Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 26 of 211
Found at i:6920895 original size:27 final size:27
Alignment explanation
Indices: 6920864--6920943 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
6920854 ATCTTTGAAT
6920864 TCATTTCAAAATTT-ACATCTCATTTC
1 TCATTTCAAAATTTCACATCTCATTTC
** * *
6920890 ATCATTTCATCATTTCATATTTCATTTC
1 -TCATTTCAAAATTTCACATCTCATTTC
* **
6920918 TCATTTC-ATATTTCATTTCTCATTTC
1 TCATTTCAAAATTTCACATCTCATTTC
6920944 ATATTCATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 15 0.34
27 19 0.43
28 10 0.23
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.53
Consensus pattern (27 bp):
TCATTTCAAAATTTCACATCTCATTTC
Found at i:6920896 original size:19 final size:18
Alignment explanation
Indices: 6920881--6920957 Score: 90
Period size: 19 Copynumber: 4.3 Consensus size: 18
6920871 AAAATTTACA
6920881 TCTCATTTCATCATTTCA-
1 TCTCATTTCAT-ATTTCAT
6920899 --TCATTTCATATTTCATT
1 TCTCATTTCATATTTCA-T
6920916 TCTCATTTCATATTTCATT
1 TCTCATTTCATATTTCA-T
6920935 TCTCATTTCATA-TTCATT
1 TCTCATTTCATATTTCA-T
6920953 TCTCA
1 TCTCA
6920958 ACTTTGCCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.11
16 9 0.16
18 11 0.20
19 29 0.53
ACGTcount: A:0.22, C:0.23, G:0.00, T:0.55
Consensus pattern (18 bp):
TCTCATTTCATATTTCAT
Found at i:6920906 original size:35 final size:33
Alignment explanation
Indices: 6920864--6920933 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 33
6920854 ATCTTTGAAT
6920864 TCATTTCAAAATTTACA-TCTCATTTCATCATTTCA
1 TCATTTC-AAATTT-CATTCTCATTTCAT-ATTTCA
*
6920899 TCATTTCATATTTCATTTCTCATTTCATATTTCA
1 TCATTTCAAATTTCA-TTCTCATTTCATATTTCA
6920933 T
1 T
6920934 TTCTCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 2 0.06
34 12 0.38
35 18 0.56
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.51
Consensus pattern (33 bp):
TCATTTCAAATTTCATTCTCATTTCATATTTCA
Found at i:6920913 original size:7 final size:8
Alignment explanation
Indices: 6920883--6920933 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
6920873 AATTTACATC
6920883 TCATTTCA
1 TCATTTCA
6920891 TCATTTCA
1 TCATTTCA
6920899 TCATTTCA
1 TCATTTCA
6920907 T-A-TT--
1 TCATTTCA
6920911 TCATTTC-
1 TCATTTCA
6920918 TCATTTCA
1 TCATTTCA
6920926 T-ATTTCA
1 TCATTTCA
6920933 T
1 T
6920934 TTCTCATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 1 0.03
6 4 0.10
7 15 0.38
8 18 0.46
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.55
Consensus pattern (8 bp):
TCATTTCA
Found at i:6920916 original size:12 final size:12
Alignment explanation
Indices: 6920899--6920954 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
6920889 CATCATTTCA
6920899 TCATTTCATATT
1 TCATTTCATATT
6920911 TCATTTC-TCATT
1 TCATTTCAT-ATT
6920923 TCATATTTCAT-TT
1 TC--ATTTCATATT
6920936 CTCATTTCATA-T
1 -TCATTTCATATT
6920948 TCATTTC
1 TCATTTC
6920955 TCAACTTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 8 0.21
12 20 0.53
13 2 0.05
14 7 0.18
15 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCATATT
Found at i:6922882 original size:18 final size:18
Alignment explanation
Indices: 6922854--6922888 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6922844 TCTTCTTATT
6922854 GTTTCCATTTTTTATCCTC
1 GTTTCCATTTTTT-TCCTC
6922873 GTTT-CATTTTTTTCCT
1 GTTTCCATTTTTTTCCT
6922889 TCTAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.09, C:0.23, G:0.06, T:0.63
Consensus pattern (18 bp):
GTTTCCATTTTTTTCCTC
Found at i:6923205 original size:13 final size:13
Alignment explanation
Indices: 6923187--6923213 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6923177 CTATCATTTT
6923187 AAATTGTATGATA
1 AAATTGTATGATA
6923200 AAATTGTATGATA
1 AAATTGTATGATA
6923213 A
1 A
6923214 TAATACTCAC
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AAATTGTATGATA
Found at i:6924367 original size:20 final size:20
Alignment explanation
Indices: 6924342--6924384 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6924332 ATTTCAAGAG
*
6924342 ATTCTCGTACAAGACTTTTT
1 ATTCTCATACAAGACTTTTT
* *
6924362 ATTCTCATACGAGATTTTTT
1 ATTCTCATACAAGACTTTTT
6924382 ATT
1 ATT
6924385 GGGTCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.49
Consensus pattern (20 bp):
ATTCTCATACAAGACTTTTT
Found at i:6927496 original size:72 final size:73
Alignment explanation
Indices: 6927376--6927526 Score: 268
Period size: 72 Copynumber: 2.1 Consensus size: 73
6927366 CGACAAAGGC
*
6927376 ATTGGCGGAGAGGTAATGTCTGATTAAAGAACGCATGCAAAAAGAACCATTAAAACTTCTTTT-A
1 ATTGGCGGAGAGGTAATGTCTGATTAAAGAACGCATGCAAAAAAAACCATTAAAACTTCTTTTAA
* *
6927440 TTGGCTCT
66 CTAGCTCT
6927448 ATTGGCGGAGAGGTAATGTCTGATTAAAGAACGCATGCAAAAAAAACCATTAAAACTTCTTTTAA
1 ATTGGCGGAGAGGTAATGTCTGATTAAAGAACGCATGCAAAAAAAACCATTAAAACTTCTTTTAA
6927513 CTAGCTCT
66 CTAGCTCT
6927521 ATTGGC
1 ATTGGC
6927527 TTATCCATGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 62 0.83
73 13 0.17
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (73 bp):
ATTGGCGGAGAGGTAATGTCTGATTAAAGAACGCATGCAAAAAAAACCATTAAAACTTCTTTTAA
CTAGCTCT
Found at i:6929394 original size:24 final size:25
Alignment explanation
Indices: 6929367--6929423 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
6929357 GAAGGATGAT
*
6929367 AAGGCTGAGACAAA-A-AAGGAAGTG
1 AAGGCTGAGA-AAAGAGAAGGAAGCG
6929391 AAGGCTGA-AAAAGAGAAGGAAGCG
1 AAGGCTGAGAAAAGAGAAGGAAGCG
6929415 AAGGCTGAG
1 AAGGCTGAG
6929424 TGAAAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 24 0.83
ACGTcount: A:0.47, C:0.09, G:0.37, T:0.07
Consensus pattern (25 bp):
AAGGCTGAGAAAAGAGAAGGAAGCG
Found at i:6933243 original size:11 final size:12
Alignment explanation
Indices: 6933221--6933275 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
6933211 TAATGTATAT
*
6933221 ATATATTTAAAA
1 ATATATATAAAA
6933233 ATATAT-TAAAA
1 ATATATATAAAA
*
6933244 ATATATGTATAAA
1 ATATATATA-AAA
*
6933257 GTATATATAAAA
1 ATATATATAAAA
*
6933269 AAATATA
1 ATATATA
6933276 AGTACATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.30
12 16 0.43
13 10 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (12 bp):
ATATATATAAAA
Found at i:6933256 original size:25 final size:27
Alignment explanation
Indices: 6933219--6933275 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
6933209 GGTAATGTAT
* *
6933219 ATATATATTTAAA-AATATAT-TAAAA
1 ATATATATATAAAGAATATATAAAAAA
* *
6933244 ATATATGTATAAAGTATATATAAAAAA
1 ATATATATATAAAGAATATATAAAAAA
6933271 ATATA
1 ATATA
6933276 AGTACATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.42
26 6 0.23
27 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATAAAGAATATATAAAAAA
Found at i:6933362 original size:3 final size:3
Alignment explanation
Indices: 6933354--6933403 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6933344 TAAATGGGTA
6933354 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6933402 AA
1 AA
6933404 AACTAATTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6939022 original size:48 final size:48
Alignment explanation
Indices: 6938960--6939055 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
6938950 AATTTAAAGA
6938960 ATATCTATAATTTCAATTACAACAATCACAAGATATTATTCACTAAAT
1 ATATCTATAATTTCAATTACAACAATCACAAGATATTATTCACTAAAT
* *
6939008 ATATCTGTAGTTTCAATTACAACAATCACAAGATATTATTCACTAAAT
1 ATATCTATAATTTCAATTACAACAATCACAAGATATTATTCACTAAAT
6939056 CCTTAGTCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (48 bp):
ATATCTATAATTTCAATTACAACAATCACAAGATATTATTCACTAAAT
Found at i:6939984 original size:5 final size:5
Alignment explanation
Indices: 6939962--6940025 Score: 89
Period size: 5 Copynumber: 13.2 Consensus size: 5
6939952 TTCCTTTATT
6939962 TAAT- TAAT- TAAT- TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
6940009 TAATA CTAAAA TAATA T
1 TAATA -TAATA TAATA T
6940026 TATTTATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
4 12 0.21
5 40 0.71
6 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:6943711 original size:20 final size:20
Alignment explanation
