTT-ATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
4437022 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
4437065 TAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * * *
4437108 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCATGGTTTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
4437151 TAGCGGCGTTTTTTG-GAAAAGCGCCGCTATAGGTCTTGATCTA
1 TAGCGGCG-TTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
4437194 TAGTGGCGTTTGTG-TAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
4437236 TAGCGGCGTTTGT-AGGAAAAGCGCCACTATAGGTCTTGATCTA
1 TAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAGGTCTTGATCTA
*
4437279 TAGTGGCGTTTGTG-GAAAAGCGCCGCTAAAGGT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT
4437312 AATAGTCTAT
Statistics
Matches: 411, Mismatches: 82, Indels: 42
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.00
42 141 0.34
43 229 0.56
44 8 0.02
45 2 0.00
47 1 0.00
49 1 0.00
51 5 0.01
52 1 0.00
53 8 0.02
54 13 0.03
55 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:4437090 original size:224 final size:224
Alignment explanation
Indices: 4436700--4437149 Score: 900
Period size: 224 Copynumber: 2.0 Consensus size: 224
4436690 TTTTTAAATG
4436700 TTCTTTAAAAAATTTAGTGGCGTTTTTCCATGAACGCTGCCAAAGAATGGTATTTTTAGCGGCGT
1 TTCTTTAAAAAATTTAGTGGCGTTTTTCCATGAACGCTGCCAAAGAATGGTATTTTTAGCGGCGT
4436765 TTGTAATTAAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAG
66 TTGTAATTAAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAG
4436830 GTCTTGGTCTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTT
131 GTCTTGGTCTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTT
4436895 GTTAGAAAAGCGCCGCTAAAGATCATGGT
196 GTTAGAAAAGCGCCGCTAAAGATCATGGT
4436924 TTCTTTAAAAAATTTAGTGGCGTTTTTCCATGAACGCTGCCAAAGAATGGTATTTTTAGCGGCGT
1 TTCTTTAAAAAATTTAGTGGCGTTTTTCCATGAACGCTGCCAAAGAATGGTATTTTTAGCGGCGT
4436989 TTGTAATTAAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAG
66 TTGTAATTAAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAG
4437054 GTCTTGGTCTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTT
131 GTCTTGGTCTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTT
4437119 GTTAGAAAAGCGCCGCTAAAGATCATGGT
196 GTTAGAAAAGCGCCGCTAAAGATCATGGT
4437148 TT
1 TT
4437150 TTAGCGGCGT
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 226 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (224 bp):
TTCTTTAAAAAATTTAGTGGCGTTTTTCCATGAACGCTGCCAAAGAATGGTATTTTTAGCGGCGT
TTGTAATTAAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAG
GTCTTGGTCTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTT
GTTAGAAAAGCGCCGCTAAAGATCATGGT
Found at i:4437267 original size:85 final size:85
Alignment explanation
Indices: 4436980--4437327 Score: 430
Period size: 85 Copynumber: 4.1 Consensus size: 85
4436970 ATGGTATTTT
*** * *
4436980 TAGCGGCGTTTGTAATTAAAGCGTCGCTAAAGGTCTT-ATCTATAGCGGCATTTGTGAGAAAAGC
1 TAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAGC
4437044 GCCGCTAAAGGTCTTGGTCTA
65 GCCGCTAAAGGTCTTGGTCTA
* * * *
4437065 TAGCTGCGTTTGT-GAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAAAG
1 TAGCGGCGTTTGTAG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TGGAAAAG
* * * *
4437129 CGCCGCTAAAGATCATGGTTTT
64 CGCCGCTAAAGGTCTTGGTCTA
* * * * *
