Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 10 of 344
Found at i:3663859 original size:17 final size:19
Alignment explanation
Indices: 3663825--3663861 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
3663815 TTTCTCCTTC
*
3663825 TCTCTCCCCTTCCTCTTTT
1 TCTCTCCCCATCCTCTTTT
3663844 TCTCT-CCCATCC-CTTTT
1 TCTCTCCCCATCCTCTTTT
3663861 T
1 T
3663862 TTTTTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTCTCCCCATCCTCTTTT
Found at i:3663863 original size:19 final size:19
Alignment explanation
Indices: 3663825--3663862 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3663815 TTTCTCCTTC
* *
3663825 TCTCTCCCCTTCCTCTTTT
1 TCTCTCCCATCCCTCTTTT
3663844 TCTCTCCCATCCCT-TTTT
1 TCTCTCCCATCCCTCTTTT
3663862 T
1 T
3663863 TTTTTCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.53
Consensus pattern (19 bp):
TCTCTCCCATCCCTCTTTT
Found at i:3670081 original size:14 final size:16
Alignment explanation
Indices: 3670041--3670074 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
3670031 TATTACACTT
3670041 AAAATATTTTTATATTA
1 AAAATA-TTTTATATTA
3670058 AAAATATTTT-TATTA
1 AAAATATTTTATATTA
3670073 AA
1 AA
3670075 TTATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATATTTTATATTA
Found at i:3670465 original size:28 final size:29
Alignment explanation
Indices: 3670433--3670498 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
3670423 AAAGTACACC
*
3670433 CAATTATGCCCTCAATG-AT-TAAAAAAAA
1 CAATTA-GCCCTCAATGAATCCAAAAAAAA
* *
3670461 CAATTCAGCCCTCGATGAATCCAAAAAAAT
1 CAATT-AGCCCTCAATGAATCCAAAAAAAA
3670491 CAATTAGC
1 CAATTAGC
3670499 ACCTTTTGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 14 0.44
29 6 0.19
30 12 0.38
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (29 bp):
CAATTAGCCCTCAATGAATCCAAAAAAAA
Found at i:3670637 original size:14 final size:15
Alignment explanation
Indices: 3670618--3670653 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3670608 CCATATCAAC
3670618 AAAAATA-TTTTTAA
1 AAAAATATTTTTTAA
*
3670632 AAAAATATTTTTTAT
1 AAAAATATTTTTTAA
3670647 AAAAATA
1 AAAAATA
3670654 AAATATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAAATATTTTTTAA
Found at i:3670668 original size:19 final size:20
Alignment explanation
Indices: 3670633--3670671 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3670623 TATTTTTAAA
*
3670633 AAAATATTTTTTATAAAAAT
1 AAAATATTTTCTATAAAAAT
3670653 AAAATATTTTCT-TAAAAAT
1 AAAATATTTTCTATAAAAAT
3670672 TAATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATATTTTCTATAAAAAT
Found at i:3670761 original size:21 final size:22
Alignment explanation
Indices: 3670737--3670783 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
3670727 AGTACAAAAC
*
3670737 TAAAAAAAAATT-TAAAAATTA
1 TAAAAAAAAATTAAAAAAATTA
*
3670758 T-AAAAAATATTAAAAAAATTA
1 TAAAAAAAAATTAAAAAAATTA
3670779 TAAAA
1 TAAAA
3670784 TACATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAAAAAAATTAAAAAAATTA
Found at i:3670764 original size:20 final size:20
Alignment explanation
Indices: 3670739--3670797 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3670729 TACAAAACTA
3670739 AAAAAAAATTTAAAAATTAT
1 AAAAAAAATTTAAAAATTAT
* *
3670759 AAAAAATATTAAAAAAATTAT
1 AAAAAAAATT-TAAAAATTAT
* * *
3670780 AAAATACATATAAAAATT
1 AAAAAAAATTTAAAAATT
3670798 TCAAATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATTTAAAAATTAT
Found at i:3672239 original size:22 final size:23
Alignment explanation
Indices: 3672197--3672239 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3672187 AATTCTGAAA
* *
3672197 AATTATAATTTAATCATTTAACT
1 AATTAAAATTGAATCATTTAACT
3672220 AATTAAAATTGAA-CATTTAA
1 AATTAAAATTGAATCATTTAA
3672240 GTCACCCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTAAAATTGAATCATTTAACT
Found at i:3675962 original size:22 final size:21
Alignment explanation
Indices: 3675910--3675962 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
3675900 ATTATAATTC
3675910 TAATTTTTTTTAAACTTTCTT
1 TAATTTTTTTTAAACTTTCTT
* * * *
3675931 TATATATTTTTTAGATTTTGTT
1 TA-ATTTTTTTTAAACTTTCTT
3675953 GTAATTTTTT
1 -TAATTTTTT
3675963 AGAAAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.68
Consensus pattern (21 bp):
TAATTTTTTTTAAACTTTCTT
Found at i:3678604 original size:14 final size:14
Alignment explanation
Indices: 3678585--3678611 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3678575 TTGTTTTTAT
3678585 ATATATGTATATAG
1 ATATATGTATATAG
3678599 ATATATGTATATA
1 ATATATGTATATA
3678612 TATAGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