Indices: 6943686--6943725 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6943676 AGTCTTTCTG
6943686 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
6943706 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
6943726 TTCATCTCTT
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:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (20 bp):
CGATTTCCCCTCATCCTTTC
Found at i:6945404 original size:17 final size:17
Alignment explanation
Indices: 6945382--6945414 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6945372 TTATTTTCTA
6945382 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
6945399 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
6945415 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:6945460 original size:15 final size:16
Alignment explanation
Indices: 6945423--6945461 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6945413 ATAATTATTC
*
6945423 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
6945439 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
6945454 TAAATTTA
1 TAAATTTA
6945462 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:6945461 original size:61 final size:61
Alignment explanation
Indices: 6945393--6945542 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
6945383 ATAAGTTTTC
6945393 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * * * *
6945454 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
6945515 CAATTTTACACGTTTTGTAAATAATTAT
1 TAAATTTATAAGTTTTGTAAATAATTAT
6945543 ATATATTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:6945778 original size:8 final size:7
Alignment explanation
Indices: 6945765--6945810 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
6945755 TAACGTATAT
6945765 ATAATAAC
1 ATAAT-AC
6945773 ATAATA-
1 ATAATAC
*
6945779 A-ATTAC
1 ATAATAC
6945785 ATAATAC
1 ATAATAC
6945792 ATAATAAC
1 ATAAT-AC
6945800 ATAATAC
1 ATAATAC
6945807 ATAA
1 ATAA
6945811 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:6945803 original size:15 final size:15
Alignment explanation
Indices: 6945765--6945810 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
6945755 TAACGTATAT
6945765 ATAATAACATAAT--
1 ATAATAACATAATAC
*
6945778 A-AATTACATAATAC
1 ATAATAACATAATAC
6945792 ATAATAACATAATAC
1 ATAATAACATAATAC
6945807 ATAA
1 ATAA
6945811 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:6945819 original size:95 final size:95
Alignment explanation
Indices: 6945686--6945949 Score: 386
Period size: 95 Copynumber: 2.8 Consensus size: 95
6945676 AATCATTTGC
* * * * *
6945686 TTACTTAATACATAATAACACAATGCATAA-TTGGTATATAAGCTTGCATAACTTACATAGTAAC
1 TTACATAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACATAATAAC
6945750 TTCCATAACGTATATATAATAACATAATAAA
65 TTCCATAACGTATATATAATAACATAATAAA
*
6945781 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
* * *** *
6945846 TTCATAACTTATATATAATCTGATAATACA
66 TCCATAACGTATATATAATAACATAATAAA
*
6945876 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACATAATAAC
6945941 TTCCATAAC
65 TTCCATAAC
6945950 TTAATACACC
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
95 116 0.76
96 36 0.24
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (95 bp):
TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
TCCATAACGTATATATAATAACATAATAAA
Found at i:6945832 original size:21 final size:20
Alignment explanation
Indices: 6945806--6945863 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
6945796 TAACATAATA
6945806 CATAACTTATATATAAGCTTGT
1 CATAACTTATATATAA-CTT-T
*
6945828 -ATAACTTACATAATAACTTT
1 CATAACTTATAT-ATAACTTT
6945848 CATAACTTATATATAA
1 CATAACTTATATATAA
6945864 TCTGATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 23 0.72
22 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:6945885 original size:12 final size:14
Alignment explanation
Indices: 6945868--6945904 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
6945858 ATATAATCTG
6945868 ATAATACAT-T-AC
1 ATAATACATATAAC
6945880 ATAATACATAATAAC
1 ATAATACAT-ATAAC
6945895 ATAATACATA
1 ATAATACATA
6945905 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:6945898 original size:8 final size:7
Alignment explanation
Indices: 6945868--6945905 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
6945858 ATATAATCTG
6945868 ATAATAC
1 ATAATAC
6945875 AT--TAC
1 ATAATAC
6945880 ATAATAC
1 ATAATAC
6945887 ATAATAAC
1 ATAAT-AC
6945895 ATAATAC
1 ATAATAC
6945902 ATAA
1 ATAA
6945906 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:6945917 original size:27 final size:27
Alignment explanation
Indices: 6945848--6945918 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
6945838 TAATAACTTT
***
6945848 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
6945874 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
6945901 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
6945919 CTTGCATAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:6945926 original size:22 final size:21
Alignment explanation
Indices: 6945901--6945952 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
6945891 TAACATAATA
* * *
6945901 CATAACTTATATTATAATCTTG
1 CATAACTTACATAATAA-CTTC
6945923 CATAACTTACATAATAACTTC
1 CATAACTTACATAATAACTTC
6945944 CATAACTTA
1 CATAACTTA
6945953 ATACACCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (21 bp):
CATAACTTACATAATAACTTC
Found at i:6946051 original size:9 final size:9
Alignment explanation
Indices: 6946023--6946212 Score: 100
Period size: 9 Copynumber: 22.2 Consensus size: 9
6946013 CATATATAGA
*
6946023 AACTGACAT
1 AACTTACAT
* *
6946032 AAATTAAAT
1 AACTTACAT
6946041 AACTTACAT
1 AACTTACAT
6946050 AACTTACAT
1 AACTTACAT
* *
6946059 AAATTAAAT
1 AACTTACAT
*
6946068 TACTTACAT
1 AACTTACAT
6946077 AACTTACAT
1 AACTTACAT
*
6946086 TA--TACAT
1 AACTTACAT
*
6946093 AACCTT-CTT
1 AA-CTTACAT
6946102 AACTTACAT
1 AACTTACAT
* *
6946111 TA--TACAC
1 AACTTACAT
* *
6946118 GACTCACAT
1 AACTTACAT
6946127 AA-TTA-AT
1 AACTTACAT
* *
6946134 -ATTATACAC
1 AACT-TACAT
6946143 AACTTACAT
1 AACTTACAT
*
6946152 AA-TAAC-T
1 AACTTACAT
**
6946159 TTCTTACAT
1 AACTTACAT
6946168 AACTTACAT
1 AACTTACAT
*
6946177 TACTTACAGT
1 AACTTACA-T
6946187 -ACTTACAT
1 AACTTACAT
6946195 AA--TACAT
1 AACTTACAT
6946202 AACTTACAT
1 AACTTACAT
6946211 AA
1 AA
6946213 TACATAAAAA
Statistics
Matches: 133, Mismatches: 32, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
6 1 0.01
7 22 0.17
8 14 0.11
9 92 0.69
10 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:6946206 original size:16 final size:16
Alignment explanation
Indices: 6946163--6946219 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
6946153 ATAACTTTCT
*
6946163 TACATAACTTACATTACT
1 TACATAACTTACA-TA-A
6946181 TACAGT-ACTTACATAA
1 TACA-TAACTTACATAA
6946197 TACATAACTTACATAA
1 TACATAACTTACATAA
6946213 TACATAA
1 TACATAA
6946220 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 21 0.58
17 2 0.06
18 11 0.31
19 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:6953690 original size:24 final size:24
Alignment explanation
Indices: 6953657--6953702 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6953647 TCATTTAACT
* *
6953657 TAATTGAATATGTTCATGAACATA
1 TAATTAAATATGTTCACGAACATA
6953681 TAATTAAATATGTTCACGAACA
1 TAATTAAATATGTTCACGAACA
6953703 ATGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (24 bp):
TAATTAAATATGTTCACGAACATA
Found at i:6974737 original size:17 final size:17
Alignment explanation
Indices: 6974699--6974759 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
6974689 TCATCATTCG
*
6974699 AAAAATAAAAAAATT-T
1 AAAAATATAAAAATTAT
*
6974715 CTAAAATATAAAAATTAT
1 -AAAAATATAAAAATTAT
* * *
6974733 AAAAA-CTAAAAACTAA
1 AAAAATATAAAAATTAT
6974749 AAAAATATAAA
1 AAAAATATAAA
6974760 TATGTTAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
16 13 0.37
17 21 0.60
18 1 0.03
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATATAAAAATTAT
Found at i:6974984 original size:18 final size:18