4437151 TAGCGGCGTTTTTTGGAAAAGCGCCGCTATAGGTCTTGATCTATAGTGGCGTTTGTGTAAAAGCG
1 TAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCG
*
4437216 CCGCTAAAGGTCTTGATCTA
66 CCGCTAAAGGTCTTGGTCTA
* * *
4437236 TAGCGGCGTTTGTAGGAAAAGCGCCACTATAGGTCTTGATCTATAGTGGCGTTTGTGGAAAAGCG
1 TAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCG
** *
4437301 CCGCTAAAGGTAATAGTCTA
66 CCGCTAAAGGTCTTGGTCTA
4437321 TAGCGGC
1 TAGCGGC
4437328 ATTTATTTTT
Statistics
Matches: 228, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
85 139 0.61
86 87 0.38
87 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (85 bp):
TAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCG
CCGCTAAAGGTCTTGGTCTA
Found at i:4437272 original size:171 final size:170
Alignment explanation
Indices: 4436997--4437309 Score: 468
Period size: 171 Copynumber: 1.8 Consensus size: 170
4436987 GTTTGTAATT
* *
4436997 AAAGCGTCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGT
1 AAAGCGCCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAT
* * *
4437062 CTATAGCTGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAA
66 CTATAGCGGCGTTTGTGAAAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTG-TAGAAA
4437127 AGCGCCGCTAAAGATCATGGTTTTTAGCGGCGTTTTTTGGA
130 AGCGCCGCTAAAGATCATGGTTTTTAGCGGCGTTTTTTGGA
* * * *
4437168 AAAGCGCCGCTATAGGTCTTGATCTATAGTGGCGTTTGTG-TAAAAGCGCCGCTAAAGGTCTTGA
1 AAAGCGCCGCTAAAGGTCTT-ATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGA
* * * *
4437232 TCTATAGCGGCGTTTGT-AGGAAAAGCGCCACTATAGGTCTTGATCTATAGTGGCGTTTGTGGAA
65 TCTATAGCGGCGTTTGTGA-AAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAA
4437296 AAGCGCCGCTAAAG
129 AAGCGCCGCTAAAG
4437310 GTAATAGTCT
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
170 19 0.15
171 91 0.72
172 17 0.13
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (170 bp):
AAAGCGCCGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAT
CTATAGCGGCGTTTGTGAAAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTGTAGAAAA
GCGCCGCTAAAGATCATGGTTTTTAGCGGCGTTTTTTGGA
Found at i:4437349 original size:171 final size:171
Alignment explanation
Indices: 4437004--4437353 Score: 463
Period size: 171 Copynumber: 2.0 Consensus size: 171
4436994 ATTAAAGCGT
*
4437004 CGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTCTATAGC
1 CGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
4437069 TGCGTTTGTGAAAAAAGCGTCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAAAGCGCCG
66 GGCGTTTGTGAAAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAAAGCGCCG
* * * * * *
4437134 CTAAAGATCATGGTTTTTAGCGGCGTTTTTTGGAAAAGCGC
131 CTAAAGATAATAGTCTATAGCGGCATTTTTTGGAAAAACGC
* * * *
4437175 CGCTATAGGTCTTGATCTATAGTGGCGTTTGTG-TAAAAGCGCCGCTAAAGGTCTTGATCTATAG
1 CGCTAAAGGTCTT-ATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
* * * *
4437239 CGGCGTTTGT-AGGAAAAGCGCCACTATAGGTCTTGATCTATAGTGGCGTTTG-TGGAAAAGCGC
65 CGGCGTTTGTGA-AAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAAAGCGC
* **
4437302 CGCTAAAGGTAATAGTCTATAGCGGCATTTATTTTTAAAAACGC
129 CGCTAAAGATAATAGTCTATAGCGGCATTT-TTTGGAAAAACGC
4437346 CGCTAAAG
1 CGCTAAAG
4437354 TTAGCGACGC
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
170 35 0.23
171 102 0.66
172 17 0.11
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (171 bp):
CGCTAAAGGTCTTATCTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
GGCGTTTGTGAAAAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTGTTAGAAAAGCGCCG
CTAAAGATAATAGTCTATAGCGGCATTTTTTGGAAAAACGC
Found at i:4445415 original size:14 final size:13
Alignment explanation
Indices: 4445365--4445421 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
4445355 TTAGTTTAGC
*
4445365 ATTTTT-ATTTTT
1 ATTTTTAATTTTA
4445377 A-TTTTAATTTTA
1 ATTTTTAATTTTA
*
4445389 TGTTTTTAA-TTTA
1 -ATTTTTAATTTTA
4445402 ATTTTTACATTTTA
1 ATTTTTA-ATTTTA
4445416 ATTTTT
1 ATTTTT
4445422 CTTTTGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.11
12 12 0.32
13 5 0.14
14 16 0.43
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:4450699 original size:76 final size:76
Alignment explanation
Indices: 4450576--4450743 Score: 221
Period size: 76 Copynumber: 2.2 Consensus size: 76
4450566 TCAACTTAGA
* * * * *
4450576 TTGCCCGACAACGATGACCTACCACCTTAGATTGCCTAGCAAAGATGGTTTATCGAATCAAATTT
1 TTGCCCGACAATGATGACCTACCACCTAAGATTGCCCAACAAAGATGGTTTATCGAATCAAATCT
* *
4450641 GTCATCCTGAG
66 ATCATCCCGAG
* *
4450652 TTGCCCGAAAATGATGACCTACCA-CTAAGGATTGCCCAACAATGATGGTTTATCGAATCAAATC
1 TTGCCCGACAATGATGACCTACCACCTAA-GATTGCCCAACAAAGATGGTTTATCGAATCAAATC
*
4450716 TATCATCCCGGG
65 TATCATCCCGAG
*
4450728 TTACCCGACAATGATG
1 TTGCCCGACAATGATG
4450744 GTTCACAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 3 0.04
76 76 0.96
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (76 bp):
TTGCCCGACAATGATGACCTACCACCTAAGATTGCCCAACAAAGATGGTTTATCGAATCAAATCT
ATCATCCCGAG
Found at i:4450992 original size:17 final size:17
Alignment explanation
Indices: 4450962--4451045 Score: 53
Period size: 17 Copynumber: 4.8 Consensus size: 17
4450952 CATACTTAAG
* *
4450962 GGTTTGCACTTGAGTAA
1 GGTTCGCACATGAGTAA
* *
4450979 GGTTCGTACATGAGGTTTA
1 GGTTCGCACATGA-G-TAA
* *
4450998 GATTCACACATG-GTAA
1 GGTTCGCACATGAGTAA
* *
4451014 GGGTTTGCACTTGAGTAA
1 -GGTTCGCACATGAGTAA
*
4451032 GGTTCGTACATGAG
1 GGTTCGCACATGAG
4451046 GTTTAGATTT
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
16 2 0.04
17 30 0.62
18 5 0.10
19 11 0.23
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (17 bp):
GGTTCGCACATGAGTAA
Found at i:4451210 original size:14 final size:14
Alignment explanation
Indices: 4451170--4451249 Score: 97
Period size: 14 Copynumber: 5.6 Consensus size: 14
4451160 CTCACACATT
*
4451170 AGGTAGCTCGTACA
1 AGGTAGCTCGCACA
*
4451184 AGAGTAACTCGCACA
1 AG-GTAGCTCGCACA
*
4451199 AGGAAGCTCGCACA
1 AGGTAGCTCGCACA
*
4451213 AGGTAGTTCGCACA
1 AGGTAGCTCGCACA
*
4451227 AGGTAGCTCACACA
1 AGGTAGCTCGCACA
*
4451241 AAGTAGCTC
1 AGGTAGCTC
4451250 CAATAATGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 44 0.79
15 12 0.21
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (14 bp):
AGGTAGCTCGCACA
Found at i:4451820 original size:27 final size:28
Alignment explanation
Indices: 4451781--4451838 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
4451771 TCCCCTTTTC
*
4451781 TTTCTCTATTTTTTATTGTCTTTC-TTT
1 TTTCTCTATTTTTGATTGTCTTTCATTT
* *
4451808 TTTCTCT-TCTTTTGCTTTTCTTTCATTT
1 TTTCTCTAT-TTTTGATTGTCTTTCATTT
4451836 TTT
1 TTT
4451839 TCCTTTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.73
28 6 0.23
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.74
Consensus pattern (28 bp):
TTTCTCTATTTTTGATTGTCTTTCATTT
