Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 14 of 126
Found at i:3915673 original size:11 final size:11
Alignment explanation
Indices: 3915657--3915711 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
3915647 GAAAATTAAA
3915657 AAAAATATTTT
1 AAAAATATTTT
3915668 AAAAATATTTT
1 AAAAATATTTT
***
3915679 AAAAATA-AAA
1 AAAAATATTTT
3915689 AAAAAGTATTTT
1 AAAAA-TATTTT
3915701 AAAAATATTTT
1 AAAAATATTTT
3915712 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 5 0.14
11 26 0.72
12 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:3915691 original size:33 final size:33
Alignment explanation
Indices: 3915641--3915711 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
3915631 TTGAGTTGAA
*
3915641 ATTTTAGAAAATTAAAAAAAATATTTTAAAAAT
1 ATTTTAGAAAATAAAAAAAAATATTTTAAAAAT
3915674 ATTTTA-AAAATAAAAAAAAAGTATTTTAAAAAT
1 ATTTTAGAAAATAAAAAAAAA-TATTTTAAAAAT
3915707 ATTTT
1 ATTTT
3915712 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 13 0.36
33 23 0.64
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (33 bp):
ATTTTAGAAAATAAAAAAAAATATTTTAAAAAT
Found at i:3918947 original size:33 final size:33
Alignment explanation
Indices: 3918910--3918974 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
3918900 TTTAGGCTAC
* *
3918910 TTTGATAA-AGACTATTATTGCAATTGATGTGTA
1 TTTGATAAGA-ACTATAACTGCAATTGATGTGTA
* *
3918943 TTTGATGAGAACTATAACTGTAATTGATGTGT
1 TTTGATAAGAACTATAACTGCAATTGATGTGT
3918975 CTCCAGCCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (33 bp):
TTTGATAAGAACTATAACTGCAATTGATGTGTA
Found at i:3919103 original size:8 final size:8
Alignment explanation
Indices: 3919090--3919132 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
3919080 GAGGACAATT
3919090 TTTTTTAA
1 TTTTTTAA
3919098 TTTTTTAA
1 TTTTTTAA
3919106 TTTTTTAA
1 TTTTTTAA
3919114 -TTTTTAA
1 TTTTTTAA
*
3919121 TTTTTCAA
1 TTTTTTAA
3919129 TTTT
1 TTTT
3919133 CTTTTCAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
7 7 0.21
8 26 0.79
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTAA
Found at i:3919117 original size:15 final size:15
Alignment explanation
Indices: 3919090--3919132 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
3919080 GAGGACAATT
3919090 TTTTTTAATTTTTTAA
1 TTTTTTAA-TTTTTAA
3919106 TTTTTTAATTTTTAA
1 TTTTTTAATTTTTAA
*
3919121 TTTTTCAATTTT
1 TTTTTTAATTTT
3919133 CTTTTCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTAATTTTTAA
Found at i:3929503 original size:23 final size:21
Alignment explanation
Indices: 3929464--3929506 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
3929454 TTTAAATCTA
3929464 TCAAATTTAAAAAATTTATCC
1 TCAAATTTAAAAAATTTATCC
3929485 TCAATATTTATAAAAATTTATC
1 TCAA-ATTTA-AAAAATTTATC
3929507 AATTAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 11 0.55
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAAATTTAAAAAATTTATCC
Found at i:3934787 original size:13 final size:13
Alignment explanation
Indices: 3934769--3934793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3934759 TCTCTTGTGC
3934769 CTAAAATGAGTGA
1 CTAAAATGAGTGA
3934782 CTAAAATGAGTG
1 CTAAAATGAGTG
3934794 TACAATAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
CTAAAATGAGTGA
Found at i:3936002 original size:33 final size:33
Alignment explanation
Indices: 3935965--3936030 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
3935955 TTTAGGCTAC
* *
3935965 TTTGAT-ACAGACTATTATGGAAATTGATGTGTA
1 TTTGATGA-AGACTATAATCGAAATTGATGTGTA
* *
3935998 TTTGATGAGGACTATAATCGTAATTGATGTGTA
1 TTTGATGAAGACTATAATCGAAATTGATGTGTA
3936031 ACTCTCTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (33 bp):
TTTGATGAAGACTATAATCGAAATTGATGTGTA
Found at i:3939168 original size:22 final size:22
Alignment explanation
Indices: 3939143--3939185 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3939133 TAATAAAAAG
3939143 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
3939165 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
3939186 CACTCCCCCT
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:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:3942902 original size:22 final size:22
Alignment explanation
Indices: 3942877--3942919 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3942867 TAATAAAAAG
3942877 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
3942899 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
3942920 CATTAACTTC
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:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:3953620 original size:418 final size:418
Alignment explanation
Indices: 3952843--3953678 Score: 1636
Period size: 418 Copynumber: 2.0 Consensus size: 418
3952833 AAGAAAACCA
*
3952843 GAAACCATGATATACTTCATCCCTTGAGCAAATAAGCTCTCTCTCTACCCTGCTCTCACCCACAC
1 GAAACCATGATATACTTCATCCCTTGAGCAAATAAGCTCTCTCTCTACCCTGCTCACACCCACAC
*
3952908 TCTGTTGAAAGCTTTACCGTCTTGTTTAGCATAAAGAGTGAGTCTAGCATGGACCCTTGGTTCAA
66 TCTGGTGAAAGCTTTACCGTCTTGTTTAGCATAAAGAGTGAGTCTAGCATGGACCCTTGGTTCAA
3952973 CCAAGTCGCTTCATGCACTGCCACTGATGTAGTGCATGCCTCCTTCAATCCGGCAGCATTCAAAC
131 CCAAGTCGCTTCATGCACTGCCACTGATGTAGTGCATGCCTCCTTCAATCCGGCAGCATTCAAAC
*
3953038 CGCCACCATTTCTTTTCGTCTTTCGTAACCCTTAAAACAATCCTACCAGCAGGAAGTGTACCACT
196 CGCCACCATTTCTTTTCGTCTTTCGTAACCCTTAAAACAATCCTACCAGCAAGAAGTGTACCACT
*
3953103 ATGATCACAAAACCTCCACTTTTGCACATGATTTGCTCGTAGATTAACTGTGTCGATCTCCTCCA
261 ATGATCACAAAACCTCCACCTTTGCACATGATTTGCTCGTAGATTAACTGTGTCGATCTCCTCCA
3953168 TTTCTTCAGCTCTGCTAAAACTAAACAGGTTTTTGTTTCCCCAAAACACAGAACAAGAGTGTAAT
326 TTTCTTCAGCTCTGCTAAAACTAAACAGGTTTTTGTTTCCCCAAAACACAGAACAAGAGTGTAAT
3953233 GTGGTTTGCAATCCTTGAATGTATTGGG
391 GTGGTTTGCAATCCTTGAATGTATTGGG
3953261 GAAACCATGATATACTTCATCCCTTGAGCAAATAAGCTCTCTCTCTACCCTGCTCACACCCACAC
1 GAAACCATGATATACTTCATCCCTTGAGCAAATAAGCTCTCTCTCTACCCTGCTCACACCCACAC
3953326 TCTGGTGAAAGCTTTACCGTCTTGTTTAGCATAAAGAGTGAGTCTAGCATGGACCCTTGGTTCAA
66 TCTGGTGAAAGCTTTACCGTCTTGTTTAGCATAAAGAGTGAGTCTAGCATGGACCCTTGGTTCAA
3953391 CCAAGTCGCTTCATGCACTGCCACTGATGTAGTGCATGCCTCCTTCAATCCGGCAGCATTCAAAC
131 CCAAGTCGCTTCATGCACTGCCACTGATGTAGTGCATGCCTCCTTCAATCCGGCAGCATTCAAAC
3953456 CGCCACCATTTCTTTTCGTCTTTCGTAACCCTTAAAACAATCCTACCAGCAAGAAGTGTACCACT
196 CGCCACCATTTCTTTTCGTCTTTCGTAACCCTTAAAACAATCCTACCAGCAAGAAGTGTACCACT
3953521 ATGATCACAAAACCTCCACCTTTGCACATGATTTGCTCGTAGATTAACTGTGTCGATCTCCTCCA
261 ATGATCACAAAACCTCCACCTTTGCACATGATTTGCTCGTAGATTAACTGTGTCGATCTCCTCCA
3953586 TTTCTTCAGCTCTGCTAAAACTAAACAGGTTTTTGTTTCCCCAAAACACAGAACAAGAGTGTAAT
326 TTTCTTCAGCTCTGCTAAAACTAAACAGGTTTTTGTTTCCCCAAAACACAGAACAAGAGTGTAAT
3953651 GTGGTTTGCAATCCTTGAATGTATTGGG
391 GTGGTTTGCAATCCTTGAATGTATTGGG
3953679 TTACAATAAA
Statistics
Matches: 414, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
418 414 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (418 bp):
GAAACCATGATATACTTCATCCCTTGAGCAAATAAGCTCTCTCTCTACCCTGCTCACACCCACAC
TCTGGTGAAAGCTTTACCGTCTTGTTTAGCATAAAGAGTGAGTCTAGCATGGACCCTTGGTTCAA
CCAAGTCGCTTCATGCACTGCCACTGATGTAGTGCATGCCTCCTTCAATCCGGCAGCATTCAAAC
CGCCACCATTTCTTTTCGTCTTTCGTAACCCTTAAAACAATCCTACCAGCAAGAAGTGTACCACT
ATGATCACAAAACCTCCACCTTTGCACATGATTTGCTCGTAGATTAACTGTGTCGATCTCCTCCA
TTTCTTCAGCTCTGCTAAAACTAAACAGGTTTTTGTTTCCCCAAAACACAGAACAAGAGTGTAAT
GTGGTTTGCAATCCTTGAATGTATTGGG
Found at i:3962111 original size:11 final size:11
Alignment explanation
Indices: 3962057--3962117 Score: 56
Period size: 12 Copynumber: 5.6 Consensus size: 11
3962047 TTTATTTTTT
3962057 TATTTTTAAAA
1 TATTTTTAAAA
**
3962068 TACTTTTTTTAA
1 TA-TTTTTAAAA
*
3962080 T-TTTTTTAAA
1 TATTTTTAAAA
3962090 -A-TTTTAAAA
1 TATTTTTAAAA
3962099 TATTTTTAAAA
1 TATTTTTAAAA
3962110 TACTTTTT
1 TA-TTTTT
3962118 TTTTAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
9 7 0.17
10 9 0.22
11 12 0.29
12 13 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:3962202 original size:31 final size:31
Alignment explanation
Indices: 3962164--3962224 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
3962154 ACTTCTTTAA
3962164 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
3962195 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
3962225 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:3973627 original size:18 final size:17
Alignment explanation
Indices: 3973505--3973639 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 17
3973495 AATACTAAGA
3973505 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
3973522 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
3973538 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
