Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 16 of 196
Found at i:4540966 original size:19 final size:18
Alignment explanation
Indices: 4540944--4541006 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
4540934 TTTTTTTTGC
4540944 AAAATCAAAATTTTCTTTAA
1 AAAATCAAAATTTT-TTT-A
**
4540964 AAAATCATTATTTTTCTTA
1 AAAATCAAAATTTTT-TTA
*
4540983 AAAATCAAAACTTTATTTA
1 AAAATCAAAA-TTTTTTTA
*
4541002 GAAAT
1 AAAAT
4541007 AGTTAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATCAAAATTTTTTTA
Found at i:4540967 original size:20 final size:19
Alignment explanation
Indices: 4540944--4540992 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4540934 TTTTTTTTGC
4540944 AAAATCAAAA-TTTTCTTTAA
1 AAAATCAAAATTTTTC-TT-A
**
4540964 AAAATCATTATTTTTCTTA
1 AAAATCAAAATTTTTCTTA
4540983 AAAATCAAAA
1 AAAATCAAAA
4540993 CTTTATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATCAAAATTTTTCTTA
Found at i:4541183 original size:21 final size:21
Alignment explanation
Indices: 4541159--4541204 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4541149 GAAATAGAAA
4541159 AAAAAATCAAAACTTTAT-TTT
1 AAAAAATCAAAACTTT-TCTTT
**
4541180 AAAAAATTTAAACTTTTCTTT
1 AAAAAATCAAAACTTTTCTTT
4541201 AAAA
1 AAAA
4541205 TGACTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAATCAAAACTTTTCTTT
Found at i:4541290 original size:147 final size:146
Alignment explanation
Indices: 4540929--4541412 Score: 624
Period size: 147 Copynumber: 3.3 Consensus size: 146
4540919 ACGGTGGTCG
* * *
4540929 GATTTTT-TTTTTTGCAAAATC-AAAATTT-TCTTT-AAAAAATCATTATTTTTCTTAAAAATCA
1 GATTTTTATTTTTT--AAAATCTAAAATTTCTCTTTAAAAAAAACACTATTTTTCTTAAAGATCA
* * * * * **
4540990 AAAC-TTTATTTAGAAATAGTTAAAAAAGATCAAAATTTTGTTTTTAAAAAATGCAAACTTTTCC
64 AAACTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTT-ATTTTAAAAAATTTAAACTTTT-C
*
4541054 TTTAAAATGACTAAAAAACA
127 TTTAAAATGACTAAAAAATA
* * * *
4541074 AATTTTTA-TTTTAAAAATCTAAACTTTCTCTTTAAGAAAAACACTATTTTTCTTAAAGATCAAA
1 GATTTTTATTTTTTAAAATCTAAAATTTCTCTTTAAAAAAAACACTATTTTTCTTAAAGATCAAA
4541138 ACTTTTATTTTGAAATAG-AAAAAAAAATCAAAACTTTATTTTAAAAAATTTAAACTTTTCTTTA
66 ACTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTTATTTTAAAAAATTTAAACTTTTCTTTA
4541202 AAATGACTAAAAAATA
131 AAATGACTAAAAAATA
4541218 GATTTTTATTTTTTAAAATCTAAAATTTCTCCTTTAAAAAAAAACACTATTTTTCTTAAAGATCA
1 GATTTTTATTTTTTAAAATCTAAAATTTCT-CTTT-AAAAAAAACACTATTTTTCTTAAAGATCA
* * *
4541283 AAGCTTTTATTTTGAAATAGTTAAAAAAAAAATCAAAACTTTGTTTT-AAAAATTTAAACTTTCC
64 AAACTTTTATTTTGAAATAG-T-AAAAAAAAATCAAAACTTTATTTTAAAAAATTTAAACTTTTC
4541347 TTTAAAATGACTAAAAAAAATA
127 TTTAAAATGACT--AAAAAATA
* *
4541369 GATTTTTAATTTTTAAAATCTAAACTTTCTCTTTTTAAAAAAAA
1 GATTTTTATTTTTTAAAATCTAAAATTTCTC--TTTAAAAAAAA
4541413 ATCAAAACTT
Statistics
Matches: 300, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
143 6 0.02
144 33 0.11
145 53 0.18
146 48 0.16
147 61 0.20
149 28 0.09
150 24 0.08
151 44 0.15
152 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (146 bp):
GATTTTTATTTTTTAAAATCTAAAATTTCTCTTTAAAAAAAACACTATTTTTCTTAAAGATCAAA
ACTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTTATTTTAAAAAATTTAAACTTTTCTTTA
AAATGACTAAAAAATA
Found at i:4542691 original size:13 final size:13
Alignment explanation
Indices: 4542673--4542700 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4542663 ATAAAATTAG
4542673 AAAGATGAAAAAT
1 AAAGATGAAAAAT
4542686 AAAGATGAAAAAT
1 AAAGATGAAAAAT
4542699 AA
1 AA
4542701 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:4543852 original size:25 final size:25
Alignment explanation
Indices: 4543824--4543886 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
4543814 AGCTCTTACG
4543824 AGCTTCCTGTTATTAAGCCCGA-ATA
1 AGCTTCCTGTTATTAAGCCC-ACATA
* * *
4543849 AGCTTCTTGTTA-CAAGCTCACATA
1 AGCTTCCTGTTATTAAGCCCACATA
*
4543873 AGCTTTCTGTTATT
1 AGCTTCCTGTTATT
4543887 TGGCTTGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 11 0.37
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (25 bp):
AGCTTCCTGTTATTAAGCCCACATA
Found at i:4550030 original size:20 final size:20
Alignment explanation
Indices: 4550007--4550049 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4549997 AACAAGCAAC
4550007 TTTCATATTTCTTCTT-TTCT
1 TTTC-TATTTCTTCTTGTTCT
* *
4550027 TTTCTTTTTCTTTTTGTTCT
1 TTTCTATTTCTTCTTGTTCT
4550047 TTT
1 TTT
4550050 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTCTATTTCTTCTTGTTCT
Found at i:4550036 original size:19 final size:19
Alignment explanation
Indices: 4550014--4550054 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4550004 AACTTTCATA
4550014 TTTCTTCTT-TTCTTTTCTT
1 TTTCTTCTTGTTCTTTT-TT
*
4550033 TTTCTTTTTGTTCTTTTTT
1 TTTCTTCTTGTTCTTTTTT
4550052 TTT
1 TTT
4550055 TTTTTTGCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTCTTCTTGTTCTTTTTT
Found at i:4550056 original size:15 final size:15
Alignment explanation
Indices: 4550018--4550055 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4550008 TTCATATTTC
*
4550018 TTCTTTTCTTTTCTTT
1 TTCTTTT-TGTTCTTT
4550034 TTCTTTTTGTTCTTT
1 TTCTTTTTGTTCTTT
4550049 TT-TTTTT
1 TTCTTTTT
4550056 TTTTTGCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (15 bp):
TTCTTTTTGTTCTTT
Found at i:4554426 original size:26 final size:24
Alignment explanation
Indices: 4554380--4554444 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
4554370 TTTTTTCTAA
* *
4554380 TCGAGTCAAGTTAAATGAAATTCGAG
1 TCGAGTCAAATTAAATAAAATT-G-G
* *
4554406 TCGAGTCAAATTAAGTAAAATTGT
1 TCGAGTCAAATTAAATAAAATTGG
*
4554430 TCGAGTTAAATTAAA
1 TCGAGTCAAATTAAA
4554445 AAATTAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 13 0.39
25 1 0.03
26 19 0.58
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (24 bp):
TCGAGTCAAATTAAATAAAATTGG
Found at i:4554685 original size:23 final size:23
Alignment explanation
Indices: 4554649--4554694 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4554639 TTTTTTTGAA
*
4554649 AATTTTATATTTTTTAAAAATAT
1 AATTTTATAATTTTTAAAAATAT
* *
4554672 AATTTTTTAATTTTTATAAATAT
1 AATTTTATAATTTTTAAAAATAT
4554695 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTTTATAATTTTTAAAAATAT
Found at i:4554733 original size:20 final size:19
Alignment explanation
Indices: 4554672--4554744 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
4554662 TTAAAAATAT
4554672 AATT-TTTT-AATTTTTATA
1 AATTATTTTGAATTTTTA-A
4554690 AA-TATTTTGAA-TTTTAA
1 AATTATTTTGAATTTTTAA
4554707 AATTTATTTTGAATTTTTGAA
1 AA-TTATTTTGAATTTTT-AA
4554728 AATTATTTTGAATTTTT
1 AATTATTTTGAATTTTT
4554745 TGTAATTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 11 0.22
20 19 0.39
21 4 0.08
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
AATTATTTTGAATTTTTAA
Found at i:4554930 original size:14 final size:14
Alignment explanation
Indices: 4554911--4554940 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4554901 TAACTCGAAT
4554911 AATTTGAATAACTC
1 AATTTGAATAACTC
*
4554925 AATTTGATTAACTC
1 AATTTGAATAACTC
4554939 AA
1 AA
4554941 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTTGAATAACTC
Found at i:4561676 original size:34 final size:34
Alignment explanation
Indices: 4561633--4561701 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
4561623 TGCATGTAAG
*
4561633 TCCATTCTAAACCCATTTTTAGTAATTTTTATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
* ***
4561667 TCCATTCTAAGCTTGTTTTTAGTAATTTTCATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
4561701 T
1 T
4561702 TTTGAGATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (34 bp):
TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
Found at i:4566495 original size:25 final size:24
Alignment explanation
Indices: 4566466--4566524 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 24
4566456 ACTCCCAGCG
4566466 TCGCGTGCTCTGTCAGGCACCTCC
1 TCGCGTGCTCTGTCAGGCACCTCC
4566490 TCCGCGTGCTCTGTCAGGCACCTCC
1 T-CGCGTGCTCTGTCAGGCACCTCC
*
4566515 TCGCATGCTC
1 TCGCGTGCTC
4566525 GCCGCCACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.08, C:0.42, G:0.24, T:0.25
Consensus pattern (24 bp):
TCGCGTGCTCTGTCAGGCACCTCC
Found at i:4570614 original size:3 final size:3
Alignment explanation
Indices: 4570606--4570644 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4570596 AAAATAATCC
4570606 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4570645 CCTTCCCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4583028 original size:32 final size:31
Alignment explanation
Indices: 4582983--4583054 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
4582973 ATACATCCAT
*
4582983 TTTTCT-TTCTATTTT-TT-TTCTTATTTTTTC
1 TTTTCTGTTCTATTTTGTTATT-TT-TCTTTTC
4583013 TTTTCTGTTGCTATTTTGTTATTTTTCTTTTC
1 TTTTCTGTT-CTATTTTGTTATTTTTCTTTTC
4583045 TCTTTCTGTT
1 T-TTTCTGTT
4583055 TGCTGCTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 6 0.17
31 2 0.06
32 14 0.39
33 12 0.33
34 2 0.06
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (31 bp):
TTTTCTGTTCTATTTTGTTATTTTTCTTTTC
Found at i:4583467 original size:17 final size:16
Alignment explanation