ATATATGTATATAG
Found at i:3679182 original size:21 final size:21
Alignment explanation
Indices: 3679156--3679198 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3679146 TTACCACCAC
3679156 TATTATCATTATCAACATTAT
1 TATTATCATTATCAACATTAT
* * *
3679177 TATTATCGTTTTCATCATTAT
1 TATTATCATTATCAACATTAT
3679198 T
1 T
3679199 GTCATTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTATCATTATCAACATTAT
Found at i:3681016 original size:25 final size:24
Alignment explanation
Indices: 3680974--3681024 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
3680964 GGGAAAGTCT
3680974 AATGCAAATAATGCAATGCAATGCA
1 AATGCAAATAATGCAATG-AATGCA
*
3680999 AATGCAAATGCATG-AATGAATGCA
1 AATGCAAAT-AATGCAATGAATGCA
3681023 AA
1 AA
3681025 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 13 0.54
26 3 0.12
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AATGCAAATAATGCAATGAATGCA
Found at i:3683848 original size:26 final size:25
Alignment explanation
Indices: 3683781--3683852 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
3683771 GCCCTCCCCA
3683781 AAAAAACCTAA--CCAAAAAAAAAG
1 AAAAAACCTAACCCCAAAAAAAAAG
*
3683804 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAACCCCAAAA-AAAAAG
*
3683830 -AAAAACCTAACCCCCAAAAAAAA
1 AAAAAACCTAACCCCAAAAAAAAA
3683853 CCAAGAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.26
24 5 0.12
25 21 0.49
26 6 0.14
ACGTcount: A:0.69, C:0.22, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCCCAAAAAAAAAG
Found at i:3685394 original size:17 final size:17
Alignment explanation
Indices: 3685372--3685404 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3685362 TTTTACGTCG
3685372 CTACAGCTGGCGACTCA
1 CTACAGCTGGCGACTCA
3685389 CTACAGCTGGCGACTC
1 CTACAGCTGGCGACTC
3685405 CACTGGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.18
Consensus pattern (17 bp):
CTACAGCTGGCGACTCA
Found at i:3686373 original size:12 final size:12
Alignment explanation
Indices: 3686356--3686391 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3686346 ATTCATTTGA
3686356 CATTCATGCATT
1 CATTCATGCATT
3686368 CATTCATGCATT
1 CATTCATGCATT
*
3686380 CATTCATACATT
1 CATTCATGCATT
3686392 GCATATCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:3689818 original size:14 final size:14
Alignment explanation
Indices: 3689799--3689827 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3689789 AAACAGTGGA
3689799 AGAAGGATCACGAG
1 AGAAGGATCACGAG
3689813 AGAAGGATCACGAG
1 AGAAGGATCACGAG
3689827 A
1 A
3689828 ACTTTGGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.34, T:0.07
Consensus pattern (14 bp):
AGAAGGATCACGAG
Found at i:3704467 original size:12 final size:12
Alignment explanation
Indices: 3704452--3704494 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
3704442 TTCTTTCGAA
3704452 TCTTTTTTTCTT
1 TCTTTTTTTCTT
*
3704464 TCTTTTTTTTGTGT
1 TC-TTTTTTTCT-T
*
3704478 TGTTTTTTTCTT
1 TCTTTTTTTCTT
3704490 TCTTT
1 TCTTT
3704495 ATATATACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 7 0.28
13 16 0.64
14 2 0.08
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (12 bp):
TCTTTTTTTCTT
Found at i:3706695 original size:12 final size:12
Alignment explanation
Indices: 3706678--3706713 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3706668 ATTCATTTGA
3706678 CATTCATGCATT
1 CATTCATGCATT
3706690 CATTCATGCATT
1 CATTCATGCATT
*
3706702 CATTCATACATT
1 CATTCATGCATT
3706714 GCATATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:3715290 original size:72 final size:70
Alignment explanation
Indices: 3715169--3715362 Score: 228
Period size: 72 Copynumber: 2.7 Consensus size: 70
3715159 GAGTTAAGCC
* * * * *
3715169 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTCAGGACACGA
3715233 TGAGGTA
64 TGAGGTA
**
3715240 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCTCAGGACACGAT
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCAGGACACGAT
3715305 GAGGTA
65 GAGGTA
* * * * *
3715311 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
3715363 ACCTTTTAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
70 2 0.02
71 33 0.31
72 66 0.63
73 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (70 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTCAGGACACGATG
AGGTA
Found at i:3715310 original size:186 final size:195
Alignment explanation
Indices: 3715007--3715430 Score: 494
Period size: 186 Copynumber: 2.2 Consensus size: 195
3714997 CAAGGGAATA
* * * * * *
3715007 AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTTTC
1 AACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTGTTGTTTTC
* * *
3715072 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCGGGGCACGCTGAGGT-AT-T-TTT-AGT
66 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCAGGACACGATGAGGTAATCTATTTCAGT
** **
3715133 TT-T-A-AATTGACTCATATTG-GAGAGGTGAGTT-AAGCCTTTTAATTT-TTGTTTTTCAAAAT
131 TTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAAT
3715192 C
195 C
* * *
3715193 AACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCATGCTGAGGTATTTTCAATTTTTGTGTTT
1 AACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTGTTGT-TTT
* ** *
3715258 TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGC-TCAGGACACGATGAGGTAATCTCAATTTC
65 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCAGGACACGATGAGGTAATCT--ATTTC
* *
3715322 TGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAA
128 AGTTTGT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAA
3715387 AATC
192 AATC
* *
3715391 AGCTCATATTG-TGAGAGGTGAGTTGAGCCTCAGGTCATGC
1 AACTCATATTGCT-AGAGGTGAGTTGAGCCTCAGGACATGC
3715431 CAATGTATTT
Statistics
Matches: 198, Mismatches: 25, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
186 66 0.33
187 36 0.18
188 1 0.01
191 3 0.02
192 4 0.02
193 1 0.01
195 1 0.01
196 13 0.07
197 23 0.12
198 50 0.25
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (195 bp):
AACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTGTTGTTTTC
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCATCAGGACACGATGAGGTAATCTATTTCAGT
TTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATC
Found at i:3715545 original size:88 final size:88
Alignment explanation
Indices: 3715387--3715719 Score: 438
Period size: 88 Copynumber: 3.8 Consensus size: 88
3715377 ACTTTTTCAA
* * * * * *
3715387 AATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCATGCCAATGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
3715452 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
3715475 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
3715540 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
3715563 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
** *
3715628 GTTTTTCA--ATT-TGTCTTTCAAAAAAA
64 G-TTTTCATTATTATGT-TTT--TGAAAG
* * *
3715654 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
3715719 T
66 T
3715720 GTCAAAAAAA
Statistics
Matches: 220, Mismatches: 19, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
88 122 0.55
89 29 0.13
90 24 0.11
91 45 0.20
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:3715712 original size:179 final size:163
Alignment explanation
Indices: 3715563--3716905 Score: 787
Period size: 162 Copynumber: 8.4 Consensus size: 163
3715553 TTTTTGAAAG
*
3715563 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTTC-
*
3715628 GTTTTTCAA-TT-TGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
64 GTTTTTCAATTTCTGCCTTT---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
3715691 GACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAA
126 GACACGCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
*
3715728 AATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTCGT
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTCGT
* * *
3715793 TTTTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGATAGATGAGTTGAGCCTCAAGACAC
66 TTTTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * *
3715858 GTTGAGGTATTTTTAATTGTTGTTTTC----AA
131 GCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
* * * ** ** * * *
3715887 AATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-G-GGCACGCTGAGGTATTTTTAGTTT-GA
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTCG-
* ** *
3715949 CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTATTTTTCAAAATCAACTCATATTGCTA
65 -T--T-TTTC-A-A--T---TTCTGCC-TTTAA-----A------AAAATCAACTCATATTGCGA
* *
3716014 GAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGGTTTT-----AA
107 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTT-GTTTTCAAAAAA
** * ** * **
3716067 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGATGAGG-----T-AA--TC--
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTCGT
*** * *
3716121 ---TCAATTTCTG--TTTGTCAGAATCAACTCATATTGCGAGAGGT--G--G-G--T--TGA-AC
66 TTTTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
** * **
3716171 -CT--TTTAATTTC---TACT-TTTTC-AA---
131 GCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
* * **
3716193 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTT-AATTTCT