Found at i:4451909 original size:22 final size:21
Alignment explanation
Indices: 4451879--4451922 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4451869 TTTTCCTTTT
*
4451879 TGCTTCCAATTTTCAGCAACCA
1 TGCTGCCAATTTTCAGC-ACCA
*
4451901 TGCTGCCAATTTTTAGCACCA
1 TGCTGCCAATTTTCAGCACCA
4451922 T
1 T
4451923 AATCTCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (21 bp):
TGCTGCCAATTTTCAGCACCA
Found at i:4452605 original size:13 final size:13
Alignment explanation
Indices: 4452587--4452612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4452577 CTAAACCTTG
4452587 TGTGTGATTGTAT
1 TGTGTGATTGTAT
4452600 TGTGTGATTGTAT
1 TGTGTGATTGTAT
4452613 AATGATCTAT
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:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
TGTGTGATTGTAT
Found at i:4465397 original size:28 final size:28
Alignment explanation
Indices: 4465365--4465435 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
4465355 AACAGTACAG
*
4465365 TGTGGGCCTTAGCTCAATACAGCAACAA
1 TGTGGGCCTTAGCCCAATACAGCAACAA
*
4465393 TGTGGGCCTTAGCCCAATACAGTAACAA
1 TGTGGGCCTTAGCCCAATACAGCAACAA
* *
4465421 TGTAGCCCTTAGCCC
1 TGTGGGCCTTAGCCC
4465436 TAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGCAACAA
Found at i:4465616 original size:26 final size:26
Alignment explanation
Indices: 4465587--4465658 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
4465577 GAATTGTAGT
4465587 AAAGCTACCAGTAACAGTATCGCAAC
1 AAAGCTACCAGTAACAGTATCGCAAC
* * *
4465613 AAAGCTACTAGCAACAGTATCGCAGC
1 AAAGCTACCAGTAACAGTATCGCAAC
* *
4465639 AAAGTTGCCAGTAACAGTAT
1 AAAGCTACCAGTAACAGTAT
4465659 ACTTCCTCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AAAGCTACCAGTAACAGTATCGCAAC
Found at i:4465834 original size:27 final size:27
Alignment explanation
Indices: 4465803--4465998 Score: 161
Period size: 27 Copynumber: 7.3 Consensus size: 27
4465793 GGGGTATAAT
*
4465803 AGTCATTTTACCTTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * * * *
4465830 GGTCATTTCACCCT-TCGAGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
*
4465856 AGTCATTTTACCCTAT-GGAGTAATTT-
1 AGTCATTTTACCCTATGGGGGT-ATTTC
* *
4465882 GGTCATTTCT-CCC-ATCGAGGGTATTTC
1 AGTCATTT-TACCCTAT-GGGGGTATTTC
* * * *
4465909 TGTTATTTCACCCTTTGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * * *
4465936 GGTCAATTTACCCTGTAGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
4465963 AGTCATTTTA-CCTATCGGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGGTATTTC
4465990 AGTCATTTT
1 AGTCATTTT
4465999 CCCACAAATC
Statistics
Matches: 132, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
25 2 0.02
26 42 0.32
27 87 0.66
28 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:4465859 original size:53 final size:53
Alignment explanation
Indices: 4465802--4465997 Score: 197
Period size: 53 Copynumber: 3.7 Consensus size: 53
4465792 AGGGGTATAA
4465802 TAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTCACCCTTCGAGGTATTT
1 TAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTCACCCTTCGAGGTATTT
* * * *
4465855 TAGTCATTTTACCCTAT-GGAGTAATTT-GGTCATTTCTCCCATCGAGGGTATTT
1 TAGTCATTTTACCTTATGGGGGT-ATTTCGGTCATTTCACCCTTCGA-GGTATTT
* * * *
4465908 CT-GTTATTTCACCCTT-TGGGGGTATTTCGGTCAATTT-ACCCTGTAGGGGTATTT
1 -TAGTCATTTTA-CCTTATGGGGGTATTTCGGTC-ATTTCACCCT-TCGAGGTATTT