Indices: 4583435--4583474 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
4583425 TGTATTAGAC
*
4583435 TTTTAT-TATATTTAT
1 TTTTATATATATATAT
4583450 TTTCTATATATATATAT
1 TTT-TATATATATATAT
4583467 TTTTATAT
1 TTTTATAT
4583475 TTTGGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 11 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATATATATATAT
Found at i:4592558 original size:19 final size:18
Alignment explanation
Indices: 4592530--4592565 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4592520 ACCTTGTCAC
4592530 CTTGCTTTCTCACACTTT
1 CTTGCTTTCTCACACTTT
*
4592548 CTTGACTTTCTCTCACTT
1 CTTG-CTTTCTCACACTT
4592566 CCAACTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTGCTTTCTCACACTTT
Found at i:4595566 original size:47 final size:47
Alignment explanation
Indices: 4595497--4595592 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
4595487 CGACTAATGC
4595497 ACATAGTGTGTATCACCTGAGTATCCTTCGATGTTTCATTAGGTTCA
1 ACATAGTGTGTATCACCTGAGTATCCTTCGATGTTTCATTAGGTTCA
4595544 ACATAGTGTGTATCACCTGAGTATCCTTCGATGTTTCATTAGGTTCA
1 ACATAGTGTGTATCACCTGAGTATCCTTCGATGTTTCATTAGGTTCA
4595591 AC
1 AC
4595593 GGGCATTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.38
Consensus pattern (47 bp):
ACATAGTGTGTATCACCTGAGTATCCTTCGATGTTTCATTAGGTTCA
Found at i:4609768 original size:2 final size:2
Alignment explanation
Indices: 4609761--4609789 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4609751 AAAACAAACA
4609761 TC 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 TC T
4609790 GTTAGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4618249 original size:21 final size:21
Alignment explanation
Indices: 4618223--4618277 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
4618213 AATCATATCT
4618223 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
4618244 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
4618263 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
4618278 CCTTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:4618263 original size:24 final size:20
Alignment explanation
Indices: 4618214--4618265 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
4618204 ATATTACAAA
4618214 ATCATATCTTCTAAGATTGT
1 ATCATATCTTCTAAGATTGT
4618234 AT-ATATCATATCTAAGATTGCAT
1 ATCATATC-T-TCTAAGATTG--T
4618257 ATCATATCT
1 ATCATATCT
4618266 AAGATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 10 0.37
23 4 0.15
24 5 0.19
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (20 bp):
ATCATATCTTCTAAGATTGT
Found at i:4620237 original size:6 final size:6
Alignment explanation
Indices: 4620226--4620260 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4620216 ATATATTTTA
4620226 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
4620261 AAAGTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:4624989 original size:287 final size:287
Alignment explanation
Indices: 4624471--4625046 Score: 913
Period size: 287 Copynumber: 2.0 Consensus size: 287
4624461 ATCGTGGTCT
* *
4624471 TCATCGACGATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAATAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* *
4624536 CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGTTCTGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
* * * *
4624601 GGTAACTTTTTTAGGTCATGTGGTTTCTACTGAGGGGATTCAAGTTGATCCAAATAAGATTGAAG
131 CGTAACTTTTCTAGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
* * *
4624666 TTGCATTTGATTGGAAGTAACCAAAGAATATATCTGAGATTCGTAGTTTTCTGGGTCTTGCGGGG
196 TTGCACTTGATTGGAAGCAACCAAAGAATATATCTGAGATTCATAGTTTTCTGGGTCTTGCGGGG
4624731 TATTATCGGTGTTTTGTTGAGGGGTTC
261 TATTATCGGTGTTTTGTTGAGGGGTTC
4624758 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * *
4624823 CTTCAGATACTCCGAGGGAAGCAGCTCTATGTTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
* * * ** **
4624888 CGTAACTTTTCTGGGTCATATGTTTTCTGCTGAGGGGATTTGAGTTGATCTGAAGAAGATT-AAG
131 CGTAACTTTTCTAGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
* *
4624952 ATTGCACTTGATTGGAAGCAGA-CTAAGAATGTATCTGAGATTCATAGTTTTCTGGGTCTTGCGG
196 -TTGCACTTGATTGGAAGCA-ACCAAAGAATATATCTGAGATTCATAGTTTTCTGGGTCTTGCGG
4625016 GGTATTATCGGTGTTTTGTTGAGGGGTTC
259 GGTATTATCGGTGTTTTGTTGAGGGGTTC
4625045 TC
1 TC
4625047 TTTGATTGCA
Statistics
Matches: 264, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
286 3 0.01
287 260 0.98
288 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (287 bp):
TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
CGTAACTTTTCTAGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
TTGCACTTGATTGGAAGCAACCAAAGAATATATCTGAGATTCATAGTTTTCTGGGTCTTGCGGGG
TATTATCGGTGTTTTGTTGAGGGGTTC
Found at i:4628702 original size:26 final size:24
Alignment explanation
Indices: 4628667--4628715 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4628657 TTTTATGAAC
* *
4628667 TTTTTATATTCTTTTTATTTTTTAT
1 TTTTTATATT-TTTATAATTTTTAT
4628692 TTTTGTATATTTTTATAATTTTTA
1 TTTT-TATATTTTTATAATTTTTA
4628716 AATTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATATTTTTATAATTTTTAT
Found at i:4629351 original size:31 final size:29
Alignment explanation
Indices: 4629289--4629352 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
4629279 AAATCAAATT
*
4629289 TTCATGTATAAAATTGCACAAAATTAAAG
1 TTCATGTATAAAATTGCACAAAACTAAAG
* *
4629318 TTCATGTATAACATTGCACATTGAACTAAAG
1 TTCATGTATAAAATTGCACA--AAACTAAAG
4629349 TTCA
1 TTCA
4629353 ATTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 19 0.63
31 11 0.37
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACTAAAG
Found at i:4629981 original size:84 final size:83
Alignment explanation
Indices: 4629826--4629982 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 83
4629816 TTGAACTTAC
*
4629826 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATCATTTTAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATAT-ATTTAAA
*
4629891 GAAAAAAAAAGTCAACTTT
65 AAAAAAAAAAGTCAACTTT
* * * **
4629910 ATCAATATTAATAATAAACGAATTATTTCTATTAT-TTTTAAGTAGAAATCGAATAT-TTTCCAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTTAAAA
*
4629973 AAATAAAAAG
66 AAAAAAAAAG
4629983 CTTCACGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 13 0.20
83 20 0.30
84 33 0.50
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (83 bp):
ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTTAAAA
AAAAAAAAAGTCAACTTT
Found at i:4630419 original size:18 final size:18
Alignment explanation
Indices: 4630388--4630426 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4630378 TTTAGAATTT
* * *
4630388 TTTTTGAAATTTTTAGAA
1 TTTTTAAAAATTTTAAAA
4630406 TTTTTAAAAATTTTAAAA
1 TTTTTAAAAATTTTAAAA
4630424 TTT
1 TTT
4630427 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATTTTAAAA
Found at i:4630440 original size:27 final size:26
Alignment explanation
Indices: 4630406--4630460 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
4630396 ATTTTTAGAA
4630406 TTTTTAAAAATTTTAAAATTTGAAAT
1 TTTTTAAAAATTTTAAAATTTGAAAT
* * *
4630432 TTTTATAAATATTTTGAATTTTGAAAT
1 TTTT-TAAAAATTTTAAAATTTGAAAT
4630459 TT
1 TT
4630461 ATTTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTTTAAAAATTTTAAAATTTGAAAT
Found at i:4635690 original size:21 final size:21
Alignment explanation
Indices: 4635666--4635708 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4635656 GGGGGAAAGT
*
4635666 GGGAAGAAGT-AAAAGTTTTGA
1 GGGAA-AAGTAAAAAGGTTTGA
4635687 GGGAAAAGTAAAAAGGTTTGA
1 GGGAAAAGTAAAAAGGTTTGA
4635708 G
1 G
4635709 AGTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGAAAAGTAAAAAGGTTTGA
Found at i:4635758 original size:9 final size:9
Alignment explanation
Indices: 4635744--4635780 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4635734 TATAGTTTGA
4635744 TATTCGAAT
1 TATTCGAAT
4635753 TATTCGAAT
1 TATTCGAAT
*
4635762 TATTCGAGT
1 TATTCGAAT
4635771 TATTCGAAT
1 TATTCGAAT
4635780 T
1 T
4635781 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4635851 original size:9 final size:9
Alignment explanation
Indices: 4635834--4635875 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
4635824 TCGAGTTGAT
*
4635834 TCGAATAAC
1 TCGATTAAC
4635843 TCGATTAAC
1 TCGATTAAC
4635852 TCGATTAAC
1 TCGATTAAC
*
4635861 TCGAATAAC
1 TCGATTAAC
4635870 TCGATT
1 TCGATT
4635876 CGTTTAACTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (9 bp):
TCGATTAAC
Found at i:4636680 original size:13 final size:13
Alignment explanation
Indices: 4636662--4636687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4636652 AACGCACCAT
4636662 AGTTCCCTTTGCC
1 AGTTCCCTTTGCC
4636675 AGTTCCCTTTGCC
1 AGTTCCCTTTGCC
4636688 TGGCGAGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.15, T:0.38
Consensus pattern (13 bp):
AGTTCCCTTTGCC
Found at i:4642555 original size:21 final size:21
Alignment explanation
Indices: 4642531--4642576 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4642521 GTTTAACTTA
* *
4642531 TATGAG-TCTCCGTTCAGCTCT
1 TATGAGCT-TCCGTTCAACCCT
4642552 TATGAGCTTCCGTTCAACCCT
1 TATGAGCTTCCGTTCAACCCT
4642573 TATG
1 TATG