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTTC-
* ** * * *
3716255 GTCTTATT--A-TTATGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
64 GT-TT-TTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
3716317 TCACG-TCGAGGTATTTTCAATTTCTGTTTTCATTATTATGTTTTTGAAA
127 ACACGCT-GAGGTATTTTCAATTTTTGTTTTCA--A--A--------AAA
* **
3716366 GAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG-TAAGGTATTTTCAATTTC
1 -AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTT-
*
3716430 CGTTTTTCAATTT-TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-A-G
63 CGTTTTTCAATTTCTGCCTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * * *
3716492 ACATGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAA
127 ACACGCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
* *
3716528 AATCAACTCGTATTGCGAGTGGCGAGTT-AGCCTCAGGTCACACGCCGAGGTA-TTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTT-C
**
3716591 GTTTTTCAATTTCT-CCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
64 GTTTTTCAATTTCTGCCTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * *
3716655 CACACTGAGGTAATTTCAATTTCTGTTGTC-AAAAA
128 CACGCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
* * *
3716690 AATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCA-GTCACACGCCGAGGTATTTTCAATTTC-
* ** **
3716755 GTTTTTCAA-----------AAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAAC
64 GTTTTTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
3716809 ATGTTGAGGTATTTTCAATTTCTGTTTTTC-AAAAA
129 ACGCTGAGGTATTTTCAATTTTTG-TTTTCAAAAAA
* ** * * *
3716844 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTC
1 AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTC
3716906 TGTTGTCAAA
Statistics
Matches: 961, Mismatches: 114, Indels: 219
0.74 0.09 0.17
Matches are distributed among these distances:
125 4 0.00
126 41 0.04
127 3 0.00
130 6 0.01
131 3 0.00
132 2 0.00
133 4 0.00
134 1 0.00
136 1 0.00
138 5 0.01
139 2 0.00
140 28 0.03
141 2 0.00
142 1 0.00
143 23 0.02
144 1 0.00
145 1 0.00
147 1 0.00
149 1 0.00
150 3 0.00
152 22 0.02
153 65 0.07
154 44 0.05
156 4 0.00
157 27 0.03
158 2 0.00
159 31 0.03
160 84 0.09
161 37 0.04
162 133 0.14
163 35 0.04
164 48 0.05
165 41 0.04
168 5 0.01
169 5 0.01
170 1 0.00
172 1 0.00
173 1 0.00
174 39 0.04
175 38 0.04
176 21 0.02
177 39 0.04
180 89 0.09
181 16 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (163 bp):
AATCAACTCGTATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAATTTCGT
TTTTCAATTTCTGCCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTATTTTCAATTTTTGTTTTCAAAAAA
Found at i:3715756 original size:74 final size:75
Alignment explanation
Indices: 3715649--3715790 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 75
3715639 TGTCTTTCAA
** * *
3715649 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAAT
3715713 TTCTGTTGTC
66 TTCTGTTGTC
* * *
3715723 AAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGTCACACGCCGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAAT
3715788 TTC
66 TTC
3715791 GTTTTTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
74 38 0.63
75 22 0.37
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGTCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:3715883 original size:88 final size:87
Alignment explanation
Indices: 3715706--3715875 Score: 206
Period size: 88 Copynumber: 1.9 Consensus size: 87
3715696 GCTGAGGTAA
* *
3715706 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCAAGTTGAGCCTCAGTCACAC
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGTAGCAAGTTGAGCCTCAG-CACAC
3715771 GCCGAGGTATTTTCAATTTCGTT
65 GCCGAGGTATTTTCAATTTCGTT
3715794 TTTCAATTTCTGCCTT-T-AAAAAAATCAACTCATATTGCGA-TAG-ATGAGTTGAGCCTCAAG-
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGTAGCA--AGTTGAGCCTC-AGC
** *
3715854 ACACGTTGAGGTATTTTTAATT
61 ACACGCCGAGGTATTTTCAATT
3715876 GTTGTTTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
86 1 0.01
87 21 0.29
88 45 0.62
89 3 0.04
90 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (87 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGTAGCAAGTTGAGCCTCAGCACACG
CCGAGGTATTTTCAATTTCGTT
Found at i:3716115 original size:71 final size:72
Alignment explanation
Indices: 3715996--3716168 Score: 226
Period size: 71 Copynumber: 2.4 Consensus size: 72
3715986 TATTTTTCAA
* * * * * * *
3715996 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCT-G
3716061 TTT-T-A-
65 TTTGTCAG
*
3716066 ATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTG
1 A-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTG
3716131 TTTGTCAG
65 TTTGTCAG
*
3716139 AATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
3716169 ACCTTTTAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
70 5 0.06
71 55 0.62
72 28 0.31
73 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (72 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGT
TTGTCAG
Found at i:3716407 original size:88 final size:88
Alignment explanation
Indices: 3716193--3716519 Score: 418
Period size: 86 Copynumber: 3.8 Consensus size: 88
3716183 ACTTTTTCAA
* *
3716193 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTT-AATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAATTTCTGT
*
3716257 CTT-ATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
*
3716279 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAATTTCTGT
3716344 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * * *
3716367 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGT-AAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGTCGAGGTATTTTCAATTTCT
* ** *
3716431 GTTTTTCA--ATTTTGTCTTTCAAAAA
64 G-TTTTCATTATTATGT-TTTTGAAAG
* * *
3716456 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-A-GACATG-CTGAGGTAATTTCAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTC-GAGGTATTTTCAATTTCTG
3716518 TT
65 TT
3716520 GTCAAAAAAA
Statistics
Matches: 215, Mismatches: 18, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
85 5 0.02
86 70 0.33
87 12 0.06
88 62 0.29
89 55 0.26
90 11 0.05
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:3716470 original size:89 final size:87
Alignment explanation
Indices: 3716191--3716489 Score: 376
Period size: 88 Copynumber: 3.4 Consensus size: 87
3716181 CTACTTTTTC
* *
3716191 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCG-AGGTATTTT-AATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC-ACGTAGGTATTTTCAATTTC
3716254 TGTCTTATT--ATTATGTTTTTGAA
65 TGT-TT-TTCAATTATGTTTTTGAA
* * *
3716277 AGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCG-AGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC-ACGTAGGTATTTTCAATTTC
3716341 TG-TTTTCATTATTATGTTTTTGAA
65 TGTTTTTCA--ATTATGTTTTTGAA
* * *
3716365 AGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTAAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGT-AGGTATTTTCAATTTC
* * **
3716430 CGTTTTTCAATTTTGTCTTTCAAA
65 TGTTTTTCAATTATGT-TTTTGAA
3716454 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3716490 AGACATGCTG
Statistics
Matches: 191, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
84 2 0.01
85 2 0.01
86 55 0.29
87 10 0.05
88 61 0.32
89 55 0.29
90 6 0.03
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (87 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTAGGTATTTTCAATTTCT
GTTTTTCAATTATGTTTTTGAA
Found at i:3716632 original size:160 final size:161
Alignment explanation
Indices: 3716367--3716905 Score: 721
Period size: 160 Copynumber: 3.4 Consensus size: 161
3716357 TTTTTGAAAG
**
3716367 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACG-TAAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
3716431 GTTTTTCAATTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGACA
66 GTTTTTCAA-TTT-TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
3716495 TGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
129 TGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
3716528 AATCAACTCGTATTGCGAGTGGCGAGTT-AGCCTCAGGTCACACGCCGAGGTA-TTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
**
3716591 GTTTTTCAATTTCTCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
66 GTTTTTCAATTT-T-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAC
**
3716656 ACACTGAGGTAATTTCAATTTCTGTTGTCAAAAA
128 ATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *
3716690 AATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* ** *
3716755 GTTTTTCAA---------AAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACAT
66 GTTTTTCAATTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACAT
* * *
3716811 GTTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
130 GCTGAGGTAATTTCAATTTCTG-TTGTCAAAAA
* * * *
3716844 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTTC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
3716906 TGTTGTCAAA
Statistics
Matches: 342, Mismatches: 28, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
152 22 0.06
153 57 0.17
154 44 0.13
159 4 0.01
160 78 0.23
161 33 0.10
162 62 0.18