3973552 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
3973571 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
**
3973587 ATTTTAAAAAATTCATAT
1 ATTTTATTAAATT-ATAT
3973605 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
3973622 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
3973640 TTAATAATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 25
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 8 0.09
16 9 0.10
17 18 0.20
18 40 0.45
19 2 0.02
20 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:3973889 original size:46 final size:44
Alignment explanation
Indices: 3973798--3973891 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 44
3973788 ATTACAACAT
* * *
3973798 CATTCCATTTAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACACTTCTATTC
*
3973842 CATTCCATTCAACCAAACAAAAAGATTAGCTATTACACTTCTATTC
1 CATTCCATTCAACCAAAC-AAAAGAATA-CTATTACACTTCTATTC
3973888 CATT
1 CATT
3973892 ACGCCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 17 0.39
45 7 0.16
46 20 0.45
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACACTTCTATTC
Found at i:3974206 original size:6 final size:6
Alignment explanation
Indices: 3974197--3974227 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3974187 GCACCACCTT
3974197 CATCAA CATCAA CATCAA CATCAA CATCAA C
1 CATCAA CATCAA CATCAA CATCAA CATCAA C
3974228 CCCAACACCA
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:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (6 bp):
CATCAA
Found at i:3974233 original size:18 final size:18
Alignment explanation
Indices: 3974197--3974234 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3974187 GCACCACCTT
*
3974197 CATCAACATCAACATCAA
1 CATCAACATCAACACCAA
*
3974215 CATCAACATCAACCCCAA
1 CATCAACATCAACACCAA
3974233 CA
1 CA
3974235 CCAAACTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.13
Consensus pattern (18 bp):
CATCAACATCAACACCAA
Found at i:3978055 original size:27 final size:27
Alignment explanation
Indices: 3978017--3978070 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3978007 TTTCTAGGTT
3978017 TGAGATATAAAGAGAGAAGCATAAGGC
1 TGAGATATAAAGAGAGAAGCATAAGGC
3978044 TGAGATATAAAGAGAGAAGCATAAGGC
1 TGAGATATAAAGAGAGAAGCATAAGGC
3978071 CCCTATCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.30, T:0.15
Consensus pattern (27 bp):
TGAGATATAAAGAGAGAAGCATAAGGC
Found at i:3999986 original size:33 final size:33
Alignment explanation
Indices: 3999932--3999996 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
3999922 CGAGCTGGAG
* *
3999932 ACACATCAATTACGATTATAGTCCTCATCAAAT
1 ACACATCAATTACCATAATAGTCCTCATCAAAT
* * *
3999965 ACACATCAATTTCCATAATAGTCTTTATCAAA
1 ACACATCAATTACCATAATAGTCCTCATCAAA
3999997 GTAGCCTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (33 bp):
ACACATCAATTACCATAATAGTCCTCATCAAAT
Found at i:4005184 original size:3 final size:3
Alignment explanation
Indices: 4005178--4005229 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
4005168 AACTAATAAG
* * * * *
4005178 TTA TTA TTA TTA TCA TCA ATA TTA TTA TGA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4005226 TTA T
1 TTA T
4005230 CTATGTCTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:4005204 original size:21 final size:21
Alignment explanation
Indices: 4005178--4005229 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
4005168 AACTAATAAG
4005178 TTATTATTATTATCATCAATA
1 TTATTATTATTATCATCAATA
* * *
4005199 TTATTATGATTATTATTAATA
1 TTATTATTATTATCATCAATA
4005220 TTATTATTAT
1 TTATTATTAT
4005230 CTATGTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTATTATTATCATCAATA
Found at i:4005482 original size:42 final size:43
Alignment explanation
Indices: 4005412--4005500 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 43
4005402 AATTTATATC
* ** * *
4005412 TATATATATACATACTTATGTTTTTTTGTGCTTTATA-ATTTA
1 TATATATATACATACATATGCATATTTGTGCTTTATATATGTA
* **
4005454 TATATATATACATAGATATGCATATTTGTTTTTTATATATGTA
1 TATATATATACATACATATGCATATTTGTGCTTTATATATGTA
4005497 TATA
1 TATA
4005501 CATTCATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 30 0.79
43 8 0.21
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (43 bp):
TATATATATACATACATATGCATATTTGTGCTTTATATATGTA
Found at i:4006368 original size:26 final size:26
Alignment explanation
Indices: 4006332--4006381 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
4006322 AAAAATACCT
4006332 CATTTTCCCGAAATTTTCAACATCCC
1 CATTTTCCCGAAATTTTCAACATCCC
4006358 CATTTTCCCGAAATTTTCAACATC
1 CATTTTCCCGAAATTTTCAACATC
4006382 TTAATACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.32, G:0.04, T:0.36
Consensus pattern (26 bp):
CATTTTCCCGAAATTTTCAACATCCC
Found at i:4013614 original size:33 final size:32
Alignment explanation
Indices: 4013543--4013612 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
4013533 AATAAATATC
**** *
4013543 AAAAATTTATTTTAAAAATTAAAACAAAAATAA
1 AAAAATTTATTTTAAAAA-TATTTTAAAATTAA
4013576 AAAAATTTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTATTTTAAAAATATTTTAAAATTAA
4013608 AAAAA
1 AAAAA
4013613 ATAAAAGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (32 bp):
AAAAATTTATTTTAAAAATATTTTAAAATTAA
Found at i:4013639 original size:12 final size:12
Alignment explanation
Indices: 4013622--4013651 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
4013612 AATAAAAGTA
4013622 TTTAAAAATATT
1 TTTAAAAATATT
4013634 TTT-AAAATATT
1 TTTAAAAATATT
4013645 TTTAAAA
1 TTTAAAA
4013652 TTAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:4013640 original size:11 final size:11
Alignment explanation
Indices: 4013626--4013652 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4013616 AAAGTATTTA
4013626 AAAATATTTTT
1 AAAATATTTTT
4013637 AAAATATTTTT
1 AAAATATTTTT
4013648 AAAAT
1 AAAAT
4013653 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:4013676 original size:42 final size:40
Alignment explanation
Indices: 4013625--4013711 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 40
4013615 AAAAGTATTT
4013625 AAAAATATTTTTAAAA-TATTTTTAAA-ATTAAAAAAATTTAA
1 AAAAATATTTTTAAAAGTA-TTTTAAATATTAAAAAAA--TAA
*
4013666 AAAAAGTA-TTTTAAAAGTATTTTAAATTTTAAAAAAATAA
1 AAAAA-TATTTTTAAAAGTATTTTAAATATTAAAAAAATAA
4013706 AAAAAT
1 AAAAAT
4013712 TATTGTATTC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
39 1 0.02
40 8 0.19
41 20 0.48
42 13 0.31
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (40 bp):
AAAAATATTTTTAAAAGTATTTTAAATATTAAAAAAATAA
Found at i:4013681 original size:11 final size:11
Alignment explanation
Indices: 4013667--4013691 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4013657 AAAATTTAAA
4013667 AAAAGTATTTT
1 AAAAGTATTTT
4013678 AAAAGTATTTT
1 AAAAGTATTTT
4013689 AAA
1 AAA
4013692 TTTTAAAAAA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:4018984 original size:16 final size:16
Alignment explanation
Indices: 4018965--4019000 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
4018955 GATTGAAAAG
4018965 AAAATTGAAAAA-TAAA
1 AAAATT-AAAAATTAAA
4018981 AAAATTAAAAATTAAA
1 AAAATTAAAAATTAAA
4018997 AAAA
1 AAAA
4019001 ATTGTCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:4019170 original size:33 final size:33
Alignment explanation
Indices: 4019133--4019197 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
4019123 TGGGCTGGAG
* *
4019133 ACACATCAATTACGATTATAGTCCTCATCAAAT
1 ACACATCAATTACAATAATAGTCCTCATCAAAT
* *
4019166 ACACATCAATTACAATAATAGTCTTTATCAAA
1 ACACATCAATTACAATAATAGTCCTCATCAAA
4019198 GTAGCCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.31
Consensus pattern (33 bp):
ACACATCAATTACAATAATAGTCCTCATCAAAT
Found at i:4024879 original size:20 final size:19
Alignment explanation
Indices: 4024854--4024906 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
4024844 TATTGAATTA
*
4024854 ATAATTTAATATAAATATAT
1 ATAA-TTAATATAAACATAT
* *
4024874 ATAATTATTATTTAACATAT
1 ATAATTAATA-TAAACATAT
4024894 ATAATTAATATAA
1 ATAATTAATATAA
4024907 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATTAATATAAACATAT
Found at i:4028439 original size:23 final size:23
Alignment explanation
Indices: 4028395--4028439 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
4028385 GGTATTTGGG
4028395 CCTCCAAAATTTTTAACTTTATTT
1 CCTCCAAAATTTTTAAC-TTATTT
*
4028419 CCTCCAAACTTTTATAA-TTAT
1 CCTCCAAAATTTT-TAACTTAT
4028440 ATCTTGACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (23 bp):
CCTCCAAAATTTTTAACTTATTT
Found at i:4028697 original size:16 final size:16