4642577 GGTTTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (21 bp):
TATGAGCTTCCGTTCAACCCT
Found at i:4664546 original size:21 final size:23
Alignment explanation
Indices: 4664520--4664562 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
4664510 AAAAACACAC
*
4664520 AAAACCCTTAA-TTTG-GTTCTG
1 AAAACCATTAACTTTGTGTTCTG
4664541 AAAACCATTAACTTTGTGTTCT
1 AAAACCATTAACTTTGTGTTCT
4664563 AAATCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (23 bp):
AAAACCATTAACTTTGTGTTCTG
Found at i:4665977 original size:27 final size:26
Alignment explanation
Indices: 4665898--4665982 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 26
4665888 ATCTATTTTC
*
4665898 CTTATTT-TCTTTTTTATTGTTTTAAT
1 CTTATTTATCTATTTTATTGTTTT-AT
* *
4665924 CTTTGATTTAT-TATTCTATTTTATTTAT
1 C-TT-ATTTATCTATTTTATTGT-TTTAT
4665952 CTTATTTATCTATTTTAATTGTTTTAT
1 CTTATTTATCTATTTT-ATTGTTTTAT
4665979 CTTA
1 CTTA
4665983 CTTGGATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 7 0.15
27 18 0.38
28 19 0.40
29 4 0.08
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (26 bp):
CTTATTTATCTATTTTATTGTTTTAT
Found at i:4665978 original size:22 final size:23
Alignment explanation
Indices: 4665930--4665978 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
4665920 TAATCTTTGA
*
4665930 TTTA-TTATTCTATTTTATTTAT
1 TTTATTTATTCTATTTTAATTAT
* *
4665952 CTTATTTA-TCTATTTTAATTGT
1 TTTATTTATTCTATTTTAATTAT
4665974 TTTAT
1 TTTAT
4665979 CTTACTTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTATTTATTCTATTTTAATTAT
Found at i:4666567 original size:17 final size:18
Alignment explanation
Indices: 4666537--4666570 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4666527 TAGCCTTAGG
*
4666537 TTTTTATTATTTCTTTTC
1 TTTTTATTAGTTCTTTTC
4666555 TTTTTATT-GTTCTTTT
1 TTTTTATTAGTTCTTTT
4666571 ATGCATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTAGTTCTTTTC
Found at i:4672879 original size:5 final size:5
Alignment explanation
Indices: 4672869--4672893 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4672859 TGTCAGATCT
4672869 GTTCG GTTCG GTTCG GTTCG GTTCG
1 GTTCG GTTCG GTTCG GTTCG GTTCG
4672894 TCTGAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
GTTCG
Found at i:4675587 original size:12 final size:12
Alignment explanation
Indices: 4675536--4675590 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
4675526 TTTCTTTTGT
4675536 TTCTTTTTCTAA-
1 TTCTTTTTC-AAC
* *
4675548 TTCATTTTC-TC
1 TTCTTTTTCAAC
4675559 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
4675572 TTCTTTTTCAAT
1 TTCTTTTTCAAC
4675584 TTCTTTT
1 TTCTTTT
4675591 CTTTTCACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:4678861 original size:17 final size:17
Alignment explanation
Indices: 4678821--4678862 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
4678811 CCCTATATAC
*
4678821 AATTATATTGTTATAAT
1 AATTATATTTTTATAAT
*
4678838 -A-TATATTTTTATATT
1 AATTATATTTTTATAAT
4678853 AATTATATTT
1 AATTATATTT
4678863 AAGCTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTATATTTTTATAAT
Found at i:4679026 original size:32 final size:32
Alignment explanation
Indices: 4678984--4679044 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4678974 TTTTTTGAAA
4678984 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
4679016 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
4679045 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:4679037 original size:20 final size:20
Alignment explanation
Indices: 4679003--4679044 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4678993 AACTATTTAA
** *
4679003 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
4679023 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
4679043 AT
1 AT
4679045 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:4680635 original size:15 final size:15
Alignment explanation
Indices: 4680615--4680647 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4680605 ATGTACCAAA
4680615 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
4680630 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
4680645 AGT
1 AGT
4680648 GTCTGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (15 bp):
AGTTAGAAAGAATTT
Found at i:4681150 original size:15 final size:16
Alignment explanation
Indices: 4681125--4681158 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4681115 AAGATGAAGC
*
4681125 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
4681141 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
4681156 GTT
1 GTT
4681159 GAACTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:4684976 original size:26 final size:26
Alignment explanation
Indices: 4684911--4684981 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
4684901 AGTCATATCG
* *
4684911 GGAAACTCTTG-AGAGCCATTAATCA
1 GGAAGCTCTTGAAGAGCCATTAAACA
*** *
4684936 GGAAGCTCACAAAGAGCCTTTAAACA
1 GGAAGCTCTTGAAGAGCCATTAAACA
4684962 GGAAGCTCTTGAAGAGCCAT
1 GGAAGCTCTTGAAGAGCCAT
4684982 ATAACGATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GGAAGCTCTTGAAGAGCCATTAAACA
Found at i:4690131 original size:21 final size:21
Alignment explanation
Indices: 4690107--4690168 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
4690097 ATAAGTGCTA
4690107 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
4690128 AACA-AAAGCTCATAAGAGCTG
1 AACAGAAA-CCCATAAGGGTTG
*
4690149 AAC-GAAAACCCAAAAGGGTT
1 AACAG-AAACCCATAAGGGTT
4690169 AAATTGAAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:4690158 original size:42 final size:41
Alignment explanation
Indices: 4690111--4690265 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 41
4690101 GTGCTAAACA
* **
4690111 GAAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAC-
1 GAAACCCATAAGGGTTAAACTGAAGCTCA-AAGAGCTGAACT
* * * *
4690152 GAAAACCCAAAAGGGTTAAATTGAAGCTTAAAATAGCTGAACT
1 G-AAACCCATAAGGGTTAAACTGAAGC-TCAAAGAGCTGAACT
*
4690195 GAAACCCATTAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTC-AAAGAGCTGAACT
* *
4690237 GAAACCCATTAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
4690266 TATGAGTTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.03
42 91 0.94
43 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAGAGCTGAACT
Found at i:4690215 original size:21 final size:21
Alignment explanation
Indices: 4690191--4690262 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
4690181 AAAATAGCTG
4690191 AACTGAAACCCATTAGGGTTA
1 AACTGAAACCCATTAGGGTTA
* * * * * *
4690212 AACTGAAGCTCGA-AAGAGCTG
1 AACTGAAAC-CCATTAGGGTTA
4690233 AACTGAAACCCATTAGGGTTA
1 AACTGAAACCCATTAGGGTTA
4690254 AACTGAAAC
1 AACTGAAAC
4690263 TCATATGAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (21 bp):
AACTGAAACCCATTAGGGTTA
Found at i:4690274 original size:21 final size:21
Alignment explanation
Indices: 4690233--4690302 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
4690223 GAAAGAGCTG
* *
4690233 AACTGAAACCCAT-TAGGGTTA
1 AACTGAAACTCATAT-GAGTTA
4690254 AACTGAAACTCATATGAGTT-
1 AACTGAAACTCATATGAGTTA
* * *
4690274 AACTGAAGCTCATAAGAGCTA
1 AACTGAAACTCATATGAGTTA
*
4690295 AATTGAAA
1 AACTGAAA
4690303 GCAAACACGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 17 0.43
21 22 0.55
22 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTGAAACTCATATGAGTTA
Found at i:4700420 original size:27 final size:26
Alignment explanation
Indices: 4700385--4700435 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4700375 CAGTTATTAT
*
4700385 AAAATTATAAAAATACATATTTAAATA
1 AAAATTAT-AAAATACAAATTTAAATA
*
4700412 AAAATTATAAATTACAAATTTAAA
1 AAAATTATAAAATACAAATTTAAA
4700436 CATTAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAATACAAATTTAAATA
Found at i:4705647 original size:3 final size:3
Alignment explanation
Indices: 4705639--4705673 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4705629 CCATTAACTT
*
4705639 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4705674 GAATATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4705674 original size:12 final size:12
Alignment explanation
Indices: 4705639--4705678 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4705629 CCATTAACTT
*
4705639 TAATAATAATAA
1 TAATAATAATAG
4705651 TAATAATAATAG
1 TAATAATAATAG
4705663 TAATAATAATAG
1 TAATAATAATAG
4705675 -AATA
1 TAATA
4705679 TAAATATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:4707270 original size:22 final size:22
Alignment explanation
Indices: 4707223--4707272 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4707213 AATCCAAAAG
* * *
4707223 CATTTCTAAATATTCATTTAAC
1 CATTTCTAAACATCCATCTAAC
4707245 CATTTCTAAACATCCATCCTAA-
1 CATTTCTAAACATCCAT-CTAAC
4707267 CATTTC
1 CATTTC
4707273 CACAATTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
CATTTCTAAACATCCATCTAAC
Found at i:4708111 original size:20 final size:20
Alignment explanation
Indices: 4708088--4708129 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4708078 GTGGTGTTGT
*
4708088 ACAAAGGCACCAAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
*
4708108 ACAAAGGAACCGAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