Alignment explanation
Indices: 6974932--6974984 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
6974922 TATATAATTA
6974932 AAAAATACAATCAATTTTT
1 AAAAATACAATCAA-TTTT
* *
6974951 ATAAA-AGAATGC-ATTTT
1 AAAAATACAAT-CAATTTT
6974968 AAAAATACAATCAATTT
1 AAAAATACAATCAATTT
6974985 CCTAAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
17 9 0.33
18 13 0.48
19 5 0.19
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (18 bp):
AAAAATACAATCAATTTT
Found at i:6978807 original size:29 final size:29
Alignment explanation
Indices: 6978765--6978822 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6978755 TTGAGCGTTG
6978765 GATGAATTAATTTTTTGAACCAAATTATA
1 GATGAATTAATTTTTTGAACCAAATTATA
* *
6978794 GATGAATTAATTTTTTGGACTAAATTATA
1 GATGAATTAATTTTTTGAACCAAATTATA
6978823 AGGTACAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (29 bp):
GATGAATTAATTTTTTGAACCAAATTATA
Found at i:6980036 original size:195 final size:192
Alignment explanation
Indices: 6979699--6980108 Score: 504
Period size: 195 Copynumber: 2.1 Consensus size: 192
6979689 GCAACTGGGC
* * * * *
6979699 ATCGAATTATGTCAAAAAATTAAAGTATAGAGATTAAATTTTAAAATTGTGCATATTATTGGGAG
1 ATCGAATTATGTC-AAAAATTAAAGTATAAAGATTAAATTTTAAAATTGAGCATAATATAGGAAG
* * * * **
6979764 CAAAAATTTGACTATTGTTATATAATCTCAAAAAAGAAGTAAAAGGTCGTGTATTTGGACATGTG
65 CAAAAATTTGACCATTATTATATAATCTCAAAAAAGAAGTAAAAGATCGTGCATCGGGACATGTG
* * * *
6979829 TACGTCAACATTTTAATCAGAATGAAGTGTTTAGACTAACCATGACATTATAAAAATC-AAGGT
130 TACGTCAACATTTTAATCAGAATGAAGTATTTAGACTAACAATGAAATTATAAAAATCGAA-AT
* *
6979892 ATCGAATTATGTCAAAAATTAAAGTATAAAGATTAAA-TTTAAATTTGAGCATAATATAGGAATC
1 ATCGAATTATGTCAAAAATTAAAGTATAAAGATTAAATTTTAAAATTGAGCATAATATAGGAAGC
* * *
6979956 AAAGTTAAAATTTGACCATTATTATATAATCT-AAAAAATAAGTAAAAGATTGTGCATCGGGATA
66 --A---AAAATTTGACCATTATTATATAATCTCAAAAAAGAAGTAAAAGATCGTGCATCGGGACA
* * *
6980020 TGTGTAGGTCAACATTTTAATCAGAATGAAGTATTTAGACTTACAATGAAATTATAAAAGTCGAA
126 TGTGTACGTCAACATTTTAATCAGAATGAAGTATTTAGACTAACAATGAAATTATAAAAATCGAA
6980085 AT
191 AT
* *
6980087 ACCAAATTATGTC-AAAATTAAA
1 ATCGAATTATGTCAAAAATTAAA
6980109 TTCAAAACTT
Statistics
Matches: 186, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
191 21 0.11
192 23 0.12
193 14 0.08
194 9 0.05
195 93 0.50
196 26 0.14
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (192 bp):
ATCGAATTATGTCAAAAATTAAAGTATAAAGATTAAATTTTAAAATTGAGCATAATATAGGAAGC
AAAAATTTGACCATTATTATATAATCTCAAAAAAGAAGTAAAAGATCGTGCATCGGGACATGTGT
ACGTCAACATTTTAATCAGAATGAAGTATTTAGACTAACAATGAAATTATAAAAATCGAAAT
Found at i:6985309 original size:92 final size:89
Alignment explanation
Indices: 6985155--6985323 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 89
6985145 TAAAAACATA
* **
6985155 ATTTTTTTTATTTTTTATGTTTTTCAATTTTTAATTTCAAATTTTTATTGAATTTTTAAATATTA
1 ATTTCTTTTATTTTTTATGTTTTTCAATTTTT-ATTGAAAATTTTTATTGAATTTTTAAATATTA
6985220 AAAATTTCAAAAGTATAAATAATTT
65 AAAATTTCAAAAGTATAAATAATTT
*
6985245 ATTTCTTTTATTTTTCTATGTTTTTCAATTTTT-TTGAAAATTTTTTATTTTGAATTTTTTAATA
1 ATTTCTTTTATTTTT-TATGTTTTTCAATTTTTATTGAAAA-TTTTTA--TTGAATTTTTAAATA
6985309 TTAAAAATTTCAAAA
62 TTAAAAATTTCAAAA
6985324 AAATATAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
89 5 0.07
90 20 0.28
91 17 0.24
92 29 0.41
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (89 bp):
ATTTCTTTTATTTTTTATGTTTTTCAATTTTTATTGAAAATTTTTATTGAATTTTTAAATATTAA
AAATTTCAAAAGTATAAATAATTT
Found at i:6998415 original size:40 final size:40
Alignment explanation
Indices: 6998366--6998488 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 40
6998356 ATAAAACAGG
*
6998366 AAAACGCTTCCTTAAGGAAGCACTTTGTCCACGTGGACAA
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
* * *
6998406 AAAACGCTTCCTCAAGGAAGTGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
* *
6998446 AAAACGCTTCCTTGAGGGAGCGCTTTGTGTCCACGTGGACAA
1 AAAACGCTTCCTTAAGGAAGCGC-TT-TGTCCACGTGGACAA
6998488 A
1 A
6998489 GTGCTTCCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 55 0.76
41 2 0.03
42 15 0.21
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (40 bp):
AAAACGCTTCCTTAAGGAAGCGCTTTGTCCACGTGGACAA
Found at i:6998793 original size:19 final size:19
Alignment explanation
Indices: 6998769--6998805 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6998759 CTTTTACAAT
6998769 TTAAAATATATATTAAATA
1 TTAAAATATATATTAAATA
* *
6998788 TTAAAATTTATGTTAAAT
1 TTAAAATATATATTAAAT
6998806 TCCATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAAAATATATATTAAATA
Found at i:6999402 original size:90 final size:91
Alignment explanation
Indices: 6999275--6999523 Score: 374
Period size: 90 Copynumber: 2.7 Consensus size: 91
6999265 CCCTAAATAC
*
6999275 TAAACCCCAATCTAACTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
1 TAAACCCTAATCTAACTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
*
6999340 TTATTTAATTTTTCCCTTAAAAACCT
66 TTATTTAATTTTTCCCTTAAAAACCA
6999366 TAAACCCTAATCTAA-TTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
1 TAAACCCTAATCTAACTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
*
6999430 TTATTTAATTTTTTCCTTAAAAACCA
66 TTATTTAATTTTTCCCTTAAAAACCA
* * * * * *
6999456 TAAACACTAAACCCTAATCTATTTTTTAAAATTTATAATTAATTTAATTAAGAAACCCTAAACAC
1 TAAACCCT-AA-TCTAA-CT-TTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCC
6999521 TAA
62 TAA
6999524 ACCCTTATTT
Statistics
Matches: 144, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
90 80 0.56
91 16 0.11
92 4 0.03
94 1 0.01
95 43 0.30
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.40
Consensus pattern (91 bp):
TAAACCCTAATCTAACTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCCTAAT
TTATTTAATTTTTCCCTTAAAAACCA
Found at i:6999623 original size:19 final size:20
Alignment explanation
Indices: 6999582--6999623 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6999572 CAAAACCCCT
* *
6999582 AAAACCCTAGCTCTAGTAGAA
1 AAAACCCTAACTCTA-TAAAA
6999603 AAAACCCTAACTCT-TAAAA
1 AAAACCCTAACTCTATAAAA
6999622 AA
1 AA
6999624 CGGGAAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAACCCTAACTCTATAAAA
Found at i:7010663 original size:23 final size:24
Alignment explanation
Indices: 7010637--7010692 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
7010627 TGTATATATA
*
7010637 AATTTTTTT-ATAATGTTAGAAAT
1 AATTTTTTTAAGAATGTTAGAAAT
7010660 AATTTTTTTTAAAGAATGTTAGAAAT
1 AA-TTTTTTT-AAGAATGTTAGAAAT
*
7010686 AGTTTTT
1 AATTTTT
7010693 GAATGTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 5 0.18
26 14 0.50
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (24 bp):
AATTTTTTTAAGAATGTTAGAAAT
Found at i:7011941 original size:17 final size:17
Alignment explanation
Indices: 7011919--7011952 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7011909 TTTTATAATA
7011919 TATAAA-TTATTTTTTAT
1 TATAAACTT-TTTTTTAT
7011936 TATAAACTTTTTTTTAT
1 TATAAACTTTTTTTTAT
7011953 AATTTTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATAAACTTTTTTTTAT
Found at i:7016017 original size:226 final size:225
Alignment explanation
Indices: 7015623--7016076 Score: 746
Period size: 226 Copynumber: 2.0 Consensus size: 225
7015613 AACTATCCAT
* *
7015623 TCAAGAAGGCTCAATATACTGCCAATCAATGAGAAAATATTATATTGGGGTACTCGGGGAACTCG
1 TCAAGAAGGCTCAATATACCGCCAATCAATGAGAAAATATTATATTAGGGTACTCGGGGAACTCG
* * * **
7015688 AACGCATGCGACGCATCAGGATTTATGCTCGACATGTGCGCTTCAGGGTCATTGTGTATGACAAT
66 AACACATGCGACACATCAAGATTTACACTCGACATGTGCGCTTCAGGGTCATTGTGTATGACAAT
** * *
7015753 GCCATGACTCGGGTTCTTGATCAAAGGGGCGTAAACATTTTCATCATCATCCACACCTTCGTCAT
131 GCCACAACCCGGGTTCTTGATCAAAGGGGCGTAAACATTTTCATCATAATCCACACCTTCGTCAT
7015818 CGATATCATCTGGGACCTAAAATCTTCACCC
196 CGATATCA-CTGGGACCTAAAATCTTCACCC
* * * *
7015849 TCAAGAAGGCTCGATATGCCGCCAATCAATGAGCAAATATTATATTAGGGTACTTGGGGAACTCG
1 TCAAGAAGGCTCAATATACCGCCAATCAATGAGAAAATATTATATTAGGGTACTCGGGGAACTCG
7015914 AACACATGCGACACATCAAGATTTACACTCGACATGTGCGCTTCAGGGTCATTGTGTATGACAAT
66 AACACATGCGACACATCAAGATTTACACTCGACATGTGCGCTTCAGGGTCATTGTGTATGACAAT
*