* *
4465962 CAGTCATTTTACC-TATCGGGGGTATTTCAGTCATTT
1 TAGTCATTTTACCTTAT-GGGGGTATTTCGGTCATTT
4465998 TCCCACAAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 22
0.75 0.10 0.14
Matches are distributed among these distances:
52 21 0.18
53 46 0.40
54 43 0.37
55 6 0.05
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
TAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTCACCCTTCGAGGTATTT
Found at i:4470366 original size:19 final size:19
Alignment explanation
Indices: 4470342--4470383 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
4470332 ACCTAAAATT
* *
4470342 ATTAATTCTAATTTTTTTA
1 ATTAATTCTAAATTATTTA
4470361 ATTAATTCTAAATTATTTA
1 ATTAATTCTAAATTATTTA
4470380 ATTA
1 ATTA
4470384 TCTAACCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAATTCTAAATTATTTA
Found at i:4473091 original size:76 final size:76
Alignment explanation
Indices: 4472883--4473096 Score: 200
Period size: 76 Copynumber: 2.8 Consensus size: 76
4472873 TATTTCAATC
* * * * * * * * * *
4472883 TGTCATCCTGGATTACCTAGCAACGATGACCTACCACCCCGAATTTCCAGACAACGATGGTTTAT
1 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATTACTAGGCAATGATGGTTTAT
*
4472948 CGAATCAAATC
66 CGAATCAAATA
* * * * * *
4472959 TTTCATCCTCGGTTGCCCGAA--AATGATAGCCTTCCACCTCGAATTGCT-GGATAATGATGGTT
1 TGTCATCCTGGGTTG-CC-AAGCAATGATAACCTACCACCTCGAATTACTAGG-CAATGATGGTT
*
4473021 TATTGAATCAAATA
63 TATCGAATCAAATA
* *
4473035 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGGATCACTAGGCAATGATGGTT
1 TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATTACTAGGCAATGATGGTT
4473097 CACAAAATAA
Statistics
Matches: 107, Mismatches: 25, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
74 2 0.02
75 3 0.03
76 97 0.91
77 4 0.04
78 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (76 bp):
TGTCATCCTGGGTTGCCAAGCAATGATAACCTACCACCTCGAATTACTAGGCAATGATGGTTTAT
CGAATCAAATA
Found at i:4473887 original size:19 final size:19
Alignment explanation
Indices: 4473865--4473902 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4473855 TCAATCATCC
4473865 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
4473884 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
4473903 AATCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:4477181 original size:16 final size:16
Alignment explanation
Indices: 4477162--4477194 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4477152 AATGAATATC
4477162 TTTTT-CATAAAGATT
1 TTTTTACATAAAGATT
4477177 TTTTTACATAAAGATT
1 TTTTTACATAAAGATT
4477193 TT
1 TT
4477195 AGTTTTACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTTTACATAAAGATT
Found at i:4481577 original size:12 final size:12
Alignment explanation
Indices: 4481560--4481585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4481550 CAAAATAGGC
4481560 TTTTAGCGGCGT
1 TTTTAGCGGCGT
4481572 TTTTAGCGGCGT
1 TTTTAGCGGCGT
4481584 TT
1 TT
4481586 GAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:4481645 original size:40 final size:40
Alignment explanation
Indices: 4481574--4481702 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 40
4481564 AGCGGCGTTT
* * **
4481574 TTAGCGGCG-TTTGAATAAAAAACGCCGCTAAAGATGGAGAA
1 TTAGCGGCGCTTT--ATTAAAAACGCCACTAAAGATCAAGAA
* * *
4481615 TTAGCGGCGCTTT-CTATAAAACGCCACTAAAGGTCAAGCA
1 TTAGCGGCGCTTTATTA-AAAACGCCACTAAAGATCAAGAA