4708128 AC
1 AC
4708130 CTATACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (20 bp):
ACAAAGGAACCAAAGTGCAA
Found at i:4709471 original size:22 final size:23
Alignment explanation
Indices: 4709419--4709472 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
4709409 GCATAATTTA
*
4709419 TAATTAAATTAACCTAAATATGAT
1 TAATT-AATTAACCTAAAAATGAT
4709443 TAA-TAATTAA-CTAAAAAT-ACT
1 TAATTAATTAACCTAAAAATGA-T
4709464 TAATTAATT
1 TAATTAATT
4709473 TAATTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 11 0.41
23 1 0.04
24 3 0.11
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATTAATTAACCTAAAAATGAT
Found at i:4710566 original size:43 final size:42
Alignment explanation
Indices: 4710469--4710569 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 42
4710459 TACACTTCAT
* * * * *
4710469 TTTATCTGATGGTGCACTTATGTGCCAGTATATTTGCTTTGG
1 TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
* * * * *
4710511 CTTGTCCAATGATGCACTTTGTGTGCCATTATATCTGCTTCGA
1 TTTATCCGATGATGCAC-TTATGTGCCAGTATATCTGCTTCGA
4710554 TTTATCCGATGATGCA
1 TTTATCCGATGATGCA
4710570 ATGCGATGCT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (42 bp):
TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
Found at i:4716143 original size:18 final size:17
Alignment explanation
Indices: 4716118--4716160 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
4716108 AAGTGCTTTA
*
4716118 ATTT-TTTTACTTGTTT
1 ATTTCTTTTACTTGTTG
*
4716134 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTACTTGTTG
4716152 ATTTCTTTT
1 ATTTCTTTT
4716161 CATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTCTTTTACTTGTTG
Found at i:4716580 original size:110 final size:109
Alignment explanation
Indices: 4716269--4716797 Score: 796
Period size: 110 Copynumber: 4.9 Consensus size: 109
4716259 TCAAAAACGA
* * *
4716269 AAAAATTTTCAAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGTCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
*
4716334 GGTGTCGATTTTTCTCGTTCAACCAAATGACTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
4716378 AAAAATTTTAAGATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
*
4716443 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
4716487 AAAATTTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAACATGCCCTAAGGTGCT
*
4716552 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
4716597 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
* * * * * *
4716662 GGTGTCAATTTTTTCTCATTCAACCAAATAGCTAAATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
4716707 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCT-AG-GAACATGCCCTAAGGTGC
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATT-TGAGAAAACATGCCCTAAGGTGC
* *
4716770 TGGGTTTCGA--TTTCTCGTTTAACCAAAT
64 TGGGTGTCGATTTTTCTCGTTCAACCAAAT
4716798 TGCCAAATAT
Statistics
Matches: 384, Mismatches: 32, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
107 16 0.04
109 168 0.44
110 191 0.50
111 9 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:4716759 original size:219 final size:218
Alignment explanation
Indices: 4716269--4716797 Score: 816
Period size: 219 Copynumber: 2.4 Consensus size: 218
4716259 TCAAAAACGA
* *
4716269 AAAAATTTTC-AAATAAGGCAATGTTTTGCATTT-GGAAATTTGAGAAAACATGTCCTAAGGTGC
1 AAAAA-TTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGC
* *
4716332 TGGGTGTCGATTTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTAAGATAAGGT
65 TGGGTGTCGA-TTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTAAAATAAGGC
* *
4716397 AATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTT
129 AATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCATT
* * * * *
4716462 CAACCAAATGGTTTAATATCCTTTT
194 CAACCAAATAGCTAAATAGCCTTTC
* * *
4716487 AAAATTTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
*
4716552 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCA
66 GGGTGTCGATTT-TCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTAAAATAAGGCA
4716617 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTTCTCATT
130 ATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAA-TTTTTCTCATT
4716682 CAACCAAATAGCTAAATAGCCTTTC
194 CAACCAAATAGCTAAATAGCCTTTC
*
4716707 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCT-AG-GAACATGCCCTAAGGTGC
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATT-TGAGAAAACATGCCCTAAGGTGC
* *
4716770 TGGGTTTCGA-TTTCTCGTTTAACCAAAT
65 TGGGTGTCGATTTTCTCGTTCAACCAAAT
4716798 TGCCAAATAT
Statistics
Matches: 285, Mismatches: 21, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
217 18 0.06
218 30 0.11
219 166 0.58
220 70 0.25
221 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (218 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTCTCGTTCAACCAAATGACTTAATATCCTTTTAAAAATTTTAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTCTCATTCA
ACCAAATAGCTAAATAGCCTTTC
Found at i:4721256 original size:3 final size:3
Alignment explanation
Indices: 4721250--4721287 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
4721240 AAAGAGAAAG
*
4721250 AGA AGA AGA AAA AGA AGA AGA AGA AGA AG- AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
4721288 AAGGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:4721294 original size:6 final size:5
Alignment explanation
Indices: 4721226--4721295 Score: 52
Period size: 6 Copynumber: 12.8 Consensus size: 5
4721216 AAAAATACAA
*
4721226 AAAAC AAAA- AAAAG AAAGAG AAAGAG AAGAAG AAAAAG AAGAAG AAGAAG
1 AAAAG AAAAG AAAAG AAA-AG AAA-AG AA-AAG -AAAAG AA-AAG AA-AAG
*
4721276 AAGAG AAAAG AAAAGG AAAA
1 AAAAG AAAAG AAAA-G AAAA
4721296 AATGAGAGGT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
4 4 0.07
5 19 0.33
6 31 0.54
7 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4721469 original size:44 final size:42
Alignment explanation
Indices: 4721374--4721476 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
4721364 AAAAAGGGCG
*
4721374 GCTCAAATTTTGGAACAAAATGGGGCACAAAGTGATCAGAGC
1 GCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGAGC
* * ****
4721416 GACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGAGC
1 G-CTCAAATTTTGGATCAAAATGGGGCA-CAAAGTGATCAGAGC
4721460 AGCTCAAATTTT-GATCA
1 -GCTCAAATTTTGGATCA
4721477 GATCGAGGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.02
43 28 0.56
44 20 0.40
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (42 bp):
GCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGAGC
Found at i:4722787 original size:100 final size:100
Alignment explanation
Indices: 4722610--4723950 Score: 1617
Period size: 100 Copynumber: 13.4 Consensus size: 100
4722600 AAAACCATAG
* * * * **
4722610 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
4722674 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * **
4722710 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
4722774 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * *
4722810 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAAGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * *
4722875 ATTGAAGCTACGACGGCGAATCTCACTTCCCAGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * *
4722910 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
4722975 ATTGAAGTTACAACAGCAAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * *
4723010 ATTGCAATTCAAAAGATCGAAGCCACAACGGTGAATTTTACTTCCCAGGCGATGCAGTGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4723075 ATTGAAGCTACGACAGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * *
4723110 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTT-CCAGCCAATGCAGCGGAACAA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
4723174 ATTAAAGCTACGACGGCGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
*
4723209 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4723274 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
4723309 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
4723374 ATTGAAGCTACGAC-GACGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
4723409 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
4723474 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* *
4723509 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAACGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
*
4723574 ATTGAAGCTACGAC-GACGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* *
4723609 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAGTCTTACTT-CCAGGCGATGCAGCGGGACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
4723673 ATTAAAGCTACGA-TGACAAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * * * * * ** *
4723708 ATTGCAGTTTAAAATATTGAGGCCACAATGGCGAATCTTACTT-CCAAGCTATATAGCAGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
4723772 ATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * * **
4723807 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGCGATGCAATGGAAC
1 ATTGCAATTCAAA-AGATCGAAGCCACAACGGCGAATCTTACT-TCCCAGGCGATGCAGCGGAAC
* * * *
4723870 AGATTGAAGCTACGA-TGACGAATTTTCCTTTCCCGAC
64 AGATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