Alignment explanation
Indices: 4028676--4028711 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
4028666 TGTGGACAAT
4028676 TTTTTTTAATTTTT-AA
1 TTTTTTT-ATTTTTCAA
4028692 TTTTTTTATTTTTCAA
1 TTTTTTTATTTTTCAA
4028708 TTTT
1 TTTT
4028712 CTTTTCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTATTTTTCAA
Found at i:4030579 original size:33 final size:33
Alignment explanation
Indices: 4030533--4030621 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
4030523 TTTAGGCTAC
* *
4030533 TTTGATAAAGACTATTATGGAAATTGATGTGTA
1 TTTGATGAGGACTATTATGGAAATTGATGTGTA
* * * *
4030566 TTTGATGAGGACTATAATCGTAATTGATGTGTC
1 TTTGATGAGGACTATTATGGAAATTGATGTGTA
4030599 TTTGATGAGGACTATTATGGAAA
1 TTTGATGAGGACTATTATGGAAA
4030622 CTAATAAGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (33 bp):
TTTGATGAGGACTATTATGGAAATTGATGTGTA
Found at i:4037899 original size:51 final size:50
Alignment explanation
Indices: 4037839--4038270 Score: 340
Period size: 51 Copynumber: 8.5 Consensus size: 50
4037829 GATGAACACG
*
4037839 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * *
4037890 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
* *
4037941 TGTGTAGTGCTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * *
4037992 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CTGA-AAAGCTTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAA--TATGGTCACA
* * * * *
4038043 TGTGTAGTACTATGTGAAGGCTACTTCGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA--TGGTCACA
* * *
4038093 TGTGTAGTACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-AT-GGTCACA
* * * * * * * *
4038143 TGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAACT-TCGATTACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATAT-GGTCACA
* * * *
4038194 TGTGTAGGACTATGTGCAGGCTACTACGTGTATCGGAT-AGTGATGGTCACC
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAAT-ATGGTCACA
* *
4038245 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
4038271 TGTGAACCGG
Statistics
Matches: 302, Mismatches: 60, Indels: 38
0.75 0.15 0.09
Matches are distributed among these distances:
49 3 0.01
50 79 0.26
51 213 0.71
52 5 0.02
53 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:4038015 original size:102 final size:102
Alignment explanation
Indices: 4037835--4038116 Score: 406
Period size: 102 Copynumber: 2.8 Consensus size: 102
4037825 TATCGATGAA
4037835 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
* *
4037900 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGAT
* *
4037937 CACTTGTGTAGTGCTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
* *
4038002 TAAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGAT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGAT
* * * * * * *
4038039 CACGTGTGTAGTACTATGTGAAGGCTACTTCGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCACATGTGTAGTA
* *
4038102 CTATGTGTAGGCTAC
65 CTAAGTGAAGGCTAC
4038117 TACGTGTATC
Statistics
Matches: 162, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
100 1 0.01
101 32 0.20
102 129 0.80
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGAT
Found at i:4038176 original size:151 final size:153
Alignment explanation
Indices: 4037885--4038223 Score: 402
Period size: 151 Copynumber: 2.2 Consensus size: 153
4037875 TAAATAATGG
* * * * * * *
4037885 TCACATGTGTAGTACTAAGTGAAGGCTACAAT-GTGTACCGAGAAGCTTTGGTCACTTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTAC-TTCGTGAACCGAGAAACTTTGATCACGTGTGTAGT
* *
4037949 GCTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCT
65 ACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCT
* *
4038014 ACTATGTGTACT-GAAAAGCTTTGA
130 ACTATGCGTACTGGAAAA-CTTCGA
4038038 TCACGTGTGTAGTACTATGTGAAGGCTACTTCGTGAACCGTA-AAAC-TTGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTTCGTGAACCG-AGAAACTTTGATCACGTGTGTAGT
* * * * * *
4038101 ACTATGTGTAGGCTACTACGTGTATC-A-GAATGATAGGTCGCATGTGTAGTACTATGTGCAGGC
65 ACTATGTGAAGGCTACTACGTGTATCGATAAATAAT-GGTCACATGTGTAGTACTAAGTGAAGGC
*
4038164 TACTATGCGTACTGGATAACTTCGA
129 TACTATGCGTACTGGAAAACTTCGA
* * * *
4038189 TTACGTGTGTAGGACTATGTGCAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGAAGGCTACTTCGTG
4038224 TATCGGATAG
Statistics
Matches: 160, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
150 5 0.03
151 74 0.46
152 43 0.27
153 37 0.23
154 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (153 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTTCGTGAACCGAGAAACTTTGATCACGTGTGTAGTA
CTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAGGCTA
CTATGCGTACTGGAAAACTTCGA
Found at i:4041523 original size:20 final size:19
Alignment explanation
Indices: 4041473--4041524 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
4041463 ATAAAAACTA
4041473 TTATATT-AATTATATATG
1 TTATATTAAATTATATATG
* * *
4041491 TTAGATAATAATTATATATAT
1 TTATATTA-AATTATATAT-G
4041512 TTATATTAAATTA
1 TTATATTAAATTA
4041525 CTAATTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
21 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
TTATATTAAATTATATATG
Found at i:4045132 original size:13 final size:13
Alignment explanation
Indices: 4045089--4045136 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
4045079 TTTGTTTTGC
4045089 AAAGAAGAAGAAAA
1 AAAGAA-AAGAAAA
* *
4045103 AACA-AAAATAAAC
1 AA-AGAAAAGAAAA
4045116 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
4045129 AAAGAAAA
1 AAAGAAAA
4045137 TCACCTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 4 0.14
15 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAGAAAAGAAAA
Found at i:4064502 original size:16 final size:16
Alignment explanation
Indices: 4064483--4064521 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4064473 AATTTAAATT
4064483 TAAATATATTTGAAGA
1 TAAATATATTTGAAGA
*
4064499 TAAATTATATTTGACGA
1 TAAA-TATATTTGAAGA
4064516 -AAATAT
1 TAAATAT
4064522 CTATTGCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 7 0.33
17 11 0.52
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (16 bp):
TAAATATATTTGAAGA
Found at i:4068899 original size:21 final size:21
Alignment explanation
Indices: 4068873--4068923 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
4068863 AGATATTATA
4068873 TATATATAGGCCAAAACATAT
1 TATATATAGGCCAAAACATAT
4068894 TATATATAGGCCAAAACATAT
1 TATATATAGGCCAAAACATAT
4068915 TATATATAG
1 TATATATAG
4068924 ATAGATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (21 bp):
TATATATAGGCCAAAACATAT
Found at i:4068899 original size:25 final size:25
Alignment explanation
Indices: 4068865--4068927 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 25
4068855 TCATATATAG
4068865 ATATTATATATATATAGGCCAAAAC
1 ATATTATATATATATAGGCCAAAAC
4068890 --A-TAT-TATATATAGGCCAAAAC
1 ATATTATATATATATAGGCCAAAAC
*
4068911 ATATTATATATAGATAG
1 ATATTATATATATATAG
4068928 ATATTTAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 17 0.52
22 3 0.09
23 2 0.06
24 3 0.09
25 8 0.24
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (25 bp):
ATATTATATATATATAGGCCAAAAC
Found at i:4069187 original size:32 final size:30
Alignment explanation
Indices: 4069117--4069188 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
4069107 TTAATTTATC
* *
4069117 ATTTCATCATTTTTGAAGGGAATAAACATA
1 ATTTTATCATTTTTGAAGGGAATAAACACA
*
4069147 ATTTTATCATTTTTGAAAGGAGACA-AAATACA
1 ATTTTATCATTTTTG-AAGG-GA-ATAAACACA
4069179 ATTTTATCAT
1 ATTTTATCAT
4069189 ACTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 14 0.39
31 4 0.11
32 17 0.47
33 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (30 bp):
ATTTTATCATTTTTGAAGGGAATAAACACA
Found at i:4070056 original size:31 final size:29
Alignment explanation
Indices: 4070018--4070096 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
4070008 ACATTAAAAC
4070018 TATATATGAAATTTGATTCAATGTATAATGT
1 TATATATGAAATTTGATT--ATGTATAATGT
* * * *
4070049 TATATATGAATTTTGATTTTGTGTAATTT
1 TATATATGAAATTTGATTATGTATAATGT
*
4070078 TATACATGAAATTTTGATT
1 TATATATGAAA-TTTGATT
4070097 TGATTTAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.41
30 7 0.17
31 17 0.41
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.51
Consensus pattern (29 bp):
TATATATGAAATTTGATTATGTATAATGT
Found at i:4070075 original size:29 final size:29
Alignment explanation
Indices: 4070018--4070097 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
4070008 ACATTAAAAC
* *
4070018 TATATATGAAATTTGATTCAATGTATAATGT
1 TATATATGAATTTTGATT--TTGTATAATGT
* *
4070049 TATATATGAATTTTGATTTTGTGTAATTT
1 TATATATGAATTTTGATTTTGTATAATGT