* *
4481655 TTAGTGGCGCTTTATTAAAAACGCCACTATAA-AT-AAGCA
1 TTAGCGGCGCTTTATTAAAAACGCCACTA-AAGATCAAGAA
4481694 TTAGCGGCG
1 TTAGCGGCG
4481703 TTTTCCACGA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
39 14 0.19
40 43 0.59
41 13 0.18
42 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGCTTTATTAAAAACGCCACTAAAGATCAAGAA
Found at i:4481693 original size:39 final size:40
Alignment explanation
Indices: 4481592--4481707 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
4481582 GTTTGAATAA
* ** *
4481592 AAAACGCCGCTAAAGATGGAGAATTAGCGGCGCTTTCTAT
1 AAAACGCCACTAAAGATCAAGCATTAGCGGCGCTTTCTAT
* * *
4481632 AAAACGCCACTAAAGGTCAAGCATTAGTGGCGCTTTAT-T
1 AAAACGCCACTAAAGATCAAGCATTAGCGGCGCTTTCTAT
*
4481671 AAAAACGCCACTATAA-AT-AAGCATTAGCGGCGTTTTC
1 -AAAACGCCACTA-AAGATCAAGCATTAGCGGCGCTTTC
4481708 CACGAAGCGC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
39 17 0.27
40 44 0.70
41 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
AAAACGCCACTAAAGATCAAGCATTAGCGGCGCTTTCTAT
Found at i:4481821 original size:41 final size:41
Alignment explanation
Indices: 4481764--4482088 Score: 463
Period size: 41 Copynumber: 8.0 Consensus size: 41
4481754 GTTTTCGGGG
*
4481764 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTTAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
**
4481805 CTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* * *
4481846 CTTTAGCGGCGTTTTTGAGGAAGCGTCACTAATGCTCATGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
**
4481887 CTTTAGCGGCGTTTTTGACAAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* * * *
4481928 CTTTAGCAGTGTTTGTGAGGAAGCGTCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
* * ** * *
4481969 CTTTAGCGGCATTTTTTATAAAGCGCCGCGAATGTTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
4482010 CTTTAGCGGCGTTTTTGTGGAAG-GCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
*
4482050 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAG
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAG
4482089 AGATTTAAAA
Statistics
Matches: 245, Mismatches: 38, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 36 0.15
41 209 0.85
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGC
Found at i:4482286 original size:14 final size:14
Alignment explanation
Indices: 4482264--4482393 Score: 66
Period size: 14 Copynumber: 9.1 Consensus size: 14
4482254 TTAATTATCA
*
4482264 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
4482278 TTATGGTTTGGGGT
1 TTATGGTTTAGGGT
* *
4482292 ATATGTTTTAGGGT
1 TTATGGTTTAGGGT
** * *
4482306 TTAAAGTTTAAAAGAT
1 TTATGGTTT--AGGGT
*
4482322 GTTAT--TTTAAGGT
1 -TTATGGTTTAGGGT
*
4482335 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
4482350 TTAGGGTTTATGAT
1 TTATGGTTTAGGGT
*
4482364 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
*
4482378 TTACGGTTTAAGGGT
1 TTATGGTTT-AGGGT
4482393 T
1 T
4482394 GGGGTTCAAG
Statistics
Matches: 86, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
12 4 0.05
13 4 0.05
14 53 0.62
15 19 0.22
16 3 0.03
17 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:4482356 original size:7 final size:7
Alignment explanation
Indices: 4482327--4482445 Score: 53
Period size: 7 Copynumber: 16.7 Consensus size: 7
4482317 AAGATGTTAT
*
4482327 TTTAAGG
1 TTTAGGG
*
4482334 TTTATGG
1 TTTAGGG