4723907 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
4723951 TCAGTGAGAC
Statistics
Matches: 1094, Mismatches: 134, Indels: 27
0.87 0.11 0.02
Matches are distributed among these distances:
98 5 0.00
99 269 0.25
100 816 0.75
101 4 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
Found at i:4723652 original size:50 final size:50
Alignment explanation
Indices: 4722610--4723950 Score: 781
Period size: 50 Copynumber: 26.9 Consensus size: 50
4722600 AAAACCATAG
* * * * * *
4722610 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
4722660 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
4722710 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
4722760 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
4722810 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCA-AGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGA-C
*** * * * *
4722860 GA-TGCAGCGGAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCAGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * ** *
4722910 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * ** * * * *
4722960 GA-TGCAGCGGAACAGATTGAAGTTACAACAGCAAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * *
4723010 ATTGCAATTCAAAAGATCGAAGCCACAACGGTGAATTTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * * * *
4723060 GA-TGCAGTGGAACAGATTGAAGCTACGACAGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * *
4723110 ATTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTT-CCAGCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* *** * * * *
4723159 AATGCAGCGGAACAA-ATTAAAGCTACGACGGCGAATCTTGCTTCCTC-GAC
1 ATTGCAATTGAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
4723209 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * *
4723259 GA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * *
4723309 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * *
4723359 GA-TGCAGCGGAACAGATTGAAGCTACGACGACGAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
4723409 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAG
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGAC
*** * * * * *
4723460 A-TGCAGCGGAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
4723509 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
** * * * * * *
4723559 GA-TGCAACGGAACAGATTGAAGCTACGACGACGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
4723609 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAGTCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * * * * * *
4723658 GA-TGCAGCGGGACAGATTAAAGCTACGATGACAAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
4723708 ATTGCAGTTTAAAATATTGAGGCCACAATGGCGAATCTTACTTCCAAG-C
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
4723757 TATATAGC-A--GAACAGATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
1 -AT-T-GCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * *
4723807 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGC
1 ATTGCAATTGAAA-AGATTGAAGCCACAACGGCGAATCTTACT-TCCCAGAC
* * * * * * * *
4723857 GA-TGCAATGGAACAGATTGAAGCTACGATGACGAATTTTCCTTTCCC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGAC
* * * *
4723907 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
4723951 TCAGTGAGAC
Statistics
Matches: 941, Mismatches: 305, Indels: 92
0.70 0.23 0.07
Matches are distributed among these distances:
47 3 0.00
48 5 0.01
49 139 0.15
50 767 0.82
51 24 0.03
52 3 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
Found at i:4725688 original size:29 final size:28
Alignment explanation
Indices: 4725634--4725704 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
4725624 TTATTTGGTG
*
4725634 TTAATT-TGTTTA-TTTATTTACATGCT
1 TTAATTATTTTTATTTTATTTACATGCT
4725660 CATT-ATTATTTTTATTTTATTTA-AGTGCT
1 --TTAATTATTTTTATTTTATTTACA-TGCT
*
4725689 TTAATTTTTTTTATTT
1 TTAATTATTTTTATTT
4725705 GTTTATTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 5 0.14
28 20 0.54
29 12 0.32
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (28 bp):
TTAATTATTTTTATTTTATTTACATGCT
Found at i:4725709 original size:18 final size:18
Alignment explanation
Indices: 4725697--4725735 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4725687 CTTTAATTTT
4725697 TTTTATTTGTTTATTTAC
1 TTTTATTTGTTTATTTAC
*
4725715 TTTTATTTGTTGATTT-C
1 TTTTATTTGTTTATTTAC
4725732 TTTT
1 TTTT
4725736 CATTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (18 bp):
TTTTATTTGTTTATTTAC
Found at i:4726146 original size:110 final size:109
Alignment explanation
Indices: 4725843--4726372 Score: 789
Period size: 110 Copynumber: 4.9 Consensus size: 109
4725833 ATCAAAAACG
* * * *
4725843 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAGCATGCCTTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
4725908 GGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
4725953 AAAATTTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATCCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
4726018 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATAT-CTTTCT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTT-T
*
4726062 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
4726127 GGGTGTCTATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
4726172 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * * *
4726237 GGTGTCGATTTTTTCTCATTCAACCAAATAGCTAAATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
4726282 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATGCCCTAAGGTGCT
* *
4726346 GGGTTTCGA-TTTT-TCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
4726373 TGCCAAATAT
Statistics
Matches: 385, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
107 12 0.03
108 8 0.02
109 160 0.42
110 192 0.50
111 13 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:4726222 original size:219 final size:219
Alignment explanation
Indices: 4725843--4726372 Score: 809
Period size: 219 Copynumber: 2.4 Consensus size: 219
4725833 ATCAAAAACG
* * *
4725843 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAGCATGCCTTAAGGTGC
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGC
* *
4725907 TGGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTAAAATAAGGT
65 TGGGTATCGA-TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
* *
4725972 AATGTTTTGCGTTTGGAAATTCGAGAAAACATCCCCTAAGGTGCTGGGTGTCGA-TTTTTCTCGT
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACATCCCCTAAGGTGCTGGGTGTCGATTTTTTCTCAT
* * *
4726036 TCAACCAAATGGCTTAATA-TCTTTC
194 TCAACCAAATAGCTAAATAGCCTTTC
4726061 TAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 -AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGC
* *
4726126 TGGGTGTCTATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
65 TGGGTATCGATTT-TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
*
4726191 AATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTCTCAT
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACATCCCCTAAGGTGCTGGGTGTCGATTTTTTCTCAT
4726256 TCAACCAAATAGCTAAATAGCCTTTC
194 TCAACCAAATAGCTAAATAGCCTTTC
* * * * *
4726282 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
* *
4726346 GGGTTTCGATTTT-TCGTTTAACCAAAT
66 GGGTATCGATTTTCTCGTTCAACCAAAT
4726373 TGCCAAATAT
Statistics
Matches: 286, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
217 13 0.05
218 31 0.11
219 169 0.59
220 68 0.24
221 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (219 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
GGGTATCGATTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAA
TGTTTTGCGTTTAGAAATTCGAGAAAACATCCCCTAAGGTGCTGGGTGTCGATTTTTTCTCATTC
AACCAAATAGCTAAATAGCCTTTC
Found at i:4727845 original size:138 final size:138
Alignment explanation
Indices: 4727675--4727951 Score: 437
Period size: 138 Copynumber: 2.0 Consensus size: 138
4727665 TAGATAAAAC
* *
4727675 TAATATATAAATTTGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
* * *
4727740 ACAATTATATTAATTAATTTCGGTCAAAATATAAAATATATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
4727805 AATATAAT
131 AATATAAT
* * *
4727813 TAATATATGAATATGATTCATACAAAAAATTAATTGTATATATTTTACCGAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
* * * * *
4727878 ACAGTTCTATTCATTAATTTTGGTTAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
4727943 AATATAAT
131 AATATAAT
4727951 T
1 T
4727952 CCTTTTTTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
AATATAAT
Found at i:4728066 original size:75 final size:77
Alignment explanation
Indices: 4727927--4728079 Score: 229
Period size: 75 Copynumber: 2.0 Consensus size: 77
4727917 ATGGAAATTA
* *
4727927 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTTCTAAATTTTCATTTGTCTTCTCTATTAATA
1 ATATTCTTTTGAAAAGAATATAATTCC-TTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATA
*
4727992 CGAGAATAATCTT
65 AGAGAATAATCTT
* *
4728005 ATATTCTTTTGGAAAGAATATAATT-C-TTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
*
4728068 GGGAATAATCTT
66 GAGAATAATCTT
4728080 GGTTTTCCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 44 0.64