7015979 GCCACAACCCGGGTTCTTGATCAAAGGGGCGTAAACATTTTCATCATAATCCACACCTTCGTCGT
131 GCCACAACCCGGGTTCTTGATCAAAGGGGCGTAAACATTTTCATCATAATCCACACCTTCGTCAT
*
7016044 TGATATCACTGGGACCTAAAATCTTCACCC
196 CGATATCACTGGGACCTAAAATCTTCACCC
7016074 TCA
1 TCA
7016077 TTATCAAAAT
Statistics
Matches: 211, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
225 25 0.12
226 186 0.88
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (225 bp):
TCAAGAAGGCTCAATATACCGCCAATCAATGAGAAAATATTATATTAGGGTACTCGGGGAACTCG
AACACATGCGACACATCAAGATTTACACTCGACATGTGCGCTTCAGGGTCATTGTGTATGACAAT
GCCACAACCCGGGTTCTTGATCAAAGGGGCGTAAACATTTTCATCATAATCCACACCTTCGTCAT
CGATATCACTGGGACCTAAAATCTTCACCC
Found at i:7017242 original size:50 final size:54
Alignment explanation
Indices: 7017112--7017260 Score: 207
Period size: 50 Copynumber: 2.8 Consensus size: 54
7017102 ATTTGGGTAA
* *
7017112 AGAGATCCCATGTAAGACCATGTCTGGGACATTGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGATCA-G
* *
7017168 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGA-C-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAG
*
7017218 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
7017261 GTTATGATCA
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
50 41 0.48
52 1 0.01
53 4 0.05
55 2 0.02
56 38 0.44
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (54 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGATCAG
Found at i:7019684 original size:5 final size:5
Alignment explanation
Indices: 7019676--7019726 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
7019666 ATATATATTA
*
7019676 TATAT TATAT TAT-T TA-AT TAATAAGT AATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT T-AT-A-T TATAT TATAT TATAT TATAT
7019722 TATAT
1 TATAT
7019727 AAAACAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 5 0.13
5 29 0.74
6 1 0.03
7 3 0.08
8 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:7020891 original size:22 final size:24
Alignment explanation
Indices: 7020786--7020890 Score: 115
Period size: 25 Copynumber: 4.3 Consensus size: 24
7020776 ACTTTAGCGC
*
7020786 GCTCTCTGATTTTTAGCACGTTAGT
1 GCTCTCTGA-TATTAGCACGTTAGT
*
7020811 GCTCTCTGACTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTAGT
* * *
7020836 GCTCTTTGATATTTAGCATGTCAGT
1 GCTCTCTGATA-TTAGCACGTTAGT
*
7020861 GCTCTCTG-TA-TAGCACTTTAGT
1 GCTCTCTGATATTAGCACGTTAGT
7020883 GCTCTCTG
1 GCTCTCTG
7020891 TTCATTAGTG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.25
24 4 0.06
25 47 0.69
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTAGT
Found at i:7026625 original size:12 final size:12
Alignment explanation
Indices: 7026608--7026632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7026598 ATATTCTTTT
7026608 ATAAAATAAAAA
1 ATAAAATAAAAA
7026620 ATAAAATAAAAA
1 ATAAAATAAAAA
7026632 A
1 A
7026633 GGACCCGAAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:7032046 original size:23 final size:23
Alignment explanation
Indices: 7032014--7032059 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7032004 TTCTTACATT
*
7032014 GTAAATCGTTAAAAATATTGGTA
1 GTAAACCGTTAAAAATATTGGTA
*
7032037 GTAAACCGTTAGAAATATTGGTA
1 GTAAACCGTTAAAAATATTGGTA
7032060 AATCGTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (23 bp):
GTAAACCGTTAAAAATATTGGTA
Found at i:7032066 original size:20 final size:20
Alignment explanation
Indices: 7032014--7032081 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
7032004 TTCTTACATT
*
7032014 GTAAATCGTTAAAAATATTGG
1 GTAAATCGTTAGAAATATT-G
*
7032035 TAGTAAACCGTTAGAAATATTG
1 --GTAAATCGTTAGAAATATTG
* *
7032057 GTAAATCGTTAGATATTTTG
1 GTAAATCGTTAGAAATATTG
7032077 GTAAA
1 GTAAA
7032082 AGCTTTTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 22 0.55
22 1 0.03
23 17 0.43
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (20 bp):
GTAAATCGTTAGAAATATTG
Found at i:7036393 original size:2 final size:2
Alignment explanation
Indices: 7036386--7036412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7036376 TTTTTCTTTT
7036386 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
7036413 TTTCTCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7036698 original size:16 final size:15
Alignment explanation
Indices: 7036654--7036699 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
7036644 GAAAGATTTG
*
7036654 AAAAAAAAATAGATA
1 AAAAAAAAATAAATA
7036669 AAAGAAAAAA-AAATA
1 AAA-AAAAAATAAATA
7036684 AAAATAAAAATAAATA
1 AAAA-AAAAATAAATA
7036700 GATAGGCTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.04
15 15 0.56
16 11 0.41
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAAAAATAAATA
Found at i:7036974 original size:19 final size:19
Alignment explanation
Indices: 7036950--7036988 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7036940 TATGTATATA
*
7036950 ATCGAAACTAAATTAAAAT
1 ATCGAAACCAAATTAAAAT
*
7036969 ATCGAACCCAAATTAAAAT
1 ATCGAAACCAAATTAAAAT
7036988 A
1 A
7036989 ATTTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (19 bp):
ATCGAAACCAAATTAAAAT
Found at i:7037304 original size:22 final size:22
Alignment explanation
Indices: 7037279--7037324 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7037269 TTCTTTTATG
*
7037279 CTTTTTTAACTT-TCTTTTTTTT
1 CTTTTTTAA-TTCTCTTTTGTTT
*
7037301 CTTTTTTCATTCTCTTTTGTTT
1 CTTTTTTAATTCTCTTTTGTTT
7037323 CT
1 CT
7037325 CCCTCTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (22 bp):
CTTTTTTAATTCTCTTTTGTTT
Found at i:7044980 original size:21 final size:20
Alignment explanation
Indices: 7044954--7045010 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
7044944 ATTTGGTAGA
7044954 AAAACATATATGAACATATTT
1 AAAACA-ATATGAACATATTT
7044975 AAAACAAGATAT-AACATATTT
1 AAAAC-A-ATATGAACATATTT
*
7044996 AAAACACTATGAACA
1 AAAACAATATGAACA
7045011 CATACAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 19 0.59
22 5 0.16
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAACAATATGAACATATTT
Found at i:7044986 original size:22 final size:21
Alignment explanation
Indices: 7044961--7045001 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
7044951 AGAAAAACAT
7044961 ATATGAACATATTTAAAACAAG
1 ATAT-AACATATTTAAAACAAG
7044983 ATATAACATATTTAAAACA
1 ATATAACATATTTAAAACA
7045002 CTATGAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (21 bp):
ATATAACATATTTAAAACAAG
Found at i:7045206 original size:4 final size:4
Alignment explanation
Indices: 7045197--7045224 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7045187 CAACTTTGCT
7045197 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
7045225 TACTCTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:7049657 original size:13 final size:13
Alignment explanation
Indices: 7049639--7049697 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
7049629 TTCAATATCG
7049639 ATAATTTTAAAAT
1 ATAATTTTAAAAT
*
7049652 ATAATTTAAATAAT
1 ATAATTTTAA-AAT
*
7049666 TTAAATTTTAAAA-
1 AT-AATTTTAAAAT
7049679 ACTAA-TTTAAAAT
1 A-TAATTTTAAAAT
7049692 AATAAT
1 -ATAAT
7049698 CATAATTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
12 7 0.19
13 14 0.39
14 8 0.22
15 7 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATTTTAAAAT
Found at i:7054919 original size:5 final size:5
Alignment explanation
Indices: 7054909--7054941 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
7054899 TGAGTTGGGC
*
7054909 TGGTA TGGTA TGGTA TGGTA TGGTA TGGAA TGG
1 TGGTA TGGTA TGGTA TGGTA TGGTA TGGTA TGG
7054942 CTAATTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.36
Consensus pattern (5 bp):
TGGTA
Found at i:7056900 original size:50 final size:50
Alignment explanation
Indices: 7056742--7056893 Score: 191
Period size: 50 Copynumber: 3.1 Consensus size: 50
7056732 TACTAAATAG
* *
7056742 GCTTCCATCAAATCA--TAAAGAGACTTGTTTTATCATTTCAGTTATCAG
1 GCTTCCATCAAATCATGTAAAGAGACTTGTTTTATCATTTCAGTCATCAA
* * * * *
7056790 GCTTCCATCAACTCATGCAAACAGACTTGTTTTATCATTTCAGTCGTTAA
1 GCTTCCATCAAATCATGTAAAGAGACTTGTTTTATCATTTCAGTCATCAA
* * * *