*
4482341 ATTATGGG
1 TTTA-GGG
4482349 TTTAGGG
1 TTTAGGG
* *
4482356 TTTATGA
1 TTTAGGG
*
4482363 TTTATGG
1 TTTAGGG
*
4482370 TTTATGG
1 TTTAGGG
*
4482377 TTTACGG
1 TTTAGGG
4482384 TTTAAGGG
1 TTT-AGGG
*
4482392 -TTGGGG
1 TTTAGGG
* * *
4482398 TTCAAGA
1 TTTAGGG
4482405 TTTAGGG
1 TTTAGGG
* *
4482412 GTTA-AG
1 TTTAGGG
4482418 TATTAGGG
1 T-TTAGGG
*
4482426 GTTAGGGG
1 TTTA-GGG
4482434 TTTAGGG
1 TTTAGGG
4482441 TTTAG
1 TTTAG
4482446 ATTAATTAGT
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
6 4 0.05
7 64 0.77
8 15 0.18
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:4482387 original size:21 final size:22
Alignment explanation
Indices: 4482327--4482393 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
4482317 AAGATGTTAT
*
4482327 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGTTTATGGG
* *
4482349 TTTAGGGTTTATGATTTAT-GG
1 TTTAAGGTTTATGGTTTATGGG
* * *
4482370 TTTATGGTTTACGGTTTAAGGG
1 TTTAAGGTTTATGGTTTATGGG
4482392 TT
1 TT
4482394 GGGGTTCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGGTTTATGGG
Found at i:4483290 original size:83 final size:81
Alignment explanation
Indices: 4483147--4483389 Score: 299
Period size: 83 Copynumber: 2.9 Consensus size: 81
4483137 TTTAAAAGTG
* * * * *
4483147 AAATCATTAGCGGCGTTTGGTA-AAAATGCCGCAAAAAATACATTTAAAATTTAACCAAACGGCA
1 AAAT-ATTAGTGGCGTTTTGTATAAAACGCCGCAAAAAATA-AATTAAAATTTAACAAAACGGCA
4483211 CCGTTTCATTGACGAATT
64 CCGTTTCATTGACGAATT
* * * *
4483229 AAATATTAGTGGCGTTTTGTATACAAACGCCGTAAAAAATATATTAAGAATTTAATAAAACGGCG
1 AAATATTAGTGGCGTTTTGTATA-AAACGCCGCAAAAAATAAATTAA-AATTTAACAAAACGGCA
* *
4483294 CCATTTCATTGATGAATT
64 CCGTTTCATTGACGAATT
* *
4483312 AAATATTAGTGGCGTTTTCTATAAAAACGCCACAAAAAATAAATTAAAAATTTAACAAAACGGCA
1 AAATATTAGTGGCGTTTTGTAT-AAAACGCCGCAAAAAATAAATT-AAAATTTAACAAAACGGCA
*
4483377 CTGTTTCATTGAC
64 CCGTTTCATTGAC
4483390 TAAATAAAGA
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
81 15 0.11
82 9 0.07
83 109 0.80
84 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (81 bp):
AAATATTAGTGGCGTTTTGTATAAAACGCCGCAAAAAATAAATTAAAATTTAACAAAACGGCACC
GTTTCATTGACGAATT
Found at i:4483464 original size:24 final size:24
Alignment explanation
Indices: 4483437--4483483 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4483427 GTGTAAACGC
*
4483437 CGCAGTTGTTGAAATAGAAACCGT
1 CGCAATTGTTGAAATAGAAACCGT
4483461 CGCAATTGTTGAAATAGAAACCG
1 CGCAATTGTTGAAATAGAAACCG
4483484 GCATCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (24 bp):
CGCAATTGTTGAAATAGAAACCGT
Found at i:4488987 original size:43 final size:43
Alignment explanation
Indices: 4488848--4489067 Score: 196
Period size: 43 Copynumber: 5.1 Consensus size: 43
4488838 NNNNNGCTTT
* ** *
4488848 TAGCGACGTTTGTGTG-AAAAGCGCTGCTAAAGGCCAAT--TCTA
1 TAGCGGCGTTTGTG-GAAAAAGCGCCACTAAAGG-TAATGGTCTA
* * * * **
4488890 TAGCGGCGTTTGTACGAAAAAGCGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGT-GGAAAAAGCGCCACTAAAGGTAATGGTCTA
* * * * *
4488934 TAACGACGTTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTAATGGTCTA
* *
4488977 TAGCGGCGTTTGT-GATAAAAGTGCCGCTAAAGGTAATGGTCTA
1 TAGCGGCGTTTGTGGA-AAAAGCGCCACTAAAGGTAATGGTCTA
* * *
4489020 TAGCGGCGGTTGTGGAAAAAGCGCCCCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTAATGGTCTA
4489063 TAGCG
1 TAGCG
4489068 TCNNNNNNNN
Statistics