77 1 0.01
78 24 0.35
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (77 bp):
ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
GAGAATAATCTT
Found at i:4738721 original size:26 final size:25
Alignment explanation
Indices: 4738679--4738818 Score: 85
Period size: 26 Copynumber: 5.5 Consensus size: 25
4738669 TGGAACACAC
*
4738679 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4738705 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * *
4738731 ATATTATATATTATAATTTTAGTAAATTC
1 ATATTAT-T-TTA-AATTATATTTAA-TA
*
4738760 ATA-TATTTT--ATTA-AATT-AT-
1 ATATTATTTTAAATTATATTTAATA
*
4738779 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
4738805 ATAATTATATTAAA
1 AT-ATTATTTTAAA
4738819 ATATGATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.03
20 4 0.05
21 3 0.03
22 2 0.02
23 7 0.08
24 3 0.03
25 7 0.08
26 30 0.34
27 13 0.15
28 11 0.13
29 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:4738736 original size:15 final size:15
Alignment explanation
Indices: 4738692--4738747 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
4738682 TTTTTGTTAA
*
4738692 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
4738707 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
4738718 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
4738733 ATTATATATTATAAT
1 ATTATATTTTATAAT
4738748 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:4738769 original size:18 final size:17
Alignment explanation
Indices: 4738740--4738798 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
4738730 AATATTATAT
*
4738740 ATTATA-ATTTTAGTAA
1 ATTATATATTTTATTAA
4738756 ATTCATATATTTTATTAA
1 ATT-ATATATTTTATTAA
4738774 ATTATATATTTTTATTAA
1 ATTATATA-TTTTATTAA
4738792 ATTATAT
1 ATTATAT
4738799 TTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTATTAA
Found at i:4739018 original size:44 final size:45
Alignment explanation
Indices: 4738955--4739051 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
4738945 CTATTACACC
* *
4738955 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACACCTCTAT
* *
4738999 TCCATTACATTCAACCAAACAATTGATTTGCTATTACACCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
*
4739044 TCTATTAC
1 TCCATTAC
4739052 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
Found at i:4739050 original size:16 final size:16
Alignment explanation
Indices: 4739031--4739095 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
4739021 TTGATTTGCT
* *
4739031 ATTACACCTCTATTCT
1 ATTACGCCTCTATTCC
4739047 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
4739063 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
4739079 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
4739095 A
1 A
4739096 ATACAGCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:4740342 original size:10 final size:9
Alignment explanation
Indices: 4740324--4740436 Score: 68
Period size: 10 Copynumber: 11.7 Consensus size: 9
4740314 GAAATTTATT
*
4740324 TAAATATTA
1 TAAAAATTA
4740333 TAGAAAATTA
1 TA-AAAATTA
*
4740343 CAAAAAAATTA
1 -TA-AAAATTA
*
4740354 TACAGAATTA
1 TA-AAAATTA
4740364 TGAAAAA-TA
1 T-AAAAATTA
4740373 TAACAAATTA
1 TAA-AAATTA
4740383 TAAAAATTA
1 TAAAAATTA
*
4740392 TTTAAAAACTA
1 --TAAAAATTA
*
4740403 T-AAATTTA
1 TAAAAATTA
4740411 TTAAAAATTA
1 -TAAAAATTA
*
4740421 CAAAATATTA
1 TAAAA-ATTA
4740431 TAAAAA
1 TAAAAA
4740437 CAAATTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
8 7 0.09
9 21 0.26
10 36 0.44
11 17 0.21
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:4740407 original size:18 final size:18
Alignment explanation
Indices: 4740386--4740437 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
4740376 CAAATTATAA
*
4740386 AAATTATTTAAAAACTAT
1 AAATTATTTAAAAACTAC
*
4740404 AAATT-TATTAAAAATTAC
1 AAATTAT-TTAAAAACTAC
*
4740422 AAAATATTATAAAAAC
1 AAATTATT-TAAAAAC
4740438 AAATTAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 19 0.70
19 7 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTATTTAAAAACTAC
Found at i:4740426 original size:19 final size:18
Alignment explanation
Indices: 4740377--4740436 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
4740367 AAAATATAAC
*
4740377 AAATTATAAAAATTATTTAA
1 AAATTA-AAAATTTA-TTAA
* *
4740397 AAACTATAAATTTATTAA
1 AAATTAAAAATTTATTAA
4740415 AAATTACAAAATATTA-TAA
1 AAATTA-AAAAT-TTATTAA
4740434 AAA
1 AAA
4740437 CAAATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 9 0.27
19 16 0.48
20 8 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTAAAAATTTATTAA
Found at i:4750762 original size:18 final size:17
Alignment explanation
Indices: 4750734--4750768 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4750724 GTTATTAAGA
*
4750734 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4750751 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4750769 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:4750788 original size:44 final size:43
Alignment explanation
Indices: 4750740--4751028 Score: 131
Period size: 44 Copynumber: 7.1 Consensus size: 43
4750730 AAGAATTTTA
4750740 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 TTAAATTATATATTTTAATTAAAATATA-TTAATAATAATTATG
* ** * *
4750784 TTAAA-T-TATATTTTATAGTATCATATATT-ATGAT-TTTA-G
1 TTAAATTATATATTTTA-ATTAAAATATATTAATAATAATTATG
* * * * * *
4750823 -TAAATT-TATA---TAA-GAATAT-TGATTATTAAGAATTTTA
1 TTAAATTATATATTTTAATTAAAATAT-ATTAATAATAATTATG
4750860 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 TTAAATTATATATTTTAATTAAAATATA-TTAATAATAATTATG
* ** * *
4750904 TTAAA-T-TATATTTTATAGTATCATATATT-ATGAT-TTTA-G
1 TTAAATTATATATTTTA-ATTAAAATATATTAATAATAATTATG
* * * * * *
4750943 -TAAATT-TATA---TAA-GAATAT-TGATTATTAAGAATTTTA
1 TTAAATTATATATTTTAATTAAAATAT-ATTAATAATAATTATG
* *
4750980 TTAAATTATATATTTTAATTAAAATATTTTTTATAATAATTATG
1 TTAAATTATATATTTTAATTAAAATA-TATTAATAATAATTATG
4751024 TTAAA
1 TTAAA
4751029 ATATGATTAA
Statistics
Matches: 175, Mismatches: 42, Indels: 56
0.64 0.15 0.21
Matches are distributed among these distances:
33 2 0.01
34 12 0.07
35 6 0.03
36 8 0.05
38 20 0.11
39 20 0.11
40 6 0.03
41 8 0.05
42 28 0.16
43 27 0.15
44 37 0.21
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (43 bp):
TTAAATTATATATTTTAATTAAAATATATTAATAATAATTATG
Found at i:4750849 original size:120 final size:120
Alignment explanation
Indices: 4750711--4751028 Score: 609
Period size: 120 Copynumber: 2.6 Consensus size: 120
4750701 GAATTTTTGT
*
4750711 TATAAGAATATTGGTTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
4750776 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
66 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
4750831 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
4750896 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
66 TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
* *
4750951 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTTATAA
1 TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
4751016 TAATTATGTTAAA
66 TAATTATGTTAAA
4751029 ATATGATTAA
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 195 1.00
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (120 bp):
TATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
TAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTTA
Found at i:4750860 original size:61 final size:61
Alignment explanation
Indices: 4750793--4750980 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
4750783 GTTAAATTAT
4750793 ATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
* * * * ** * * * *
4750854 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-T
1 ATTTTA-TAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATAT-TGATT--ATTAAGA
4750913 ATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
4750974 ATTTTAT
1 ATTTTAT
4750981 TAAATTATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 2 0.02
59 33 0.34
60 20 0.21
61 40 0.41
62 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTAGTAAATTTATATAAGAATATTGATTATTAAGA
Found at i:4750882 original size:18 final size:17
Alignment explanation
Indices: 4750854--4750888 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4750844 ATTATTAAGA
*
4750854 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4750871 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4750889 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:4751785 original size:12 final size:12
Alignment explanation
Indices: 4751770--4751811 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4751760 GTTCAATTAT
*
4751770 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
4751782 ATGTTCGTTTA-
1 ATGTTCGTGAAC
4751793 ATGTTCGTGAAC
1 ATGTTCGTGAAC
4751805 ATGTTCG
1 ATGTTCG
4751812 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:4751826 original size:23 final size:23
Alignment explanation
Indices: 4751753--4751832 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
4751743 ACATTGTTTG
*
4751753 TGAACATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* *
4751777 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