7056840 ACTTCCATCAAATCATGTAGAGAGACTTGTTTTATCATCTCAGCCATCAA
1 GCTTCCATCAAATCATGTAAAGAGACTTGTTTTATCATTTCAGTCATCAA
7056890 GCTT
1 GCTT
7056894 TTATCAACTC
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
48 14 0.16
50 71 0.84
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (50 bp):
GCTTCCATCAAATCATGTAAAGAGACTTGTTTTATCATTTCAGTCATCAA
Found at i:7056912 original size:50 final size:50
Alignment explanation
Indices: 7056742--7056912 Score: 177
Period size: 50 Copynumber: 3.5 Consensus size: 50
7056732 TACTAAATAG
* * * *
7056742 GCTTCCATCAAATCA-T-AAAGAGACTTGTTTTATCATTTCAGTTATCAG
1 GCTTCCATCAACTCATTCAGAGAGACTTGTTTTATCATTTCAGTCATCAA
* * * * *
7056790 GCTTCCATCAACTCATGCAAACAGACTTGTTTTATCATTTCAGTCGTTAA
1 GCTTCCATCAACTCATTCAGAGAGACTTGTTTTATCATTTCAGTCATCAA
* * * *
7056840 ACTTCCATCAAATCATGT-AGAGAGACTTGTTTTATCATCTCAGCCATCAA
1 GCTTCCATCAACTCAT-TCAGAGAGACTTGTTTTATCATTTCAGTCATCAA
**
7056890 GCTTTTATCAACTCATTCAGAGA
1 GCTTCCATCAACTCATTCAGAGA
7056913 CTTATTTTGT
Statistics
Matches: 99, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
48 14 0.14
49 1 0.01
50 84 0.85
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (50 bp):
GCTTCCATCAACTCATTCAGAGAGACTTGTTTTATCATTTCAGTCATCAA
Found at i:7061038 original size:23 final size:22
Alignment explanation
Indices: 7060995--7061038 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
7060985 TTCTAAGTCG
7060995 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
7061018 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
7061039 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:7061147 original size:45 final size:45
Alignment explanation
Indices: 7061083--7061176 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
7061073 AACAGATACT
* *
7061083 CGGTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
7061128 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
7061173 CGGT
1 CGGT
7061177 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:7062800 original size:23 final size:23
Alignment explanation
Indices: 7062767--7062814 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
7062757 ATAAGTGCCA
* *
7062767 CACTGATATGTAGTCAAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
*
7062790 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCAAAGCTAC
7062813 CA
1 CA
7062815 TTGATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCAAAGCTAC
Found at i:7063071 original size:18 final size:17
Alignment explanation
Indices: 7063045--7063083 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7063035 ATTTTCCTTC
7063045 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
7063062 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
7063080 CACA
1 CACA
7063084 ATTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:7065709 original size:33 final size:33
Alignment explanation
Indices: 7065644--7065711 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
7065634 GTTTAATTAG
* * **
7065644 AAACTTTTATCATACTTTTTATCAAAAAAAAAA
1 AAACTTTTACCATACTTTATAAAAAAAAAAAAA
*
7065677 AAACTTTTACCATAC-TTATAAAAAAAATAAAA
1 AAACTTTTACCATACTTTATAAAAAAAAAAAAA
7065709 AAA
1 AAA
7065712 TTATCATGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (33 bp):
AAACTTTTACCATACTTTATAAAAAAAAAAAAA
Found at i:7066302 original size:19 final size:19
Alignment explanation
Indices: 7066256--7066292 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7066246 AAAATCAAAA
7066256 AAATATTATAAAAATGTTT
1 AAATATTATAAAAATGTTT
*
7066275 AAATATTATAAAAGTGTT
1 AAATATTATAAAAATGTT
7066293 ATATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATATTATAAAAATGTTT
Found at i:7089382 original size:18 final size:18
Alignment explanation
Indices: 7089348--7089386 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7089338 ATTTTCCTTC
*
7089348 CACATTCATATATTAATT
1 CACATTCAAATATTAATT
7089366 CACATATCAAATA-TAATT
1 CACAT-TCAAATATTAATT
7089384 CAC
1 CAC
7089387 TGAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (18 bp):
CACATTCAAATATTAATT
Found at i:7098187 original size:15 final size:16
Alignment explanation
Indices: 7098167--7098198 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7098157 TTCCATCTTT
7098167 AATATGAAGAT-TATC
1 AATATGAAGATGTATC
7098182 AATATGAAGATGTATC
1 AATATGAAGATGTATC
7098198 A
1 A
7098199 TCTGTAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (16 bp):
AATATGAAGATGTATC
Found at i:7146020 original size:16 final size:16
Alignment explanation
Indices: 7145999--7146030 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7145989 TAAAATATAG
7145999 AAATTAGTAGATGAAA
1 AAATTAGTAGATGAAA
*
7146015 AAATTAGTAGTTGAAA
1 AAATTAGTAGATGAAA
7146031 CTGATTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (16 bp):
AAATTAGTAGATGAAA
Found at i:7147662 original size:3 final size:3
Alignment explanation
Indices: 7147654--7147696 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7147644 TTATATTAGT
7147654 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7147697 AAAGGCTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7154210 original size:25 final size:26
Alignment explanation
Indices: 7154182--7154233 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
7154172 TTTTCATTAT
7154182 TATTTTTGAAA-AGTG-TTTGAAAAAA
1 TATTTTT-AAATAGTGATTTGAAAAAA
*
7154207 TATTTTTAAATAGTGATTTTAAAAAA
1 TATTTTTAAATAGTGATTTGAAAAAA
7154233 T
1 T
7154234 TTAGTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 3 0.12
25 11 0.46
26 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (26 bp):
TATTTTTAAATAGTGATTTGAAAAAA
Found at i:7158163 original size:38 final size:37
Alignment explanation
Indices: 7158112--7158184 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 37
7158102 TCATAAGTTT
*
7158112 AGTAATTCATTTGTTGTGTATTTCCCGGTTGGTGTCAA
1 AGTAATTCATTTGTTGTGTATTT-CCGGTTAGTGTCAA
7158150 AGTAATTCATTTGTTGTGTATTTCCGGTTAGTGTC
1 AGTAATTCATTTGTTGTGTATTTCCGGTTAGTGTC
7158185 TGTCTCTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 11 0.32
38 23 0.68
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (37 bp):
AGTAATTCATTTGTTGTGTATTTCCGGTTAGTGTCAA
Found at i:7159206 original size:22 final size:22
Alignment explanation
Indices: 7159181--7159223 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7159171 TATCTAAAAA
7159181 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* *
7159203 ATAATAACAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
7159224 AACAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:7159233 original size:22 final size:22
Alignment explanation
Indices: 7159186--7159233 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
7159176 AAAAAATAAC
* * *
7159186 AACAAAATAGTAGCAATATAAT
1 AACAAAATAGTAGCAAAACAAA
*
7159208 AACAAAATGGTAGCAAAACAAA
1 AACAAAATAGTAGCAAAACAAA
7159230 AACA
1 AACA
7159234 TAACAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (22 bp):
AACAAAATAGTAGCAAAACAAA
Found at i:7166193 original size:15 final size:14
Alignment explanation
Indices: 7166172--7166207 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
7166162 ATAATCTTTA
*
7166172 ATAATTATCTTAAT
1 ATAATTATCCTAAT
7166186 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
7166201 ATAATTA
1 ATAATTA
7166208 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:7167053 original size:48 final size:46
Alignment explanation
Indices: 7167000--7167103 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 46
7166990 ATAGTGTTTG
* *
7167000 GTTACCTGTTTGGGTTAAACCTACACGAATAATGAATTATAGTGCCTA
1 GTTACCTGTTCGGGTTAAACCTACACGAAT--TGAATAATAGTGCCTA
* *
7167048 GTTACCCT-TCCGGGTTAAACCTACACGAATTGAATAATAGTGCCTG
1 GTTA-CCTGTTCGGGTTAAACCTACACGAATTGAATAATAGTGCCTA
*
7167094 GTCACCTGTT
1 GTTACCTGTT
7167104 ATGTAACGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
45 3 0.06
46 18 0.38
48 24 0.50
49 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (46 bp):
GTTACCTGTTCGGGTTAAACCTACACGAATTGAATAATAGTGCCTA
Found at i:7168547 original size:75 final size:75