Matches: 143, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
42 16 0.11
43 111 0.78
44 16 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTAATGGTCTA
Found at i:4488997 original size:86 final size:86
Alignment explanation
Indices: 4488851--4489067 Score: 233
Period size: 86 Copynumber: 2.5 Consensus size: 86
4488841 NNGCTTTTAG
* ** *
4488851 CGACGTTTGTGTGAAAAGCGCTGCTAAAGGCCAAT--TCTATAGCGGCGTTTGTACGAAAAAGCG
1 CGACGTTTGTGGGAAAAGCGCCACTAAAGG-TAATGGTCTATAGCGGCGTTTGTA-GAAAAAGCG
*
4488914 CCGCTAAAAGTCATGACCTATAA
64 CCGCTAAAAGTAATGACCTATAA
* * *
4488937 CGACGTTTGTGGGAGAAGCGCCACTAAAGGTAATGGTCTTTAGCGGCGTTTGT-GATAAAAGTGC
1 CGACGTTTGTGGGAAAAGCGCCACTAAAGGTAATGGTCTATAGCGGCGTTTGTAGA-AAAAGCGC
* ** *
4489001 CGCTAAAGGTAATGGTCTATAG
65 CGCTAAAAGTAATGACCTATAA
* * * * *
4489023 CGGCGGTTGTGGAAAAAGCGCCCCTAAAGGTCATGGTCTATAGCG
1 CGACGTTTGTGGGAAAAGCGCCACTAAAGGTAATGGTCTATAGCG
4489068 TCNNNNNNNN
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
85 5 0.05
86 88 0.81
87 16 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (86 bp):
CGACGTTTGTGGGAAAAGCGCCACTAAAGGTAATGGTCTATAGCGGCGTTTGTAGAAAAAGCGCC
GCTAAAAGTAATGACCTATAA
Found at i:4493150 original size:14 final size:15
Alignment explanation
Indices: 4493131--4493163 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4493121 AAGGTTAAAG
4493131 AAAAA-CACTTTTCA
1 AAAAACCACTTTTCA
*
4493145 AAAAACCATTTTTCA
1 AAAAACCACTTTTCA
4493160 AAAA
1 AAAA
4493164 TAAACTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAACCACTTTTCA
Found at i:4507848 original size:3 final size:3
Alignment explanation
Indices: 4507826--4507908 Score: 112
Period size: 3 Copynumber: 27.7 Consensus size: 3
4507816 AGTGGATCAT
* * *
4507826 ATG ATG CTG ATG ATG CTG ATG ATG ATG ATG ATG ATG ATG ATG AGG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
** *
4507874 CGG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
4507909 ACCAATAATG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.31, C:0.04, G:0.34, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:4508688 original size:52 final size:53
Alignment explanation
Indices: 4508581--4508691 Score: 206
Period size: 52 Copynumber: 2.1 Consensus size: 53
4508571 GGAAACTGAA
4508581 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
*
4508634 AAATTTCTCACCTTTTGCATTTAGTATG-ATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
4508686 AAATTT
1 AAATTT
4508692 GTAGTTTGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.53
53 27 0.47
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (53 bp):
AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
Found at i:4516641 original size:16 final size:16
Alignment explanation
Indices: 4516620--4516654 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4516610 GATACTCTTG
4516620 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
4516636 TTGTAGCAATCAAACA
1 TTGTAGCAATCAAACA
4516652 TTG
1 TTG
4516655 GCAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (16 bp):
TTGTAGCAATCAAACA
Found at i:4518522 original size:3 final size:3
Alignment explanation
Indices: 4518514--4518553 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4518504 ATTAATCTTG
4518514 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4518554 TACTCATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.