4751800 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
4751823 TGAACATGTT
1 TGAACATGTT
4751833 AGTGAACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.65
24 14 0.29
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:4752852 original size:17 final size:17
Alignment explanation
Indices: 4752821--4752867 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
4752811 TTATCTCTTA
4752821 CAAATTTTTTGAATTTTTT
1 CAAA-TTTTT-AATTTTTT
4752840 CAAATTTTTAATTTTTT
1 CAAATTTTTAATTTTTT
**
4752857 TTAATTTTTAA
1 CAAATTTTTAA
4752868 GAATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 17 0.65
18 5 0.19
19 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (17 bp):
CAAATTTTTAATTTTTT
Found at i:4758977 original size:18 final size:18
Alignment explanation
Indices: 4758956--4758993 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4758946 AATTTGGATT
*
4758956 TTTTATAAA-TATTTTTAA
1 TTTTA-AAACTATTTTGAA
4758974 TTTTAAAACTATTTTGAA
1 TTTTAAAACTATTTTGAA
4758992 TT
1 TT
4758994 ATTTTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAACTATTTTGAA
Found at i:4763917 original size:3 final size:3
Alignment explanation
Indices: 4763911--4763937 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4763901 CATAATAAAA
4763911 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4763938 TTAGCATTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4764816 original size:42 final size:42
Alignment explanation
Indices: 4764769--4764848 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
4764759 ATGACTTAAT
4764769 TAGTATTAGAGTTAT-T-TGCTAATTAAAATTTAACTTTATAAA
1 TAGTATTAGAGTTATATAT-C-AATTAAAATTTAACTTTATAAA
*
4764811 TAGTATTAGAGTTATATATCGATTAAAATTTAACTTTA
1 TAGTATTAGAGTTATATATCAATTAAAATTTAACTTTA
4764849 ACTTAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
42 32 0.91
43 2 0.06
44 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (42 bp):
TAGTATTAGAGTTATATATCAATTAAAATTTAACTTTATAAA
Found at i:4772121 original size:24 final size:25
Alignment explanation
Indices: 4772070--4772126 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
4772060 TTAAATTACA
4772070 ATATATTATTAGCATCATAAATTTTT
1 ATATATTATTAGCAT-ATAAATTTTT
*
4772096 ATATATTATTAGC-T-TAGATTTATT
1 ATATATTATTAGCATATAAATTT-TT
4772120 ATATATT
1 ATATATT
4772127 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 9 0.31
25 1 0.03
26 13 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
ATATATTATTAGCATATAAATTTTT
Found at i:4773367 original size:18 final size:16
Alignment explanation
Indices: 4773335--4773365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4773325 AAATCAAATC
4773335 AAAATTATATATATAA
1 AAAATTATATATATAA
*
4773351 AAAATTATATTTATA
1 AAAATTATATATATA
4773366 TATAATATAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTATATATATAA
Found at i:4773380 original size:20 final size:20
Alignment explanation
Indices: 4773342--4773381 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4773332 ATCAAAATTA
*
4773342 TATATATAAAAAATTATATT
1 TATATATAAAAAATAATATT
* *
4773362 TATATATAATATATAATATT
1 TATATATAAAAAATAATATT
4773382 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATAAAAAATAATATT
Found at i:4774467 original size:6 final size:6
Alignment explanation
Indices: 4774449--4774512 Score: 110
Period size: 6 Copynumber: 10.5 Consensus size: 6
4774439 ATATCTCATC
4774449 AACCAA AACCCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA
1 AACCAA AA-CCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA
*
4774498 AACCAA AACCCA AAC
1 AACCAA AACCAA AAC
4774513 TTAAACTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
6 50 0.89
7 6 0.11
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCAA
Found at i:4778835 original size:4 final size:4
Alignment explanation
Indices: 4778826--4778856 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4778816 TATATGTTCT
4778826 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4778857 TTGCTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:4794330 original size:10 final size:10
Alignment explanation
Indices: 4794315--4794339 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4794305 TTCATTAAAA
4794315 TATTATTTAT
1 TATTATTTAT
4794325 TATTATTTAT
1 TATTATTTAT
4794335 TATTA
1 TATTA
4794340 AAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:4794469 original size:14 final size:15
Alignment explanation
Indices: 4794444--4794473 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4794434 ACCTATCTCA
4794444 TTTTTGTAATTATTT
1 TTTTTGTAATTATTT
4794459 TTTTTGT-ATTATTT
1 TTTTTGTAATTATTT
4794473 T
1 T
4794474 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTGTAATTATTT
Found at i:4796145 original size:14 final size:14
Alignment explanation
Indices: 4796124--4796157 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4796114 TGGTATGGGT
4796124 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
4796137 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
4796151 TTATAGG
1 TTATAGG
4796158 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:4799032 original size:21 final size:20
Alignment explanation
Indices: 4799000--4799043 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
4798990 TATGTTAAAT
4799000 TTATTTTTATTATTAT-ATTA
1 TTATTTTTATTA-TATGATTA
4799020 TTATTTTTAATTATATGATTA
1 TTATTTTT-ATTATATGATTA
4799041 TTA
1 TTA
4799044 AGTGAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTTATTATATGATTA
Found at i:4799034 original size:18 final size:19
Alignment explanation
Indices: 4799000--4799042 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4798990 TATGTTAAAT
*
4799000 TTATTTTTATTATTATATTA
1 TTATTTTTA-TATTATATGA
4799020 TTATTTTTA-ATTATATGA
1 TTATTTTTATATTATATGA
4799038 TTATT
1 TTATT
4799043 AAGTGAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTTATATTATATGA
Found at i:4800261 original size:19 final size:19
Alignment explanation
Indices: 4800223--4800269 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4800213 GATAACAAGG
* *
4800223 AAATCTTAGAAATATGGGT
1 AAATCTTAGAAATTTTGGT
*
4800242 AAATTTTAGAAATTTTGGT
1 AAATCTTAGAAATTTTGGT
4800261 ATAATCTTA
1 A-AATCTTA
4800270 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (19 bp):
AAATCTTAGAAATTTTGGT
Found at i:4800290 original size:20 final size:20
Alignment explanation
Indices: 4800266--4800317 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4800256 TTGGTATAAT
*
4800266 CTTAAATTTTTTGATAAATT
1 CTTAAATTTTTTGATAAATA
* ** *
4800286 GTTAAAAATTTTGATAACTA
1 CTTAAATTTTTTGATAAATA
4800306 CTTAAATTTTTT
1 CTTAAATTTTTT
4800318 TTTTGTAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (20 bp):
CTTAAATTTTTTGATAAATA
Found at i:4800310 original size:40 final size:39
Alignment explanation
Indices: 4800241--4800317 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 39
4800231 GAAATATGGG
*
4800241 TAAATTTTAGAAATTTTGGTATAATCTTAAATTTTTTGA
1 TAAATTTTAAAAATTTTGGTATAATCTTAAATTTTTTGA
4800280 TAAATTGTTAAAAATTTT-G-ATAACTACTTAAATTTTTT
1 TAAATT-TTAAAAATTTTGGTATAA-T-CTTAAATTTTTT
4800318 TTTTGTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 4 0.12
39 8 0.24
40 22 0.65
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (39 bp):
TAAATTTTAAAAATTTTGGTATAATCTTAAATTTTTTGA
Found at i:4800345 original size:20 final size:20
Alignment explanation
Indices: 4800317--4800354 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4800307 TTAAATTTTT
* *
4800317 TTTTTGTAAATCGTTAAATG
1 TTTTGGTAAATCATTAAATG
4800337 TTTTGGTAAATCATTAAA
1 TTTTGGTAAATCATTAAA
4800355 AAGATTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTTGGTAAATCATTAAATG
Found at i:4803650 original size:25 final size:26
Alignment explanation
Indices: 4803605--4803664 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
4803595 AGATTTTAAC
4803605 ATATTTATTTATATTTATTTAT-TGTT
1 ATATTTATTTATATTTATTTATGT-TT
4803631 ATATTT-TTTAATATTT-TTTATGTTT
1 ATATTTATTT-ATATTTATTTATGTTT
4803656 ATATATTAT
1 ATAT-TTAT
4803665 AGGTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 14 0.47
26 15 0.50
27 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
ATATTTATTTATATTTATTTATGTTT
Found at i:4804342 original size:24 final size:22
Alignment explanation
Indices: 4804270--4804343 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 22
4804260 AATTTCAATA
4804270 TTATGATAAATATTATTTAATTT
1 TTATGATAAATATTATTT-ATTT
* * **
4804293 TTTTAATTAAATATTATTTACCT
1 TTATGA-TAAATATTATTTATTT
4804316 TTATGATAAATATTATATTATGTT
1 TTATGATAAATATTAT-TTAT-TT
4804340 TTAT
1 TTAT
4804344 TTTTGAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
22 10 0.25
23 13 0.32
24 17 0.43
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATGATAAATATTATTTATTT
Found at i:4806072 original size:25 final size:25
Alignment explanation
Indices: 4806038--4806087 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4806028 GAGAACTATT
4806038 AAATAAGATGC-ATCCAATGCTAAAG
1 AAATAAGATGCGA-CCAATGCTAAAG
4806063 AAATAAGATGCGACCAATGCTAAAG
1 AAATAAGATGCGACCAATGCTAAAG