Alignment explanation
Indices: 7168379--7168559 Score: 202
Period size: 75 Copynumber: 2.4 Consensus size: 75
7168369 CTATAGAGGA
* * * * * * *
7168379 GTTTGCGCCCAACGCTAGTCGGGTTAACCGA-CAGTATTGAATGTGATCCCAACTCTCGTTGGAT
1 GTTTGCGCCCAACACTAGTCGGATAAACCGATGA-TATTAAATGTGAGCCCAACTCTAGTTGGAT
7168443 AAACCAACAAT
65 AAACCAACAAT
* * *
7168454 GTTTGTGCCCAACACTAGTCGGATATACCGATGATATTAAATGTGAGCCCAACTCTAGTTGGATG
1 GTTTGCGCCCAACACTAGTCGGATAAACCGATGATATTAAATGTGAGCCCAACTCTAGTTGGATA
*
7168519 AACCAACAGT
66 AACCAACAAT
* * ***
7168529 GTTTGCGTCTAGTGCTAGTCGGATAAACCGA
1 GTTTGCGCCCAACACTAGTCGGATAAACCGA
7168560 CGATTGTGTG
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
75 86 0.99
76 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (75 bp):
GTTTGCGCCCAACACTAGTCGGATAAACCGATGATATTAAATGTGAGCCCAACTCTAGTTGGATA
AACCAACAAT
Found at i:7171577 original size:6 final size:6
Alignment explanation
Indices: 7171566--7171596 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
7171556 TAAGATTCAA
7171566 AATATC AATATC AATATC AATATC AATATC A
1 AATATC AATATC AATATC AATATC AATATC A
7171597 TAATAACGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATC
Found at i:7172965 original size:134 final size:132
Alignment explanation
Indices: 7172820--7173088 Score: 457
Period size: 134 Copynumber: 2.0 Consensus size: 132
7172810 CTATATATAT
*
7172820 ACAAAAAATATATATATTTACATTCTCAATGTCATGCTCATACTATCTACTATACAATTCCGACA
1 ACAAAAAATATATATACTTACATTCTCAATGTCATGCTCATACTATCTACTATACAATTCCGACA
* ** *
7172885 ACTCGAACAAGTTCCATGATTTCTCAACCAGTTATCTATGCAACTAAAATGAAAAACATGTTCGG
66 AATCGAACAAGTTAAATGATTTCTCAACCAGTTATCTATGCAACTAAAATGAAAAACATGTTCGC
7172950 AA
131 AA
7172952 ACAAAAAGTATATATATACTTACATTCTCAATGTCATGCTCATACTATCTACTATACAATTCCGA
1 ACAAAAA--ATATATATACTTACATTCTCAATGTCATGCTCATACTATCTACTATACAATTCCGA
* *
7173017 CAAATCGGACAAGTTAAATGTTTTCTCAACCAGTTATCTATGCAACTAAAATGAAAAACATGTTC
64 CAAATCGAACAAGTTAAATGATTTCTCAACCAGTTATCTATGCAACTAAAATGAAAAACATGTTC
7173082 GCAA
129 GCAA
7173086 ACA
1 ACA
7173089 GGGAAAACCC
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
132 7 0.05
134 121 0.95
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (132 bp):
ACAAAAAATATATATACTTACATTCTCAATGTCATGCTCATACTATCTACTATACAATTCCGACA
AATCGAACAAGTTAAATGATTTCTCAACCAGTTATCTATGCAACTAAAATGAAAAACATGTTCGC
AA
Found at i:7177418 original size:34 final size:35
Alignment explanation
Indices: 7177344--7177419 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 35
7177334 CACCAAAAAT
7177344 TTAT-TTTTAAAATAAAAAATAAAAAAGTATTTTA
1 TTATATTTTAAAATAAAAAATAAAAAAGTATTTTA
** *
7177378 AAATATTTTAAAATAAAAAA-AATAAA-TATATTTA
1 TTATATTTTAAAATAAAAAATAAAAAAGTAT-TTTA
7177412 TTATATTT
1 TTATATTT
7177420 GGGCCGGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.09
34 17 0.49
35 15 0.43
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (35 bp):
TTATATTTTAAAATAAAAAATAAAAAAGTATTTTA
Found at i:7177731 original size:31 final size:31
Alignment explanation
Indices: 7177685--7177757 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
7177675 GAAAATTTTT
*
7177685 AAATGTTATAAAATTTTTAGAAAAATATAGA
1 AAATATTATAAAATTTTTAGAAAAATATAGA
* * *
7177716 AAATATTATACAATTTTTTGAAAAATAT-CA
1 AAATATTATAAAATTTTTAGAAAAATATAGA
7177746 AAA-ATTATAAAA
1 AAATATTATAAAA
7177758 AAGCATAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.22
30 4 0.11
31 25 0.68
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (31 bp):
AAATATTATAAAATTTTTAGAAAAATATAGA
Found at i:7182571 original size:17 final size:17
Alignment explanation
Indices: 7182549--7182581 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7182539 AAAATTGCAT
*
7182549 ATTCTTCTTTTGGTTTG
1 ATTCTTCTTTAGGTTTG
7182566 ATTCTTCTTTAGGTTT
1 ATTCTTCTTTAGGTTT
7182582 TCAAGCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.12, G:0.15, T:0.64
Consensus pattern (17 bp):
ATTCTTCTTTAGGTTTG
Found at i:7192382 original size:3 final size:3
Alignment explanation
Indices: 7192374--7192399 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7192364 CATGATCAAG
7192374 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
7192400 TAATAATAAT
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7192404 original size:3 final size:3
Alignment explanation
Indices: 7192398--7192430 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7192388 CAACAACAAC
7192398 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7192431 GAAAAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7192783 original size:36 final size:36
Alignment explanation
Indices: 7192743--7192818 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
7192733 TGAAACATAG
*
7192743 AAAATATATAAAAGTATGT-GTATATATATAT-TTATA
1 AAAAT-TA-AAAAATATGTAGTATATATATATATTATA
* *
7192779 AAAATTAAAAAATGTGTACGTATATGTATATATTATA
1 AAAATTAAAAAATATGTA-GTATATATATATATTATA
7192816 AAA
1 AAA
7192819 CGTATGTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 8 0.24
35 2 0.06
36 16 0.47
37 8 0.24
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
AAAATTAAAAAATATGTAGTATATATATATATTATA
Found at i:7200240 original size:13 final size:13
Alignment explanation
Indices: 7200222--7200248 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7200212 TTTCGGTTTA
7200222 ATTTAAACAATAT
1 ATTTAAACAATAT
7200235 ATTTAAACAATAT
1 ATTTAAACAATAT
7200248 A
1 A
7200249 GTTGTTATTA
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:7200499 original size:97 final size:97
Alignment explanation
Indices: 7200333--7200568 Score: 436
Period size: 97 Copynumber: 2.4 Consensus size: 97
7200323 TTGAAGTATG
* * *
7200333 TATAAACAATCAATCAAGTTCCAATTTTGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTA
7200398 CATATTTTAATTAAAATATAATTCAGTACTTA
66 CATATTTTAATTAAAATATAATTCAGTACTTA
7200430 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTA
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTA
*
7200495 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCAGTACTTA
7200527 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
7200569 TGTTATTAAA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 135 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.38
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTA
CATATTTTAATTAAAATATAATTCAGTACTTA
Found at i:7200641 original size:23 final size:23
Alignment explanation
Indices: 7200606--7200650 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7200596 CCTTATTTAA
**
7200606 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
7200629 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
7200651 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:7203784 original size:29 final size:28
Alignment explanation
Indices: 7203751--7203837 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
7203741 TCATAAGAAC
7203751 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
7203780 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
7203804 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
7203834 ATTT
1 ATTT
7203838 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:7203941 original size:16 final size:16
Alignment explanation
Indices: 7203920--7203961 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7203910 TTATTAAATT
*
7203920 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7203936 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7203951 AT-TATGTTTAA
1 ATATAT-TTTAA
7203962 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7203946 original size:15 final size:15
Alignment explanation
Indices: 7203911--7203952 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7203901 TTAAGAATTT
*
7203911 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7203925 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7203939 TATTTAATAATAAT
1 TATTTAATTATAAT
7203953 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7204062 original size:156 final size:156
Alignment explanation
Indices: 7203896--7204198 Score: 545