*
4070078 TATACATGAAATTTTGATTT
1 TATATATG-AATTTTGATTT
4070098 GATTTAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.35
30 11 0.26
31 17 0.40
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (29 bp):
TATATATGAATTTTGATTTTGTATAATGT
Found at i:4072694 original size:16 final size:16
Alignment explanation
Indices: 4072675--4072712 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4072665 TTTGTAATGT
4072675 TTTATATTATT-TAAAA
1 TTTATA-TATTATAAAA
*
4072691 TTTATATATTATAGAA
1 TTTATATATTATAAAA
4072707 TTTATA
1 TTTATA
4072713 ACATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTATATATTATAAAA
Found at i:4074314 original size:16 final size:16
Alignment explanation
Indices: 4074295--4074325 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4074285 AAATTTTTTG
*
4074295 AATTTGTTTTGGATTC
1 AATTTGTTTTAGATTC
4074311 AATTTGTTTTAGATT
1 AATTTGTTTTAGATT
4074326 AGGTTATTCG
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:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (16 bp):
AATTTGTTTTAGATTC
Found at i:4078264 original size:4 final size:4
Alignment explanation
Indices: 4078257--4078296 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
4078247 AGACTTAAAT
4078257 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
4078297 GGGAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4080433 original size:21 final size:22
Alignment explanation
Indices: 4080408--4080454 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
4080398 TTATTTCTCA
*
4080408 ATTTAAAAATTAATA-AAAA-T
1 ATTTTAAAATTAATATAAAATT
*
4080428 ATTTTAAATTTAATATAAAATT
1 ATTTTAAAATTAATATAAAATT
4080450 ATTTT
1 ATTTT
4080455 TTATAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 4 0.17
22 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTTAAAATTAATATAAAATT
Found at i:4083513 original size:30 final size:31
Alignment explanation
Indices: 4083455--4083513 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
4083445 ATCTCAAAAT
* *
4083455 TATACATGAATTTTGATTTAATGTGCAATTTG
1 TATACATGAATTTTAATTT-AGGTGCAATTTG
4083487 TATACATGAATTTTAATTT-GGTGCAAT
1 TATACATGAATTTTAATTTAGGTGCAAT
4083514 CATACACGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
32 18 0.72
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (31 bp):
TATACATGAATTTTAATTTAGGTGCAATTTG
Found at i:4086885 original size:21 final size:21
Alignment explanation
Indices: 4086860--4086904 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4086850 TCTAAGCTCG
*
4086860 TTTTAAGTAAATATATATTAT
1 TTTTAAGTAAATATATAATAT
* * *
4086881 TTTTAATTTAATATTTAATAT
1 TTTTAAGTAAATATATAATAT
4086902 TTT
1 TTT
4086905 AGATGATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTAAGTAAATATATAATAT
Found at i:4087002 original size:19 final size:18
Alignment explanation
Indices: 4086980--4087019 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
4086970 TATATATTTA
*
4086980 AAATTATATAATATACTAT
1 AAATTACATAATATA-TAT
4086999 AAATTACATAATATATAT
1 AAATTACATAATATATAT
4087017 AAA
1 AAA
4087020 AATAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATTACATAATATATAT
Found at i:4096120 original size:20 final size:20
Alignment explanation
Indices: 4096084--4096122 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4096074 TCTCGAATAT
*
4096084 AAATTATAAAATGAATATAA
1 AAATTATAAAATAAATATAA
4096104 AAATTA-AAAATAAAATATA
1 AAATTATAAAAT-AAATATA
4096123 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATTATAAAATAAATATAA
Found at i:4104538 original size:42 final size:42
Alignment explanation
Indices: 4104473--4104628 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
4104463 AAATCGTACA
*
4104473 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
4104515 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
4104557 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
4104601 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
4104629 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:4111190 original size:42 final size:42
Alignment explanation
Indices: 4111125--4111280 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
4111115 AAATCGTACA
*
4111125 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
4111167 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
4111209 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
4111253 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
4111281 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:4114145 original size:202 final size:202
Alignment explanation
Indices: 4113799--4114202 Score: 808
Period size: 202 Copynumber: 2.0 Consensus size: 202
4113789 ATATTCTAGC
4113799 TCCCCATAGTCTCCTTGTCAATTTTCTCTCTTGGTGGCTATGTAAATTTCTTTGATTTCTAAGTG
1 TCCCCATAGTCTCCTTGTCAATTTTCTCTCTTGGTGGCTATGTAAATTTCTTTGATTTCTAAGTG
4113864 AAAATTGAGGATTTTGCTGAAAGGACCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTTTTCTCT
66 AAAATTGAGGATTTTGCTGAAAGGACCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTTTTCTCT
4113929 CTTCTCATGTTGGTTGCATGGAAGAAGAAGATGATGGGTTGGTTCCCTTTTTATCTTTCTTTCCA
131 CTTCTCATGTTGGTTGCATGGAAGAAGAAGATGATGGGTTGGTTCCCTTTTTATCTTTCTTTCCA
4113994 CATATAT
196 CATATAT
4114001 TCCCCATAGTCTCCTTGTCAATTTTCTCTCTTGGTGGCTATGTAAATTTCTTTGATTTCTAAGTG
1 TCCCCATAGTCTCCTTGTCAATTTTCTCTCTTGGTGGCTATGTAAATTTCTTTGATTTCTAAGTG
4114066 AAAATTGAGGATTTTGCTGAAAGGACCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTTTTCTCT
66 AAAATTGAGGATTTTGCTGAAAGGACCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTTTTCTCT
4114131 CTTCTCATGTTGGTTGCATGGAAGAAGAAGATGATGGGTTGGTTCCCTTTTTATCTTTCTTTCCA
131 CTTCTCATGTTGGTTGCATGGAAGAAGAAGATGATGGGTTGGTTCCCTTTTTATCTTTCTTTCCA
4114196 CATATAT
196 CATATAT
4114203 ATATATATAT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 202 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (202 bp):
TCCCCATAGTCTCCTTGTCAATTTTCTCTCTTGGTGGCTATGTAAATTTCTTTGATTTCTAAGTG
AAAATTGAGGATTTTGCTGAAAGGACCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTTTTCTCT
CTTCTCATGTTGGTTGCATGGAAGAAGAAGATGATGGGTTGGTTCCCTTTTTATCTTTCTTTCCA
CATATAT
Found at i:4116806 original size:32 final size:32
Alignment explanation
Indices: 4116751--4116849 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
4116741 AGGACCGGCC
* *
4116751 TAAATCAAGCCTTCATATGGCATTGATTTAAT
1 TAAATCAAGCCTTAATATAGCATTGATTTAAT
* *
4116783 TAAATCAAACCTTAATATAGCATTCATTTAAT
1 TAAATCAAGCCTTAATATAGCATTGATTTAAT
*
4116815 TAAATCAAGGCTTAAT-TAAGCATTGATTTTAAT
1 TAAATCAAGCCTTAATAT-AGCATTGA-TTTAAT
4116848 TA
1 TA
4116850 CCAATAGTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
31 1 0.02
32 49 0.84
33 8 0.14
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.38
Consensus pattern (32 bp):
TAAATCAAGCCTTAATATAGCATTGATTTAAT
Found at i:4121200 original size:25 final size:26
Alignment explanation
Indices: 4121168--4121222 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
4121158 TTATTAAATT
*
4121168 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
4121193 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
4121218 A-ATAT
1 ATATAT
4121223 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:4122964 original size:7 final size:7
Alignment explanation
Indices: 4122952--4122983 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4122942 AAACCCTAAA
4122952 ACCCTAG
1 ACCCTAG
4122959 ACCCTAG
1 ACCCTAG
4122966 ACCCTAG
1 ACCCTAG
*
4122973 ACCCTAC
1 ACCCTAG
4122980 ACCC
1 ACCC
4122984 CAAACCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.28, C:0.50, G:0.09, T:0.12
Consensus pattern (7 bp):
ACCCTAG
Found at i:4122990 original size:7 final size:7
Alignment explanation
Indices: 4122980--4123215 Score: 137
Period size: 7 Copynumber: 34.1 Consensus size: 7
4122970 TAGACCCTAC
4122980 ACCCCAA
1 ACCCCAA
4122987 ACCCCAA
1 ACCCCAA
4122994 ACCCCAA
1 ACCCCAA
4123001 A--CCAA
1 ACCCCAA
4123006 ACCCC-A
1 ACCCCAA
4123012 ACCCC-A
1 ACCCCAA
*
4123018 ACCCTAA
1 ACCCCAA
4123025 ACCCCAA
1 ACCCCAA
*
4123032 ACCCTAA
1 ACCCCAA
**
4123039 ACCTAAA
1 ACCCCAA
*
4123046 ACCCTAA
1 ACCCCAA
*
4123053 ACCCTAA
1 ACCCCAA
*
4123060 ACCCTAA
1 ACCCCAA
***
4123067 ACCTTGA
1 ACCCCAA
**
4123074 ACCCTTA
1 ACCCCAA
*
4123081 ACCTCAA
1 ACCCCAA
*
4123088 ACTCCTAA
1 AC-CCCAA
* *
4123096 ACACTAA
1 ACCCCAA
*
4123103 ACCCTAA
1 ACCCCAA
*
4123110 ACCCAAA
1 ACCCCAA
*
4123117 ACCCTAA
1 ACCCCAA
4123124 A-CCCAA
1 ACCCCAA
4123130 ACCCCTAA
1 ACCCC-AA
* *
4123138 ACCCTAG
1 ACCCCAA
* * *
4123145 AGCCTAG
1 ACCCCAA
4123152 ACCCCAA
1 ACCCCAA
*
4123159 ACCCTAA
1 ACCCCAA
*