4806088 TTGACTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AAATAAGATGCGACCAATGCTAAAG
Found at i:4813074 original size:39 final size:38
Alignment explanation
Indices: 4813031--4813121 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 38
4813021 TTGTGAAATT
* *
4813031 AAAAAAAAAAGACATGTCAATTTTTTAAAATTATTTGTG
1 AAAAAAAAAAGA-ATATCAATTTTTTAAAACTATTTGTG
* *
4813070 AAAAAAGAGTAA-ATTATCAATTTTTTAAAACTATTTGTG
1 AAAAAA-A-AAAGAATATCAATTTTTTAAAACTATTTGTG
*
4813109 AAATTAAAAAAGA
1 AAA-AAAAAAAGA
4813122 GAGTAAATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.05
39 34 0.81
40 4 0.10
41 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (38 bp):
AAAAAAAAAAGAATATCAATTTTTTAAAACTATTTGTG
Found at i:4813606 original size:29 final size:30
Alignment explanation
Indices: 4813558--4813616 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4813548 TACGTTTTAA
**
4813558 TGTGTAATTCTATATGT-AAACTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
* *
4813587 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
4813617 AATCCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGTAATTCTATACATAAAACTTTGATTT
Found at i:4823927 original size:40 final size:39
Alignment explanation
Indices: 4823835--4823930 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
4823825 ATAATGCAAG
**
4823835 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
1 AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
* * *
4823874 GAAAACACATCCTTGAGGACGCGCTTTGTGTCCACGTGGAC-
1 -AAAACGCTTCCTTGAGGAAGCGC-TT-TGTCCACGTGGACA
*
4823915 AAAGCGCTTCCTTGAG
1 AAAACGCTTCCTTGAG
4823931 TTTGCGTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 31 0.67
41 2 0.04
42 13 0.28
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
Found at i:4825839 original size:30 final size:30
Alignment explanation
Indices: 4825771--4825841 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
4825761 GACGACGACA
* * * *
4825771 CAGGCCCATCAATAGCGCCCACACAATCGC
1 CAGGCCCAACAACAGCACCCACACAATCAC
* *
4825801 CAGTCCCAACAACAGCACCCACACAGTCAC
1 CAGGCCCAACAACAGCACCCACACAATCAC
*
4825831 CGGGCCCAACA
1 CAGGCCCAACA
4825842 TTTCAACCGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.45, G:0.15, T:0.07
Consensus pattern (30 bp):
CAGGCCCAACAACAGCACCCACACAATCAC
Found at i:4826493 original size:100 final size:100
Alignment explanation
Indices: 4826316--4826530 Score: 387
Period size: 100 Copynumber: 2.1 Consensus size: 100
4826306 CAGACATTGA
* * *
4826316 TTTT-TATTTTAATATATTTGTACAAATATTTTGAATATTTTTATATTATTTCATGTAATAAAAT
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
4826380 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
66 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
4826415 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
4826480 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
66 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
4826515 TTTTATATTTTTAATA
1 TTTTATA-TTTTAATA
4826531 AAATAGAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
99 4 0.04
100 99 0.89
101 8 0.07
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (100 bp):
TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTAATATAATAAAAT
AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
Found at i:4829151 original size:126 final size:126
Alignment explanation
Indices: 4828919--4829206 Score: 391
Period size: 126 Copynumber: 2.3 Consensus size: 126
4828909 GCCAAATAGG
* * * * *
4828919 AACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATATTTTTTCTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* * *
4828984 TGCTTGAAGCATTTTTTACACTATTTGCTCAGAAACATCTTCTAAAAATTAT-TTTTTCAAA
66 TACTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATACTTTT-AAA
* * * *
4829045 AACTTCTGTAGCAAAATAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* * * **
4829110 TACTT-AAGGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATACTTTTAGG
66 TACTTGAA-GCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATACTTTTAAA
4829171 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
4829207 TTTTAAATTA
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
125 2 0.01
126 134 0.96
127 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
TACTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATACTTTTAAA
Found at i:4829284 original size:43 final size:40
Alignment explanation
Indices: 4829237--4829317 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 40
4829227 TAAGTGACCT
* * *
4829237 TAAACCCCAAACCCTAATTTATTTAATTTTTTATTAAAAATCC
1 TAAACACCAAACCCTAATCTAATT--TTTTTT-TTAAAAATCC
*
4829280 TAAACACTAAACCCTAATCTAATTTTTTTTTTAAAAAT
1 TAAACACCAAACCCTAATCTAATTTTTTTTTTAAAAAT
4829318 TATAATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 8 0.24
41 6 0.18
43 20 0.59
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (40 bp):
TAAACACCAAACCCTAATCTAATTTTTTTTTTAAAAATCC
Found at i:4829381 original size:37 final size:39
Alignment explanation
Indices: 4829338--4829413 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 39
4829328 TTACTCAAGT
*
4829338 AACCCTAAACCCT-AA-TTT-ATTTAATTTTTTTCTTAAA
1 AACCCTAAACCCTAAACTTTAATCTAATTTTTTT-TTAAA
4829375 AACCCTAAACCCTAAACTTTAATCTAATTTTTTTTTAAA
1 AACCCTAAACCCTAAACTTTAATCTAATTTTTTTTTAAA
4829414 TTTATAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
37 13 0.37
38 2 0.06
39 8 0.23
40 12 0.34
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (39 bp):
AACCCTAAACCCTAAACTTTAATCTAATTTTTTTTTAAA
Found at i:4829447 original size:98 final size:95
Alignment explanation
Indices: 4829245--4829666 Score: 542
Period size: 98 Copynumber: 4.3 Consensus size: 95
4829235 CTTAAACCCC
* *
4829245 AAACCCTAATTTATTTAATTTTTTATTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA---TTTTT
*
4829310 TTAAAAATTATAATTAATTTACTCAAGTAACCCT
63 TTAAAATTTATAATTAATTTACTCAAGTAA-CCT
* **
4829344 AAACCCTAATTTATTTAATTTTTTTCTTAAAAACCCTAAACCCTAAACTTTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAA-TTTTTT
* * *
4829409 TTAAATTTATAATTAATTTACTCCAGCAACTCT
64 TAAAATTTATAATTAATTTACTCAAGTAAC-CT
* * *
4829442 AAACCCTAATTTATTTGATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTA
1 AAACCCTAATTTATTT-AATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
4829507 AAAATTTATAATTAATTTACTCAAGTAACCT
65 AAAATTTATAATTAATTTACTCAAGTAACCT
* * *
4829538 AAACCCTAATTTATTTGA-TTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA-TTTTTTA
1 AAACCCTAATTTATTTAATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTA
* * *
4829601 AAATTTATAATTAATTTAATTAAGAAAACCT
66 AAATTTATAATTAATTTACTCAAG-TAACCT
*
4829632 AAACCCTAAACCCTTATTTAATTTTTTCCTTAAAA
1 AAACCCT-AA--TTTATTTAATTTTTT-CTTAAAA
4829667 TCCTAAAATC
Statistics
Matches: 284, Mismatches: 30, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
93 28 0.10
94 47 0.17
95 2 0.01
96 18 0.06
97 40 0.14
98 89 0.31
99 26 0.09
100 34 0.12
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.42
Consensus pattern (95 bp):
AAACCCTAATTTATTTAATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTA
AAATTTATAATTAATTTACTCAAGTAACCT
Found at i:4860615 original size:16 final size:16
Alignment explanation
Indices: 4860590--4860632 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
4860580 TTGAATTTTT
4860590 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
4860605 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
4860621 ATTATTAAGAAT
1 GTTATTAAGAAT
4860633 TTATTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:4860778 original size:18 final size:17
Alignment explanation
Indices: 4860750--4860784 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4860740 ATTATTAAGA
*
4860750 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4860767 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4860785 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:4860822 original size:120 final size:120
Alignment explanation
Indices: 4860610--4861044 Score: 836
Period size: 120 Copynumber: 3.6 Consensus size: 120
4860600 TATTGGTTAT
4860610 TAAGAATATTGATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
* *
4860674 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAATAAATTTATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
4860729 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4860794 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
4860849 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4860914 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
66 ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
*
4860969 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAATA
1 TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
4861034 ATTATGTTAAA
66 ATTATGTTAAA
4861045 ATATGATTAA
Statistics
Matches: 312, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 22 0.07
120 290 0.93
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (120 bp):
TAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
ATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTGATA
Done.