Period size: 156 Copynumber: 1.9 Consensus size: 156
7203886 TAAGAATATG
*
7203896 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
* * *
7203961 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAT
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATT-AAATTTAAATAACAATAACAAT
7204026 AATAATTTACCAAAACAAATTTCTGTT
130 AATAATTTACCAAAACAAATTTCTGTT
7204053 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
7204117 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAATTTAAATAACAATAACAATA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAATTTAAATAACAATAACAATA
*
7204182 ATCATTTACCAAAACAA
131 ATAATTTACCAAAACAA
7204199 TTTTATGCTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
155 39 0.28
156 97 0.69
157 5 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGTT
Found at i:7204089 original size:18 final size:17
Alignment explanation
Indices: 7204063--7204097 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7204053 AATTATAAGA
*
7204063 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7204080 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7204098 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7204356 original size:16 final size:16
Alignment explanation
Indices: 7204332--7204367 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7204322 GATTTGCTAT
*
7204332 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7204348 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
7204364 TACA
1 TACA
7204368 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7208110 original size:3 final size:3
Alignment explanation
Indices: 7208102--7208131 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7208092 TTTAATAAAT
7208102 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7208132 CATATCATTG
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:7208251 original size:6 final size:6
Alignment explanation
Indices: 7208242--7208274 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
7208232 TATATATGTA
*
7208242 TATATG TATATG AATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
7208275 TCTTTTTCTA
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:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (6 bp):
TATATG
Found at i:7208338 original size:16 final size:16
Alignment explanation
Indices: 7208317--7208352 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7208307 TACTTTTTTT
7208317 TATATATGTATATCTA
1 TATATATGTATATCTA
*
7208333 TATATATGTATATGTA
1 TATATATGTATATCTA
7208349 TATA
1 TATA
7208353 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:7208497 original size:19 final size:17
Alignment explanation
Indices: 7208475--7208512 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
7208465 TCACATGCAC
7208475 ATTTATATATATATTATAT
1 ATTTATATA-ATATT-TAT
7208494 ATTTATATAATATTTAT
1 ATTTATATAATATTTAT
7208511 AT
1 AT
7208513 GTATTTGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATATAATATTTAT
Found at i:7210261 original size:19 final size:21
Alignment explanation
Indices: 7210220--7210261 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
7210210 CATTGAAATA
* *
7210220 AAGAGAAAAAACAGAGTGAGG
1 AAGAGAAAAAACAAAGAGAGG
7210241 AAGA-AAAAAACAAAGAG-GG
1 AAGAGAAAAAACAAAGAGAGG
7210260 AA
1 AA
7210262 TTTTGTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (21 bp):
AAGAGAAAAAACAAAGAGAGG
Found at i:7210632 original size:12 final size:12
Alignment explanation
Indices: 7210615--7210639 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7210605 GAGGAATTGG
7210615 CAATCGTCATGC
1 CAATCGTCATGC
7210627 CAATCGTCATGC
1 CAATCGTCATGC
7210639 C
1 C
7210640 TAGCATTATT
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (12 bp):
CAATCGTCATGC
Found at i:7214648 original size:87 final size:86
Alignment explanation
Indices: 7214478--7214648 Score: 184
Period size: 87 Copynumber: 2.0 Consensus size: 86
7214468 GGATGAGCTC
* * *
7214478 CTTACTCTTAATGAGTTCATAGCCCAGAGTTTGCGTGGTCTTAGTAAGATGAACTTGATGAATTC
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTA-TAAGACGAACTTGATGAATTC
* * *
7214543 ACCAACGTGTGAAGTTGAGTTT
65 ACCAACGTATAAAATTGAGTTT
* * * * *
7214565 CTTACTCTTAATGAATTCATATCCAATAGTTTGGGTGGTTCTGT-TGAGACGGACTTGATGAATT
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGG-TCT-TATAAGACGAACTTGATGAATT
*
7214629 CACCGAA-TTATAAAATTGAG
64 CACC-AACGTATAAAATTGAG
7214649 AGGTTAAGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
87 63 0.91
88 5 0.07
89 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (86 bp):
CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTATAAGACGAACTTGATGAATTCA
CCAACGTATAAAATTGAGTTT
Found at i:7216260 original size:18 final size:18
Alignment explanation
Indices: 7216239--7216273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7216229 TAAGGATGAT
7216239 GATTGAGATTTGGATAAA
1 GATTGAGATTTGGATAAA
* *
7216257 GATTGTGTTTTGGATAA
1 GATTGAGATTTGGATAA
7216274 GAATGATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (18 bp):
GATTGAGATTTGGATAAA
Found at i:7228165 original size:19 final size:21
Alignment explanation
Indices: 7228124--7228165 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
7228114 CATTGAAATA
* *
7228124 AAGAGAAAAAACAGAGTGAGG
1 AAGAGAAAAAACAAAGAGAGG
7228145 AAGA-AAAAAACAAAGAG-GG
1 AAGAGAAAAAACAAAGAGAGG
7228164 AA
1 AA
7228166 TTTTGTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (21 bp):
AAGAGAAAAAACAAAGAGAGG
Found at i:7233665 original size:87 final size:86
Alignment explanation
Indices: 7233495--7233665 Score: 184
Period size: 87 Copynumber: 2.0 Consensus size: 86
7233485 GGATGAGCTC
* * *
7233495 CTTACTCTTAATGAGTTCATAGCCCAGAGTTTGCGTGGTCTTAGTAAGATGAACTTGATGAATTC
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTA-TAAGACGAACTTGATGAATTC
* * *
7233560 ACCAACGTGTGAAGTTGAGTTT
65 ACCAACGTATAAAATTGAGTTT
* * * * *
7233582 CTTACTCTTAATGAATTCATATCCAATAGTTTGGGTGGTTCTGT-TGAGACGGACTTGATGAATT
1 CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGG-TCT-TATAAGACGAACTTGATGAATT
*
7233646 CACCGAA-TTATAAAATTGAG
64 CACC-AACGTATAAAATTGAG
7233666 AGGTTAAGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
87 63 0.91
88 5 0.07
89 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (86 bp):
CTTACTCTTAATGAATTCATAGCCAAGAGTTTGCGTGGTCTTATAAGACGAACTTGATGAATTCA
CCAACGTATAAAATTGAGTTT
Found at i:7242177 original size:22 final size:23
Alignment explanation
Indices: 7242151--7242193 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7242141 GTAAGCTGAA
* *
7242151 GTTAGTTAGTTAG-TTGTTAGCT
1 GTTAGTAAGTCAGTTTGTTAGCT
7242173 GTTAGTAAGTCAGTTTGTTAG
1 GTTAGTAAGTCAGTTTGTTAG
7242194 TTATAAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (23 bp):
GTTAGTAAGTCAGTTTGTTAGCT
Found at i:7261795 original size:14 final size:14
Alignment explanation
Indices: 7261776--7261806 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7261766 AAGTCTTGGT
7261776 ATCCTGCCCAAGCC
1 ATCCTGCCCAAGCC
*
7261790 ATCCTGCCGAAGCC
1 ATCCTGCCCAAGCC
7261804 ATC
1 ATC
7261807 TCTAATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (14 bp):
ATCCTGCCCAAGCC
Found at i:7264185 original size:14 final size:14
Alignment explanation
Indices: 7264166--7264196 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7264156 AAGTCTTGGT
7264166 ATCCTGCCCAAGCC
1 ATCCTGCCCAAGCC
*
7264180 ATCCTGCCGAAGCC
1 ATCCTGCCCAAGCC
7264194 ATC
1 ATC
7264197 TCTAATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (14 bp):
ATCCTGCCCAAGCC
Found at i:7286846 original size:26 final size:25
Alignment explanation
Indices: 7286817--7286865 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
7286807 CGCCGATAAT
*
7286817 GAAATCTGCACTATAGCACGATGTCA
1 GAAATCTGCACTAT-GAACGATGTCA
* *
7286843 GAAATTTGCAGTATGAACGATGT
1 GAAATCTGCACTATGAACGATGT
7286866 AATTCTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
GAAATCTGCACTATGAACGATGTCA
Found at i:7287078 original size:12 final size:12
Alignment explanation