4123166 ACCCTTAA
1 ACCC-CAA
4123174 ACCCCTAA
1 ACCCC-AA
4123182 ACCCC-A
1 ACCCCAA
4123188 ACCCC--
1 ACCCCAA
4123193 ACCCCAAA
1 ACCCC-AA
4123201 ACCCCAA
1 ACCCCAA
4123208 ACCCCAA
1 ACCCCAA
4123215 A
1 A
4123216 AGCCCTAAAC
Statistics
Matches: 189, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
5 10 0.05
6 22 0.12
7 127 0.67
8 30 0.16
ACGTcount: A:0.42, C:0.47, G:0.02, T:0.10
Consensus pattern (7 bp):
ACCCCAA
Found at i:4122990 original size:14 final size:14
Alignment explanation
Indices: 4122950--4123237 Score: 198
Period size: 14 Copynumber: 20.7 Consensus size: 14
4122940 NNAAACCCTA
* *
4122950 AAACCCTAGACCCT
1 AAACCCTAAACCCC
* * *
4122964 AGACCCTAGACCCT
1 AAACCCTAAACCCC
* *
4122978 ACACCCCAAACCCC
1 AAACCCTAAACCCC
*
4122992 AAACCCCAAA--CC
1 AAACCCTAAACCCC
*
4123004 AAACCC-CAACCCC
1 AAACCCTAAACCCC
4123017 -AACCCTAAACCCC
1 AAACCCTAAACCCC
**
4123030 AAACCCTAAACCTA
1 AAACCCTAAACCCC
*
4123044 AAACCCTAAACCCT
1 AAACCCTAAACCCC
**
4123058 AAACCCTAAACCTT
1 AAACCCTAAACCCC
* * *
4123072 GAACCCTTAACCTC
1 AAACCCTAAACCCC
* *
4123086 AAACTCCTAAACACT
1 AAAC-CCTAAACCCC
*
4123101 AAACCCTAAACCCA
1 AAACCCTAAACCCC
4123115 AAACCCTAAA-CCC
1 AAACCCTAAACCCC
*
4123128 AAACCCCTAAACCCT
1 AAA-CCCTAAACCCC
* * *
4123143 AGAGCCTAGACCCC
1 AAACCCTAAACCCC
*
4123157 AAACCCTAAACCCTT
1 AAACCCTAAACCC-C
4123172 AAACCCCTAAACCCC
1 AAA-CCCTAAACCCC
*
4123187 -AACCC--CACCCC
1 AAACCCTAAACCCC
*
4123198 AAAACCCCAAACCCC
1 -AAACCCTAAACCCC
*
4123213 AAAAGCCCTAAA-CCG
1 -AAA-CCCTAAACCCC
4123228 AAACCCTAAA
1 AAACCCTAAA
4123238 ACCTAAAGAG
Statistics
Matches: 222, Mismatches: 38, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
11 7 0.03
12 13 0.06
13 28 0.13
14 130 0.59
15 28 0.13
16 16 0.07
ACGTcount: A:0.41, C:0.46, G:0.03, T:0.10
Consensus pattern (14 bp):
AAACCCTAAACCCC
Found at i:4122990 original size:21 final size:22
Alignment explanation
Indices: 4122942--4123185 Score: 66
Period size: 21 Copynumber: 11.3 Consensus size: 22
4122932 NNNNNNNNNN
* *
4122942 AAACCCTAAAACCCTAGACCCT
1 AAACCCTAAAACCCTACACCCC
* *
4122964 AGACCCT-AGACCCTACACCCC
1 AAACCCTAAAACCCTACACCCC
* * *
4122985 AAACCCCAAACCCCAAACCAAACCCC
1 AAACCCTAAAACCC-TA-C--ACCCC
* *
4123011 -AACCC--CAACCCTAAACCCC
1 AAACCCTAAAACCCTACACCCC
* *
4123030 AAACCCT-AAA-CCTAAAACCCT
1 AAACCCTAAAACCCT-ACACCCC
* **
4123051 AAACCCT-AAACCCTAAACCTT
1 AAACCCTAAAACCCTACACCCC
* * * *
4123072 GAACCCT-TAA-CCTCAAACTCCT
1 AAACCCTAAAACCCT-ACAC-CCC
* * *
4123094 AAACACT-AAACCCTAAACCCA
1 AAACCCTAAAACCCTACACCCC
*
4123115 AAACCCT-AAACCC-AAACCCC
1 AAACCCTAAAACCCTACACCCC
* * *
4123135 TAAACCCT-AGAGCCTAGACCCC
1 -AAACCCTAAAACCCTACACCCC
*
4123157 AAACCCT-AAACCCTTAAACCCC
1 AAACCCTAAAACCC-TACACCCC
4123179 TAAACCC
1 -AAACCC
4123186 CAACCCCACC
Statistics
Matches: 175, Mismatches: 31, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
19 5 0.03
20 17 0.10
21 88 0.50
22 40 0.23
23 14 0.08
24 1 0.01
25 5 0.03
26 5 0.03
ACGTcount: A:0.41, C:0.45, G:0.03, T:0.11
Consensus pattern (22 bp):
AAACCCTAAAACCCTACACCCC
Found at i:4122997 original size:28 final size:28
Alignment explanation
Indices: 4122942--4123237 Score: 223
Period size: 28 Copynumber: 10.6 Consensus size: 28
4122932 NNNNNNNNNN
* * *
4122942 AAACCCTAAAACCCTAGACCCTAGACCCT
1 AAACCCT-AAACCCTAAACCCCAAACCCT
* * * *
4122971 AGACCCTACACCCCAAACCCCAAACCCC
1 AAACCCTAAACCCTAAACCCCAAACCCT
*
4122999 AAA-CC-AAACCC-CAACCCC-AACCCT
1 AAACCCTAAACCCTAAACCCCAAACCCT
* **
4123023 AAACCCCAAACCCTAAACCTAAAACCCT
1 AAACCCTAAACCCTAAACCCCAAACCCT
***
4123051 AAACCCTAAACCCTAAACCTTGAACCCT
1 AAACCCTAAACCCTAAACCCCAAACCCT
* * *
4123079 TAA-CCTCAAACTCCTAAACACTAAACCCT
1 AAACCCT-AAAC-CCTAAACCCCAAACCCT
*
4123108 AAACCCAAAACCCTAAA-CCCAAACCCCT
1 AAACCCTAAACCCTAAACCCCAAA-CCCT
* * *
4123136 AAACCCTAGAGCCTAGACCCCAAACCCT
1 AAACCCTAAACCCTAAACCCCAAACCCT
4123164 AAACCCTTAAACCCCTAAACCCC-AACCC-
1 AAACCC-TAAA-CCCTAAACCCCAAACCCT
* * * *
4123192 CACCCCAAAACCCCAAACCCCAAAAGCCCT
1 AAACCCTAAACCCTAAACCCC-AAA-CCCT
*
4123222 AAA-CCGAAACCCTAAA
1 AAACCCTAAACCCTAAA
4123238 ACCTAAAGAG
Statistics
Matches: 212, Mismatches: 40, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
24 8 0.04
25 8 0.04
26 21 0.10
27 16 0.08
28 93 0.44
29 54 0.25
30 12 0.06
ACGTcount: A:0.41, C:0.46, G:0.03, T:0.10
Consensus pattern (28 bp):
AAACCCTAAACCCTAAACCCCAAACCCT
Found at i:4123016 original size:6 final size:6
Alignment explanation
Indices: 4122980--4123031 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
4122970 TAGACCCTAC
* * *
4122980 ACCCCAA ACCCCAA ACCCCA AACCAA ACCCCA ACCCCA ACCCTAA ACCCCA
1 ACCCC-A ACCCC-A ACCCCA ACCCCA ACCCCA ACCCCA ACCC-CA ACCCCA
4123031 A
1 A
4123032 ACCCTAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
6 21 0.55
7 17 0.45
ACGTcount: A:0.42, C:0.56, G:0.00, T:0.02
Consensus pattern (6 bp):
ACCCCA
Found at i:4123999 original size:270 final size:271
Alignment explanation
Indices: 4123517--4124060 Score: 1011
Period size: 270 Copynumber: 2.0 Consensus size: 271
4123507 TAAAGCAGGA
4123517 ACAGAATAAGAAATAAAATTACTAGAGCAAGATTAATGGAAATGGGAGAGAATAAAGGGAAAATC
1 ACAGAATAAGAAATAAAATTACTAGAGCAAGATTAATGGAAATGGGAGAGAATAAAGGGAAAATC
4123582 GGAGAACTTGCATAAAATACATAAAATATAATGTCTTTATTTAATGGGGTTACTCCAAGAATGAG
66 GGAGAACTTGCATAAAATACATAAAATATAATGTCTTTATTTAATGGGGTTACTCCAAGAATGAG
*
4123647 GAGAAATGAATATCAAATTTGAAACCTTAATTTTTTCAAAAATTAATTATGAAAGGGCGCTTCAT
131 GAGAAATGAATATCAAATTTGAAACCTTAATTTTTTCAAAAATTAAATATGAAAGGGCGCTTCAT
* *
4123712 TAAATCATATATTCCAAGTATTGTTTTCATT-TTCCCTCAAAAAATATAATGTGTTCACACGTCT
196 TAAATCATATATTCCAAGTATTGTTTTC-TTATTCCCTCAAAAAATATAATGTGTTCAAACGTCA
4123776 AAATATTACTTG
260 AAATATTACTTG
4123788 ACAGAATAAGAAATAAAATTACTAGAGCAAGATTAATGGAAATGGGAGAGAAT-AAGGGAAAATC
1 ACAGAATAAGAAATAAAATTACTAGAGCAAGATTAATGGAAATGGGAGAGAATAAAGGGAAAATC
* *
4123852 GGTGAACTTGCATAAAATACATAAAATATAATGTCTTTATTTAATGGGGTTACTCCAAGAATGGG
66 GGAGAACTTGCATAAAATACATAAAATATAATGTCTTTATTTAATGGGGTTACTCCAAGAATGAG
4123917 GAGAAATGAATATCAAATTTGAAACCTTAATTTTTTCAAAAATTAAATATGAAAGGGCGCTTCAT
131 GAGAAATGAATATCAAATTTGAAACCTTAATTTTTTCAAAAATTAAATATGAAAGGGCGCTTCAT
4123982 TAAATCATATATTCCAAGTATTGTTTTCTTATTCCCTCAAAAAATATAATGTGTTCAAACGTCAA
196 TAAATCATATATTCCAAGTATTGTTTTCTTATTCCCTCAAAAAATATAATGTGTTCAAACGTCAA
*
4124047 AATATTATTTG
261 AATATTACTTG
4124058 ACA
1 ACA
4124061 TTTCTATTAA
Statistics
Matches: 266, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
269 2 0.01
270 211 0.79
271 53 0.20
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (271 bp):
ACAGAATAAGAAATAAAATTACTAGAGCAAGATTAATGGAAATGGGAGAGAATAAAGGGAAAATC
GGAGAACTTGCATAAAATACATAAAATATAATGTCTTTATTTAATGGGGTTACTCCAAGAATGAG
GAGAAATGAATATCAAATTTGAAACCTTAATTTTTTCAAAAATTAAATATGAAAGGGCGCTTCAT
TAAATCATATATTCCAAGTATTGTTTTCTTATTCCCTCAAAAAATATAATGTGTTCAAACGTCAA
AATATTACTTG
Found at i:4124846 original size:31 final size:31
Alignment explanation
Indices: 4124811--4124870 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4124801 GATATTCCTA
*
4124811 GAATAGCTCAATTCATGTTAGGATATCCCGG
1 GAATAGCTCAATTCACGTTAGGATATCCCGG
* * *
4124842 GAATAGCTTAATTGACGTTGGGATATCCC
1 GAATAGCTCAATTCACGTTAGGATATCCC
4124871 TGAAAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (31 bp):
GAATAGCTCAATTCACGTTAGGATATCCCGG
Found at i:4126127 original size:17 final size:17
Alignment explanation
Indices: 4126105--4126138 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4126095 GCTTTTTTTT
4126105 ATTATTCTTAATATAAA
1 ATTATTCTTAATATAAA
*
4126122 ATTATTTTTAATATAAA
1 ATTATTCTTAATATAAA
4126139 TATAGATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTATTCTTAATATAAA
Found at i:4127641 original size:23 final size:23
Alignment explanation
Indices: 4127614--4127668 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
4127604 AAATACTTTA
4127614 AATTTTATTAGCCAATCATAAAT
1 AATTTTATTAGCCAATCATAAAT
* *
4127637 AATTTTATCAGCCACTCATAAAT
1 AATTTTATTAGCCAATCATAAAT
4127660 AATTTTATT
1 AATTTTATT
4127669 GTTAGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (23 bp):
AATTTTATTAGCCAATCATAAAT
Found at i:4133616 original size:274 final size:274
Alignment explanation
Indices: 4133127--4133674 Score: 1087
Period size: 274 Copynumber: 2.0 Consensus size: 274
4133117 ACACCACGGT
4133127 AGCTGGGATTTCCTTGTTGATGATTTTGTCAAATCTGAAAAAAAAAAGCCAAGTAAATGAGAAGG
1 AGCTGGGATTTCCTTGTTGATGATTTTGTCAAATCTGAAAAAAAAAAGCCAAGTAAATGAGAAGG
4133192 AATGATCCCGGTAATTCACATCGAAGTGAAAAGGGAAGGAGCATTTACCGTCGAGAATTATTCTA
66 AATGATCCCGGTAATTCACATCGAAGTGAAAAGGGAAGGAGCATTTACCGTCGAGAATTATTCTA