163 23 0.07
164 19 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (161 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACATG
CTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:3716671 original size:88 final size:87
Alignment explanation
Indices: 3716506--3716677 Score: 222
Period size: 88 Copynumber: 2.0 Consensus size: 87
3716496 GCTGAGGTAA
* * *
3716506 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTAGCCTCAGGTCACAC
1 TTTCAATTTCTCTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTAGCCTCAGG-CACAC
*
3716571 GCCGAGGTATTTCAATTTCCGTT
65 ACCGAGGTATTTCAATTTCCGTT
** *
3716594 TTTCAATTTCTCCTT-TCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
1 TTTCAATTTCT-CTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT-AGCCTCAGGCACA
*
3716657 CACTGAGGTAATTTCAATTTC
64 CACCGAGGT-ATTTCAATTTC
3716678 TGTTGTCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
87 10 0.14
88 52 0.71
89 11 0.15
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (87 bp):
TTTCAATTTCTCTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTAGCCTCAGGCACACA
CCGAGGTATTTCAATTTCCGTT
Found at i:3716877 original size:75 final size:74
Alignment explanation
Indices: 3716593--3716990 Score: 481
Period size: 74 Copynumber: 5.3 Consensus size: 74
3716583 CAATTTCCGT
** **
3716593 TTTTCAATTTCTCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
3716658 ACTGAGGTA
66 GCTGAGGTA
* * * * * *
3716667 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
*
3716732 ACGCCGAGGTA
64 ACGCTGAGGTA
* ** **
3716743 TTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAA
1 TTTTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
3716808 CATGTTGAGGTA
63 CACGCTGAGGTA
3716820 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
3716885 CGCTGAGGTA
65 CGCTGAGGTA
* * * * *
3716895 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
**
3716960 ACGCCAAGGTA
64 ACGCTGAGGTA
*
3716971 TTTTCAATTTCTTTTTTCAA
1 TTTTCAATTTCTGTTTTCAA
3716991 TTTCTGCATT
Statistics
Matches: 274, Mismatches: 43, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
74 95 0.35
75 61 0.22
76 51 0.19
77 33 0.12
79 34 0.12
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTA
Found at i:3716881 original size:228 final size:229
Alignment explanation
Indices: 3716593--3717365 Score: 841
Period size: 228 Copynumber: 3.2 Consensus size: 229
3716583 CAATTTCCGT
** **
3716593 TTTTCAATTTCT-CCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
3716657 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
3716722 CTTAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGA
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGA
* * ** * * *
3716787 GAAATGAGTTGAGCCTCA-AAACATGTTGAGGTA
196 GAAGTGAGTTGAGCCTTACTCACGTGCTGAGCTA
3716820 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
3716885 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGC
66 CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
3716950 CTCAGGTCACACGCCAAGGTATTTTCAATTTCTTTTTTCAATTTCTGCATTTCAAAAAAAAATCA
131 CTCAGGTCACACGCCGAGGTATTTTCAA-------TTTC--TGT-T---TTTCAAAAAAAAATCA
* *
3717015 ACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTA
183 ACTCATATTGCGAGAAGTGAGTTGAGCCTTA-CTCACGTGCTGAGCTA
* *
3717063 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTA-GATC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-C
* * * * * *** * *
3717127 ACACATTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAG
65 ACAC--TGAGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
* * * ** **
3717192 TTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAAT
125 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCA-A--------AAAAAAAT
*
3717257 TAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTA
181 CAACTCATATTGCGAGAAGTGAGTTGAGCCTTA-CTCACGTGCTGAGCTA
* * *
3717307 TTTTCAATTTCTTTTTTTTTTCAAAAAATTCAACTCAAATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTC---TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3717366 TTTTTAATTT
Statistics
Matches: 463, Mismatches: 49, Indels: 48
0.83 0.09 0.09
Matches are distributed among these distances:
227 12 0.03
228 136 0.29
235 9 0.02
236 1 0.00
237 2 0.00
238 2 0.00
239 2 0.00
241 45 0.10
242 2 0.00
243 71 0.15
244 64 0.14
245 7 0.02
247 52 0.11
248 58 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (229 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CACTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
CTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGA
GAAGTGAGTTGAGCCTTACTCACGTGCTGAGCTA
Found at i:3716987 original size:13 final size:13
Alignment explanation
Indices: 3716971--3716995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3716961 CGCCAAGGTA
3716971 TTTTCAATTTCTT
1 TTTTCAATTTCTT
3716984 TTTTCAATTTCT
1 TTTTCAATTTCT
3716996 GCATTTCAAA
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCAATTTCTT
Found at i:3717065 original size:92 final size:93
Alignment explanation
Indices: 3716913--3717083 Score: 254
Period size: 92 Copynumber: 1.8 Consensus size: 93
3716903 TTCTGTTGTC
* * * *
3716913 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCCAAGCTATTTTCAA
3716978 TTTCT-TTTTTCAATTTCTGCATTTCAA
66 TTTCTGTTTTTCAATTTCTGCATTTCAA
* * * **
3717005 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCCAAGCTATTTTCAA
3717070 TTTCTGTTTTTCAA
66 TTTCTGTTTTTCAA
3717084 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
92 61 0.88
93 8 0.12
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGCTCACACGCCAAGCTATTTTCAA
TTTCTGTTTTTCAATTTCTGCATTTCAA
Found at i:3717165 original size:77 final size:76
Alignment explanation
Indices: 3717006--3717576 Score: 288
Period size: 88 Copynumber: 7.0 Consensus size: 76
3716996 GCATTTCAAA
* * *
3717006 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTCAAT
* *
3717071 TTCTGTTTTTC
66 TTATATTTTTC
* * *
3717082 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACATTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTA--TTTTC
3717147 AATTTATATTTTTC
63 AATTTATATTTTTC
* * * * ** * ** *
3717161 AAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACT-GAGCTATTTTC-
* *
3717225 AAATCTGTTTTTCAGATTCTGTTTT
63 -AA------TTT-ATA-T-T-TTTC
* * * * ***
3717250 CAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTCAA-
* *
3717315 TTCTTTTTTTTTTC
65 -T-TTATATTTTTC
* * * * * *
3717329 AAAAAATTCAACTCAAATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTG
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTTAGA--TC-AC-ACA-CTGAGCT-
* *
3717393 AGTCTTTTAATTTCTATTTTTC
57 A-T-TTTCAATTTATATTTTTC
* * * *
3717415 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATA-TCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGATCACACACT-GAGCTATTTTC-
*
3717477 AAATCTGCTTTTCAAGTTAAGTTTC
63 -AA--T--TTAT--A-TT---TTTC
* * * *
3717502 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTCAAT
3717567 TTATATTTTT
66 TTATATTTTT
3717577 AATGTCTGTT
Statistics
Matches: 381, Mismatches: 67, Indels: 93
0.70 0.12 0.17
Matches are distributed among these distances:
75 3 0.01
76 4 0.01
77 60 0.16
78 5 0.01
79 78 0.20
80 30 0.08
81 6 0.02
82 10 0.03
83 6 0.02
84 32 0.08
85 8 0.02
86 20 0.05
87 8 0.02
88 101 0.27
89 10 0.03
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTCAAT
TTATATTTTTC
Found at i:3717381 original size:30 final size:30
Alignment explanation
Indices: 3717347--3717407 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
3717337 CAACTCAAAT
3717347 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
3717377 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
3717407 T
1 T
3717408 ATTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:3717517 original size:252 final size:244
Alignment explanation
Indices: 3716765--3717568 Score: 787
Period size: 252 Copynumber: 3.3 Consensus size: 244
3716755 GTTTTTCAAA
* ** * ** ** * *
3716765 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA--AAACATGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAAT
* * * *
3716828 TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGC--TG
66 TTCTGTTTTTCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCTTTA-GATCACACATTG
* * * * ** * * *
3716890 AGGTA--ATTTCAATTTCT-GTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCT
130 AGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCT
*** * ** * ** *
3716952 -CAGGTCACACGCCAAGGTATTTTCAATTTCT-TTTTTCA-ATTTCTGCATTTC
194 CCA-GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAG-TTTTC
3717003 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTC
*
3717068 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACAT
63 AATTTCTGTTTTTCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCTTTAGATCACACAT
* * * * *
3717133 TGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATTAACTTACATTGCGAGATGTGAGTTGAGC
128 TGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGAAC
** * * **
3717198 CTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTC
192 CTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