Indices: 7287061--7287088 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7287051 AATCAAAGTC
7287061 AAAATGAAAATG
1 AAAATGAAAATG
7287073 AAAATGAAAATG
1 AAAATGAAAATG
7287085 AAAA
1 AAAA
7287089 AAATCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:7287104 original size:22 final size:22
Alignment explanation
Indices: 7287073--7287120 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7287063 AATGAAAATG
* * *
7287073 AAAATGAAAATGAAAAAAATCA
1 AAAATCAAAATAAAAAAAAACA
7287095 AAAATCAAAATAAAAAAAAACA
1 AAAATCAAAATAAAAAAAAACA
7287117 AAAA
1 AAAA
7287121 GAAGAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAATCAAAATAAAAAAAAACA
Found at i:7288117 original size:16 final size:17
Alignment explanation
Indices: 7288096--7288130 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7288086 CCGAGTCAAC
*
7288096 AAAAAATG-AGAATGAA
1 AAAAAATGAAAAATGAA
7288112 AAAAAATGAAAAATGAA
1 AAAAAATGAAAAATGAA
7288129 AA
1 AA
7288131 TGAAAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAATGAA
Found at i:7288130 original size:13 final size:13
Alignment explanation
Indices: 7288097--7288139 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
7288087 CGAGTCAACA
*
7288097 AAAAATGAGAATG
1 AAAAATGAAAATG
7288110 -AAAA--AAAATG
1 AAAAATGAAAATG
7288120 AAAAATGAAAATG
1 AAAAATGAAAATG
7288133 AAAAATG
1 AAAAATG
7288140 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 4 0.15
13 13 0.50
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:7289309 original size:4 final size:4
Alignment explanation
Indices: 7289302--7289328 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7289292 GAAAAGGTAA
7289302 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
7289329 AATATATAAA
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:7289341 original size:12 final size:12
Alignment explanation
Indices: 7289300--7289343 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
7289290 AAGAAAAGGT
7289300 AAAAATAAATAA
1 AAAAATAAATAA
*
7289312 ATAAATAAATAAA
1 AAAAATAAAT-AA
*
7289325 TAAAAATATATAA
1 -AAAAATAAATAA
7289338 AAAAAT
1 AAAAAT
7289344 CGAGACCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.56
13 4 0.15
14 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:7289696 original size:70 final size:70
Alignment explanation
Indices: 7289582--7289736 Score: 247
Period size: 70 Copynumber: 2.2 Consensus size: 70
7289572 GTAATTCTTA
* * * *
7289582 CTCCTTGATTTCAGCCTTAAATGTTGCATGTTGTTGGCCGAATGGGTGCTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
7289647 GCAGC
66 GCAGC
* * *
7289652 TTCCTTAATTTCAGCCTTAACTGATGCATGTTGTTGACCAAATGGGTGTTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
7289717 GCAGC
66 GCAGC
7289722 CTCCTTAATTTCAGC
1 CTCCTTAATTTCAGC
7289737 ATGAATTCAA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 77 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (70 bp):
CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
GCAGC
Found at i:7293018 original size:7 final size:7
Alignment explanation
Indices: 7293006--7293045 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
7292996 GGAGAATGAA
7293006 AAAAATG
1 AAAAATG
7293013 AAAAATG
1 AAAAATG
7293020 -AAAATG
1 AAAAATG
7293026 AAAAATG
1 AAAAATG
7293033 -AAAATG
1 AAAAATG
7293039 AAAAATG
1 AAAAATG
7293046 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:7293023 original size:6 final size:6
Alignment explanation
Indices: 7293007--7293042 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
7292997 GAGAATGAAA
7293007 AAAATG AAAAATG AAAATG AAAAATG AAAATG AAAA
1 AAAATG -AAAATG AAAATG -AAAATG AAAATG AAAA
7293043 ATGGAGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:7293023 original size:13 final size:13
Alignment explanation
Indices: 7293007--7293045 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
7292997 GAGAATGAAA
7293007 AAAATGAAAAATG
1 AAAATGAAAAATG
7293020 AAAATGAAAAATG
1 AAAATGAAAAATG
7293033 AAAATGAAAAATG
1 AAAATGAAAAATG
7293046 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:7294599 original size:70 final size:70
Alignment explanation
Indices: 7294485--7294639 Score: 240
Period size: 70 Copynumber: 2.2 Consensus size: 70
7294475 GTAATTCTTG
* * * *
7294485 CTCCTTGATTTTAGCCTTAAATGTTGCATGTTGTTGGCCAAATGGGTGCTTGAAAATACCAACCA
1 CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
7294550 GCAGC
66 GCAGC
* *
7294555 TTCCTTAATTTCAGCCTTAAATGATGCATGCTT-TTGACCAAATGGGTGTTTGAAAATACCAACC
1 CTCCTTAATTTCAGCCTTAAATGATGCATG-TTGTTGACCAAATGGGTGCTTGAAAATACCAACC
7294619 AGCAGC
65 AGCAGC
7294625 CTCCTTAATTTCAGC
1 CTCCTTAATTTCAGC
7294640 ATGAATTCAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
70 75 0.97
71 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (70 bp):
CTCCTTAATTTCAGCCTTAAATGATGCATGTTGTTGACCAAATGGGTGCTTGAAAATACCAACCA
GCAGC
Found at i:7300373 original size:70 final size:70
Alignment explanation
Indices: 7300260--7300407 Score: 242
Period size: 70 Copynumber: 2.1 Consensus size: 70
7300250 TTGAATTCAT
* * * * *
7300260 GCTGAAATTAAGGAGGCTGCTGGTTGGTATTTTCAAACACCCATTTGGTCAACAACATGCATCAT
1 GCTGAAATTAAAGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
7300325 TTAAG
66 TTAAG
*
7300330 GCTGAAATTAAAGAAGCTGCTGGTTGGTATTTTCAAGCACCCATTCGGCCAACAACATGCAACAT
1 GCTGAAATTAAAGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
7300395 TTAAG
66 TTAAG
7300400 GCTGAAAT
1 GCTGAAAT
7300408 CAAGGAGCAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (70 bp):
GCTGAAATTAAAGAAGCTGCTGGTTGGTATTTTCAAACACCCATTCGGCCAACAACATGCAACAT
TTAAG
Found at i:7301633 original size:44 final size:43
Alignment explanation
Indices: 7301528--7302295 Score: 400
Period size: 44 Copynumber: 17.7 Consensus size: 43
7301518 ATTATACAGG
* * * **
7301528 TCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATT-GCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG--TTAG-A-A
*
7301574 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * * * *
7301618 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATTAAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGA-A
* * * * * * * *
7301662 TCTTATCTCTCT-AAAGTTACAGTAGAGTATATCG-TGTCAG-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* *
7301703 TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * ** * * * *
7301747 TCCTATCTCCCTGAGATTACGGTGGAGTGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* ** * * * * *
7301791 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCATGTCAG-G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* * *
7301832 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTCAG-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG---TT-AGAA
* *
7301878 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * * * * *
7301922 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* * * * *
7301966 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTG-TGTCAG-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
** *
7302007 TCTTATCTCCCTGAGATTACAACGGTGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* ** * * * *
7302051 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* * * * * *
7302095 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-TGTCA-AA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
* ** * *
7302136 TCTTATCTTCCTGAGATTACAGCAGAGCAGATTAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAG-AA
* * * * * * * *
7302180 TCCTATCTCCCCGAGATTACAGTAGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT-TAGAA
* * * * * * *
7302224 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTA-TCAG-G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGTTAGAA
*
7302265 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
7302296 ATAAAGCAAC
Statistics
Matches: 541, Mismatches: 149, Indels: 69
0.71 0.20 0.09
Matches are distributed among these distances:
41 127 0.23
42 27 0.05
43 16 0.03
44 294 0.54
45 11 0.02
46 66 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGTTAGAA
Done.