4133257 AAAAAAAGAATTCTTTTGGCCTTCGGTGACCCAGGACTAAAAAAATTGAGAGGAAGAACTCCAAA
131 AAAAAAAGAATTCTTTTGGCCTTCGGTGACCCAGGACTAAAAAAATTGAGAGGAAGAACTCCAAA
*
4133322 ACAGACAGACAGAGAGAGAGAGGGAGTCGGCGAATAAATGGGTTGCTATGGATTGAAGGGATAGA
196 ACAGACAGACAGAGAGAGAGAGGGAGTCGGCCAATAAATGGGTTGCTATGGATTGAAGGGATAGA
4133387 TTTGAGGATTCAAA
261 TTTGAGGATTCAAA
4133401 AGCTGGGATTTCCTTGTTGATGATTTTGTCAAATCTGAAAAAAAAAAGCCAAGTAAATGAGAAGG
1 AGCTGGGATTTCCTTGTTGATGATTTTGTCAAATCTGAAAAAAAAAAGCCAAGTAAATGAGAAGG
4133466 AATGATCCCGGTAATTCACATCGAAGTGAAAAGGGAAGGAGCATTTACCGTCGAGAATTATTCTA
66 AATGATCCCGGTAATTCACATCGAAGTGAAAAGGGAAGGAGCATTTACCGTCGAGAATTATTCTA
4133531 AAAAAAAGAATTCTTTTGGCCTTCGGTGACCCAGGACTAAAAAAATTGAGAGGAAGAACTCCAAA
131 AAAAAAAGAATTCTTTTGGCCTTCGGTGACCCAGGACTAAAAAAATTGAGAGGAAGAACTCCAAA
4133596 ACAGACAGACAGAGAGAGAGAGGGAGTCGGCCAATAAATGGGTTGCTATGGATTGAAGGGATAGA
196 ACAGACAGACAGAGAGAGAGAGGGAGTCGGCCAATAAATGGGTTGCTATGGATTGAAGGGATAGA
4133661 TTTGAGGATTCAAA
261 TTTGAGGATTCAAA
4133675 TTTCAAATAT
Statistics
Matches: 273, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
274 273 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (274 bp):
AGCTGGGATTTCCTTGTTGATGATTTTGTCAAATCTGAAAAAAAAAAGCCAAGTAAATGAGAAGG
AATGATCCCGGTAATTCACATCGAAGTGAAAAGGGAAGGAGCATTTACCGTCGAGAATTATTCTA
AAAAAAAGAATTCTTTTGGCCTTCGGTGACCCAGGACTAAAAAAATTGAGAGGAAGAACTCCAAA
ACAGACAGACAGAGAGAGAGAGGGAGTCGGCCAATAAATGGGTTGCTATGGATTGAAGGGATAGA
TTTGAGGATTCAAA
Found at i:4136607 original size:14 final size:14
Alignment explanation
Indices: 4136588--4136621 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4136578 ATTTCATTTT
**
4136588 ATATTAATTGCATA
1 ATATTAATTAAATA
4136602 ATATTAATTAAATA
1 ATATTAATTAAATA
4136616 ATATTA
1 ATATTA
4136622 TAATTGCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATTAATTAAATA
Found at i:4138716 original size:21 final size:21
Alignment explanation
Indices: 4138684--4138724 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4138674 TCCTGCAGCA
4138684 TAAAAAATCTGAACCGGACAC
1 TAAAAAATCTGAACCGGACAC
4138705 TAAAAGAA-CTGAACCGGACA
1 TAAAA-AATCTGAACCGGACA
4138725 GGGAAAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (21 bp):
TAAAAAATCTGAACCGGACAC
Found at i:4138958 original size:8 final size:8
Alignment explanation
Indices: 4138945--4138970 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4138935 TTATGACATC
4138945 ATTAGAGA
1 ATTAGAGA
4138953 ATTAGAGA
1 ATTAGAGA
4138961 ATTAGAGA
1 ATTAGAGA
4138969 AT
1 AT
4138971 ATATCCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (8 bp):
ATTAGAGA
Found at i:4139666 original size:40 final size:40
Alignment explanation
Indices: 4139611--4139694 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
4139601 CTACGTGCGT
4139611 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
1 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
4139651 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
1 CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
4139691 CACA
1 CACA
4139695 GATGCAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (40 bp):
CACAACTCCCACCGGGTTCCTAGAACCAAAATCAAGCCAA
Found at i:4140505 original size:27 final size:29
Alignment explanation
Indices: 4140446--4140506 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
4140436 TAACAGAGAG
*
4140446 GAAAAGTATTCTGCTAAGCTAAAAATACA
1 GAAAAGTATTCTGCTAAGCTAAAAACACA
* *
4140475 -AAAATTATTCTGCTAGGC-AAAAACA-A
1 GAAAAGTATTCTGCTAAGCTAAAAACACA
4140501 GAAAAG
1 GAAAAG
4140507 ATTTTCTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.04
27 10 0.37
28 16 0.59
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (29 bp):
GAAAAGTATTCTGCTAAGCTAAAAACACA
Found at i:4145642 original size:22 final size:23
Alignment explanation
Indices: 4145589--4145644 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
4145579 TTTAATTAAA
* * *
4145589 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
4145612 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
4145634 ATTAAAATTAA
1 ATTAAAATTAA
4145645 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:4145657 original size:16 final size:16
Alignment explanation
Indices: 4145620--4145659 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4145610 TTAATAAAAT
* *
4145620 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
4145636 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
4145652 TAAAATTA
1 TAAAATTA
4145660 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:4145729 original size:66 final size:59
Alignment explanation
Indices: 4145662--4145781 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
4145652 TAAAATTATC
* * * *
4145662 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
*
4145720 AATTTATCAAATTATTAATTGTATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
4145779 AAA
1 AAA
4145782 CAAACTTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 6 0.11
59 49 0.89
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTATTGTAACAAAATCTAACATTTGATTAGTA
Found at i:4145887 original size:22 final size:24
Alignment explanation
Indices: 4145847--4145890 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4145837 AAATAAACTT
4145847 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
4145871 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
4145891 AATATTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:4147437 original size:10 final size:10
Alignment explanation
Indices: 4147422--4147456 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4147412 AATTTCTATG
4147422 ATTTTTATAT
1 ATTTTTATAT
4147432 ATTTTTAATAT
1 ATTTTT-ATAT
*
4147443 TTTTTTATAT
1 ATTTTTATAT
4147453 ATTT
1 ATTT
4147457 GGCAGGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:4148778 original size:2 final size:2
Alignment explanation
Indices: 4148771--4148809 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4148761 ACTTCATATG
4148771 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4148810 ACGCACACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4150576 original size:16 final size:17
Alignment explanation
Indices: 4150557--4150595 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4150547 TCTAAGCTTT
4150557 TGTTTT-TCTTTGAGCC
1 TGTTTTGTCTTTGAGCC
* *
4150573 TGTTTTGTTTTTGAGCT
1 TGTTTTGTCTTTGAGCC
4150590 TGTTTT
1 TGTTTT
4150596 ATGTGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.05, C:0.10, G:0.21, T:0.64
Consensus pattern (17 bp):
TGTTTTGTCTTTGAGCC
Found at i:4150696 original size:16 final size:15
Alignment explanation
Indices: 4150675--4150741 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
4150665 AACCAACGCA
4150675 GGATATCCCAAGAGCG
1 GGATATCCCAAG-GCG
* *
4150691 GGATATACCTAGGCCG
1 GGATATCCCAAGG-CG
* *
4150707 GGATATCCCTATGGAG
1 GGATATCCC-AAGGCG
*
4150723 GGATATCCCAAGCCG
1 GGATATCCCAAGGCG
4150738 GGAT
1 GGAT
4150742 GTCCTAGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
15 8 0.20
16 30 0.75
17 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (15 bp):
GGATATCCCAAGGCG
Found at i:4158230 original size:14 final size:14
Alignment explanation
Indices: 4158211--4158247 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4158201 ATTGTAGGGG
*
4158211 ATTCAAGAATGGTA
1 ATTCAAAAATGGTA
4158225 ATTCAAAAATGGTA
1 ATTCAAAAATGGTA
4158239 ATTCAAAAA
1 ATTCAAAAA
4158248 CGTAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (14 bp):
ATTCAAAAATGGTA
Found at i:4158252 original size:13 final size:14
Alignment explanation
Indices: 4158211--4158257 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4158201 ATTGTAGGGG
* *
4158211 ATTCAAGAATGGTA
1 ATTCAAAAATCGTA
*
4158225 ATTCAAAAATGGTA
1 ATTCAAAAATCGTA
4158239 ATTCAAAAA-CGTA
1 ATTCAAAAATCGTA
*
4158252 AATCAA
1 ATTCAA
4158258 CAGCGTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.26
Consensus pattern (14 bp):
ATTCAAAAATCGTA
Found at i:4159732 original size:13 final size:13
Alignment explanation
Indices: 4159714--4159742 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4159704 TTTTGTTGTA
4159714 TTCATAACTCCCC
1 TTCATAACTCCCC
4159727 TTCATAACTCCCC
1 TTCATAACTCCCC
4159740 TTC
1 TTC
4159743 GACATAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (13 bp):
TTCATAACTCCCC
Found at i:4161728 original size:24 final size:24
Alignment explanation
Indices: 4161701--4161752 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4161691 CTATGGAAAG
*
4161701 AAATAATAAAGAT-TATATGCTAAT
1 AAATAACAAAGATAT-TATGCTAAT
* *
4161725 AAATAACAAATATATTATGTTAAT
1 AAATAACAAAGATATTATGCTAAT
4161749 AAAT
1 AAAT
4161753 TCTAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAACAAAGATATTATGCTAAT
Found at i:4169541 original size:14 final size:14
Alignment explanation
Indices: 4169524--4169554 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4169514 TTTGCTACTC
4169524 TTTTTTTTTAT-AA
1 TTTTTTTTTATAAA
4169537 TTTTTTTTTATAAA
1 TTTTTTTTTATAAA
4169551 TTTT
1 TTTT
4169555 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTATAAA
Found at i:4174706 original size:21 final size:21
Alignment explanation
Indices: 4174673--4174726 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
4174663 TCTCGCATGA
*
4174673 AGTTGGTGCTACTTCAATAATT
1 AGTTTGTG-TACTTCAATAATT
4174695 AGTTTGTGTACTTCAATAATT
1 AGTTTGTGTACTTCAATAATT
4174716 AGTTTGTGTAC
1 AGTTTGTGTAC
4174727 GATACTTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (21 bp):
AGTTTGTGTACTTCAATAATT
Found at i:4174801 original size:22 final size:22
Alignment explanation
Indices: 4174773--4174815 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4174763 GGATTATCTT
4174773 GAGAATTTTTGAACGTGAGAAG
1 GAGAATTTTTGAACGTGAGAAG
4174795 GAGAATTTTTGAACGTGAGAA
1 GAGAATTTTTGAACGTGAGAA
4174816 AGCATTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.30, T:0.28
Consensus pattern (22 bp):
GAGAATTTTTGAACGTGAGAAG
Found at i:4175158 original size:59 final size:60
Alignment explanation
Indices: 4175079--4175194 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 60
4175069 GGAAATTTTG
* * * * *
4175079 ATTTTTTTTTTGAAATTTTTAGAAATTTTTATTTAGGT-TTTCCAAAATTTTAAAAAATC
1 ATTTTTTTTCTGAAACTTTTAGAAAATTTTAATTAGATCTTTCCAAAATTTTAAAAAATC
* * *
4175138 ATTTTTTTTCTGAAGCTTTTAGAAAATTTTAATTAGATCTTTTCAAAATTTTGAAAA
1 ATTTTTTTTCTGAAACTTTTAGAAAATTTTAATTAGATCTTTCCAAAATTTTAAAAA
4175195 TTTTTAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 32 0.67
60 16 0.33
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (60 bp):
ATTTTTTTTCTGAAACTTTTAGAAAATTTTAATTAGATCTTTCCAAAATTTTAAAAAATC
Found at i:4175252 original size:23 final size:23
Alignment explanation
Indices: 4175208--4175250 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4175198 TTAATTATAC
**
4175208 CTTTTAATTATTTTTTTAAAATT
1 CTTTTAATTATTTTTAAAAAATT
4175231 CTTTTAATT-TTTTTAAAAAA
1 CTTTTAATTATTTTTAAAAAA
4175251 ATCACATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (23 bp):
CTTTTAATTATTTTTAAAAAATT
Found at i:4210949 original size:16 final size:16
Alignment explanation
Indices: 4210924--4210965 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4210914 TTAAACTAAA
4210924 ATTTAATATTTTTTAT
1 ATTTAATATTTTTTAT
*
4210940 ATTTACTATTTTTTAT
1 ATTTAATATTTTTTAT
*
4210956 AATTAA-ATTT
1 ATTTAATATTT
4210966 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTAATATTTTTTAT
Found at i:4214560 original size:24 final size:22
Alignment explanation
Indices: 4214516--4214561 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4214506 TGGACAAAAA
*
4214516 TTAATTTTAAATATATTTAATG
1 TTAAATTTAAATATATTTAATG
4214538 TTAAATTTAAATTAATATTTAATG
1 TTAAATTTAAA-T-ATATTTAATG
4214562 CAAAAAGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
TTAAATTTAAATATATTTAATG
Found at i:4225197 original size:154 final size:154
Alignment explanation
Indices: 4224970--4225262 Score: 379
Period size: 154 Copynumber: 1.9 Consensus size: 154
4224960 GAATTAAAGC
* * * * ** *
4224970 TATTAAATTTAAGTAACCAATTTATAAGTTTATAATGTTTTAAATTTGTATTAGAATACATTCTT
1 TATTAAATTCAAGTAACCAATTTATAAGTTTATAACGTTTCAAACTCATAGTAGAATACATTCTT
* * * * * *
4225035 TCAGATGATTAATTATAAAGTTTATAAATCTAATAAGCTCAATTAATCAATATGAGCTACCAAAT
66 TAAGATGATAAATTATAAAGTTAATAAATCTAACAAACTCAATTAATCAATACGAGCTACCAAAT
*
4225100 TAAATTAATCAATTAATCACGAGT
131 GAAATTAATCAATTAATCACGAGT
* * * * *
4225124 TATTAAATTCAAGTGATCAATTTTTAAGTTTATAACGTTTCAAACTCATAGTAGAATATATTTTT
1 TATTAAATTCAAGTAACCAATTTATAAGTTTATAACGTTTCAAACTCATAGTAGAATACATTCTT
* * * *
4225189 TAATATGATAAATTATAAAGTTAATAAATTTAACAAACTCAATTAATCAATACGAGTTATCAAAT
66 TAAGATGATAAATTATAAAGTTAATAAATCTAACAAACTCAATTAATCAATACGAGCTACCAAAT
4225254 GAAATTAAT
131 GAAATTAAT
4225263 TTATAATGAA
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
154 116 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (154 bp):
TATTAAATTCAAGTAACCAATTTATAAGTTTATAACGTTTCAAACTCATAGTAGAATACATTCTT
TAAGATGATAAATTATAAAGTTAATAAATCTAACAAACTCAATTAATCAATACGAGCTACCAAAT
GAAATTAATCAATTAATCACGAGT
Found at i:4226257 original size:13 final size:13
Alignment explanation
Indices: 4226239--4226263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4226229 TGTAAGAGGA
4226239 TGATAAGGATGGC
1 TGATAAGGATGGC
4226252 TGATAAGGATGG
1 TGATAAGGATGG
4226264 AGATGGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.24
Consensus pattern (13 bp):
TGATAAGGATGGC
Found at i:4235044 original size:6 final size:6
Alignment explanation
Indices: 4235033--4235059 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4235023 GAAAGACAGA
4235033 GAGAGG GAGAGG GAGAGG GAGAGG GAG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAG
4235060 CGAGAACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:4235146 original size:18 final size:18
Alignment explanation
Indices: 4235123--4235157 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4235113 CTTGGAGCGA
4235123 CGGGAGAAGGAAAGAGAG
1 CGGGAGAAGGAAAGAGAG
*
4235141 CGGGAGAAGGAGAGAGA
1 CGGGAGAAGGAAAGAGA
4235158 ACGAGAGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.51, T:0.00
Consensus pattern (18 bp):
CGGGAGAAGGAAAGAGAG
Found at i:4237340 original size:15 final size:15
Alignment explanation
Indices: 4237320--4237348 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4237310 CAGTTTCCTT
4237320 TTATTATCTACACTG
1 TTATTATCTACACTG
4237335 TTATTATCTACACT
1 TTATTATCTACACT
4237349 ATAAGGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.03, T:0.48
Consensus pattern (15 bp):
TTATTATCTACACTG
Found at i:4240949 original size:45 final size:45
Alignment explanation
Indices: 4240893--4240980 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
4240883 ATGATTGTGA
*
4240893 CCAAGGAAGAAACTACCACAGATCAAGTTGAGGAGCCAAAGATGG
1 CCAAGGAAGAAACTAACACAGATCAAGTTGAGGAGCCAAAGATGG
* *** *
4240938 CCAATGAAGAAACTAACGTTGATCATGTTGAGGAGCCAAAGAT
1 CCAAGGAAGAAACTAACACAGATCAAGTTGAGGAGCCAAAGAT
4240981 AAAAGATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (45 bp):
CCAAGGAAGAAACTAACACAGATCAAGTTGAGGAGCCAAAGATGG
Found at i:4245825 original size:3 final size:3
Alignment explanation
Indices: 4245817--4245843 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4245807 TAAATACCAA
4245817 GCT GCT GCT GCT GCT GCT GCT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT
4245844 CCTTGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
GCT
Found at i:4259362 original size:95 final size:95
Alignment explanation
Indices: 4259199--4259486 Score: 576
Period size: 95 Copynumber: 3.0 Consensus size: 95
4259189 AAATGGATTG
4259199 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
1 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
4259264 CATCACTCAAACAAAAGTTAAACATCATCA
66 CATCACTCAAACAAAAGTTAAACATCATCA
4259294 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
1 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
4259359 CATCACTCAAACAAAAGTTAAACATCATCA
66 CATCACTCAAACAAAAGTTAAACATCATCA
4259389 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
1 CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
4259454 CATCACTCAAACAAAAGTTAAACATCATCA
66 CATCACTCAAACAAAAGTTAAACATCATCA
4259484 CAC
1 CAC
4259487 AGCTCATTTT
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 193 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (95 bp):
CACTTGAACCAACTCGAAGATTGCAAAAGTCAATGGCTTTTTAAAATCAACTTTTTGCGTTACTT
CATCACTCAAACAAAAGTTAAACATCATCA
Found at i:4271400 original size:18 final size:17
Alignment explanation
Indices: 4271374--4271425 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
4271364 TTTTAATTTT
4271374 TTTTAAAATAATAAAAA
1 TTTTAAAATAATAAAAA
*
4271391 TTTATAAAAT-AT-AAAC
1 TTT-TAAAATAATAAAAA
*
4271407 TATTAAAATAATAAAAA
1 TTTTAAAATAATAAAAA
4271424 TT
1 TT
4271426 ATATTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 6 0.21
16 7 0.25
17 9 0.32
18 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTTAAAATAATAAAAA
Found at i:4271401 original size:15 final size:16
Alignment explanation
Indices: 4271375--4271425 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
4271365 TTTAATTTTT
4271375 TTTAAAATAATAAAAA
1 TTTAAAATAATAAAAA
* *
4271391 TTTATAA-AATATAAAC
1 TTTAAAATAATA-AAAA
4271407 TATTAAAATAATAAAAA
1 T-TTAAAATAATAAAAA
4271424 TT
1 TT
4271426 ATATTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 4 0.14
16 11 0.39
17 9 0.32
18 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAAATAATAAAAA
Found at i:4272502 original size:5 final size:5
Alignment explanation
Indices: 4272492--4272521 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4272482 TATTAAGCAA
4272492 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT
1 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT
4272522 CTATCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (5 bp):
GCCAT
Found at i:4282911 original size:12 final size:12
Alignment explanation
Indices: 4282894--4282918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4282884 AATAGTTAAA
4282894 AAATATTACTAT
1 AAATATTACTAT
4282906 AAATATTACTAT
1 AAATATTACTAT
4282918 A
1 A
4282919 TGGTTTTATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATTACTAT
Found at i:4283208 original size:15 final size:15
Alignment explanation
Indices: 4283179--4283217 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4283169 AATTTGAAAA
*
4283179 AATATATTA-TATTT
1 AATATATAATTATTT
4283193 AATATATAATTATTT
1 AATATATAATTATTT
*
4283208 AAAATATAAT
1 AATATATAAT
4283218 GCAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATATAATTATTT
Found at i:4284458 original size:109 final size:109
Alignment explanation
Indices: 4284264--4284467 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 109
4284254 ATATCAAATA
* * * *
4284264 AAAAAAAACTAAAATTGACAAAATACTTTGAGGATTGATTTAGAGAACGTTGAGATTGAACCATA
1 AAAAAAAACTAAAATTGACAAAATACTTTGAGGACTAAATTAGAGAACGTTAAGATTGAACCATA
* * * *
4284329 GTTTAGGGATGTGTGGTGCAAATAATAAAACTATAATATATAAT
66 GTTGAGGGACGTATGATGCAAATAATAAAACTATAATATATAAT
* * * **
4284373 AAAAAAAACTAAAATTGACACAATACTTTGAGGACTAAATTAGA-AGATGTTAAGTTTGAGTCAT
1 AAAAAAAACTAAAATTGACAAAATACTTTGAGGACTAAATTAGAGA-ACGTTAAGATTGAACCAT
* *
4284437 AGTTGAGGGGCGTATGATGCAATTAATAAAA
65 AGTTGAGGGACGTATGATGCAAATAATAAAA
4284468 ATATCGGTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 1 0.01
109 78 0.99
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (109 bp):
AAAAAAAACTAAAATTGACAAAATACTTTGAGGACTAAATTAGAGAACGTTAAGATTGAACCATA
GTTGAGGGACGTATGATGCAAATAATAAAACTATAATATATAAT
Found at i:4285116 original size:16 final size:17
Alignment explanation
Indices: 4285092--4285130 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4285082 ATTTATAAAA
* *
4285092 TTTATAAATTTT-GATT
1 TTTAAAAATTTTCAATT
4285108 TTTAAAAATTTTCAATT
1 TTTAAAAATTTTCAATT
4285125 TTTAAA
1 TTTAAA
4285131 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAAAATTTTCAATT
Found at i:4285141 original size:22 final size:24
Alignment explanation
Indices: 4285116--4285165 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4285106 TTTTTAAAAA
*
4285116 TTTTCAATTT-TT-AAATTAATCT
1 TTTTCAATTTCTTGAAATTAAGCT
*
4285138 TTTTCAATTTCTTGACATTAAGCT
1 TTTTCAATTTCTTGAAATTAAGCT
4285162 TTTT
1 TTTT
4285166 TTAAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTCAATTTCTTGAAATTAAGCT
Found at i:4288285 original size:29 final size:28
Alignment explanation
Indices: 4288219--4288285 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
4288209 GAGTTTCACG
*
4288219 TATATAATTGCACTAAATTAAAATTCGTA
1 TATATAATTGCACTAAATCAAAATTCG-A
*
4288248 TATACAATTGCACATTAAATCAAAATTC-A
1 TATATAATTGCAC--TAAATCAAAATTCGA
*
4288277 TGTATAATT
1 TATATAATT
4288286 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 20 0.62
31 12 0.38
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (28 bp):
TATATAATTGCACTAAATCAAAATTCGA
Found at i:4291483 original size:21 final size:21
Alignment explanation
Indices: 4291459--4291503 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
4291449 TCTATTGAAA
*
4291459 ACATATATATATCGAACATTC
1 ACATACATATATCGAACATTC
4291480 ACATACATATATCGAACATTC
1 ACATACATATATCGAACATTC
4291501 ACA
1 ACA
4291504 CTCGAATCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (21 bp):
ACATACATATATCGAACATTC
Found at i:4296019 original size:28 final size:31
Alignment explanation
Indices: 4295952--4296020 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
4295942 GCCACAAAAT
* *
4295952 ATTATTTAATAAAAAAGTACTAACGATTTTA
1 ATTATTAAATAAAAAAGTACAAACGATTTTA
4295983 ATTATTAAATAAAAAA-TACAAAC-A-TTTA
1 ATTATTAAATAAAAAAGTACAAACGATTTTA
*
4296011 ATTTTTAAAT
1 ATTATTAAAT
4296021 TTTAAGTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.37
29 1 0.03
30 6 0.17
31 15 0.43
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTATTAAATAAAAAAGTACAAACGATTTTA
Found at i:4309501 original size:21 final size:21
Alignment explanation
Indices: 4309477--4309518 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4309467 AAAGTCTGAT
4309477 GTTCAAAGTTTAGG-GTTTAGG
1 GTTCAAAGTTT-GGAGTTTAGG
*
4309498 GTTCTAAGTTTGGAGTTTAGG
1 GTTCAAAGTTTGGAGTTTAGG
4309519 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.40
Consensus pattern (21 bp):
GTTCAAAGTTTGGAGTTTAGG
Found at i:4315354 original size:101 final size:101
Alignment explanation
Indices: 4315179--4315401 Score: 295
Period size: 101 Copynumber: 2.2 Consensus size: 101
4315169 AATTGACGGA
* * * *
4315179 TAAGACCATGGTTGGACCATGACAATGTTTATATGTAAGACCATAGCTGGGCTATGGCATTTTAG
1 TAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGACCACAGCTGGGCTATGGCATTTGAG
* **
4315244 TGAAAAGACCATAACTGAGTTATGGCACTTTGAACG
66 TGAAAAGACCATAACTGAGTTATGACACTACGAACG
* * *
4315280 TAAGACCATGGTTGGACCATGACAGTATTTATAAGTAATACCACAGCTGGGCTGTGGCATTCTGA
1 TAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGACCACAGCTGGGCTATGGCATT-TGA
* * *
4315345 -TGATAAGACCATAACTGGGTTATGACACTACGAATG
65 GTGAAAAGACCATAACTGAGTTATGACACTACGAACG
* *
4315381 TAAGACCATGGCTGGGCCATG
1 TAAGACCATGGTTGGACCATG
4315402 GAAATGCATG
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 104 0.98
102 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATATTTATAAGTAAGACCACAGCTGGGCTATGGCATTTGAG
TGAAAAGACCATAACTGAGTTATGACACTACGAACG
Found at i:4317266 original size:18 final size:19
Alignment explanation
Indices: 4317226--4317267 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4317216 TTTATTTTAT
* *
4317226 TATAATGTATATTAAATGA
1 TATATTGTATATAAAATGA
4317245 -ATATTGTATATAAAAT-A
1 TATATTGTATATAAAATGA
4317262 TATATT
1 TATATT
4317268 AGTAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
TATATTGTATATAAAATGA
Found at i:4322562 original size:16 final size:16
Alignment explanation
Indices: 4322541--4322592 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
4322531 TTTGGTTCGC
4322541 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
4322557 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
4322573 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4322589 TGTA
1 TGTA
4322593 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4322657 original size:44 final size:45
Alignment explanation
Indices: 4322573--4322663 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4322563 GGATTAGATG
* * *
4322573 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
4322618 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
4322662 TG
1 TG
4322664 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:4322845 original size:16 final size:16
Alignment explanation
Indices: 4322808--4322862 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4322798 TTAATCATAT
*
4322808 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
4322824 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
4322839 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
4322857 -TAAAAT
1 TTAAAAT
4322863 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:4322855 original size:18 final size:18
Alignment explanation
Indices: 4322814--4322862 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
4322804 ATATTTAAAC
4322814 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
4322832 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
4322848 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
4322863 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:4323092 original size:18 final size:17
Alignment explanation
Indices: 4323065--4323099 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4323055 TTAATATTAA
*
4323065 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4323083 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4323100 TCTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.