* * *
3717251 -AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAAT
* * *
3717315 TTCTTTTTTTTTTCAAAAAATTCAACTCAAATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTG
66 TTC---TGTTTTTCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGC--TTTAGA--TC-A
* * * *
3717379 CGAGAGTTGAGTTGAGTCTTTT-AATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTG
123 C-ACA-TTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTG
3717442 AGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
184 AGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAGTTTTC
*
3717502 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAAT
3717567 TT
66 TT
3717569 ATATTTTTAA
Statistics
Matches: 480, Mismatches: 58, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
241 36 0.08
242 2 0.00
243 71 0.15
244 64 0.13
245 7 0.01
247 52 0.11
248 64 0.13
249 16 0.03
250 3 0.01
251 6 0.01
252 134 0.28
253 6 0.01
254 14 0.03
255 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (244 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACGCGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCTTTAGATCACACATTGA
GGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCC
AGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
Found at i:3718277 original size:26 final size:25
Alignment explanation
Indices: 3718244--3718303 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
3718234 AAAATCTAAC
3718244 AAAAAAAAAGAAAAAACCTAA-CCCA
1 AAAAAAAAAG-AAAAACCTAACCCCA
3718269 AAAAGAAAAAGAAAAACCTAACCCCA
1 AAAA-AAAAAGAAAAACCTAACCCCA
3718295 AAAAAAAAA
1 AAAAAAAAA
3718304 CCCAAGAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAGAAAAACCTAACCCCA
Found at i:3719907 original size:3 final size:3
Alignment explanation
Indices: 3719886--3720024 Score: 90
Period size: 3 Copynumber: 45.7 Consensus size: 3
3719876 CTCAAAAAGA
* * *
3719886 AAT AA- AAT AAT AGT CAT AAT AAT AGA- AAT AAT AGT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
3719929 AAT AAT AAC GAT AAT AAT AAAT CGAAT AAT ATT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT AAT AAT AAT AAT
** * *
3719977 AGC AAT AAT AAT AAT -AT AAGT -AT ATAT GAAA AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT A-AT -AAT AAT AAT AAT AAT AAT
3720023 AA
1 AA
3720025 CTAAGATAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
2 8 0.08
3 84 0.81
4 8 0.08
5 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:3725084 original size:33 final size:33
Alignment explanation
Indices: 3725047--3725113 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3725037 ACGTTTTTTT
* *
3725047 GTATCTTTTCTTTTTGTGTGACCACCCCGTTGG
1 GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
*
3725080 GTATCTTGTCCTTTTGTGTGACCACCCTGTTGG
1 GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
3725113 G
1 G
3725114 GCTTTCTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.43
Consensus pattern (33 bp):
GTATCTTGTCCTTTTGTGTGACCACCCCGTTGG
Found at i:3727451 original size:35 final size:35
Alignment explanation
Indices: 3727405--3727479 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
3727395 GACAACAACA
3727405 TTGAACTAGTTAATTTAAAAACCAGTATCAGGTAG
1 TTGAACTAGTTAATTTAAAAACCAGTATCAGGTAG
3727440 TTGAACTAGTTAATTTAAAAACCAGTATCAGGTAG
1 TTGAACTAGTTAATTTAAAAACCAGTATCAGGTAG
3727475 TTGAA
1 TTGAA
3727480 TGACGAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (35 bp):
TTGAACTAGTTAATTTAAAAACCAGTATCAGGTAG
Found at i:3730600 original size:131 final size:130
Alignment explanation
Indices: 3730365--3730840 Score: 510
Period size: 131 Copynumber: 3.6 Consensus size: 130
3730355 TTATAATCAG
* ** * * * *
3730365 TCATGTTTTCTAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTAGAAATTCGCGGAATCGT
1 TCATGTTTCCTAAAAAT-CTTTAAAACGAAGGTAATATTCGATGTTTGGCAATTCG-GGAATCGT
* * * * *
3730430 GCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAATTTC
64 GCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTC
*
3730495 AT
129 AC
* *
3730497 TCATGTTTCCTAAAAACTCTTTAAAACGAAGGTAATACTCGATGTTTGGCAATTTGGGAATCGTG
1 TCATGTTTCCTAAAAA-TCTTTAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGAATCGTG
* * *
3730562 CCTTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCA
65 CCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCA
3730627 C
130 C
* * * *
3730628 CCATGTCTT--TAAAGATTCTATAAAACGAAGGTAATATTTGATGTTTGGCAATTCGGGGAATCG
1 TCATGT-TTCCTAAA-AATCTTTAAAACGAAGGTAATATTCGATGTTTGGCAATTC-GGGAATCG
* * * *
3730691 TGCCCTATCGTGCTGGGTTGCGATTTCCTGTTGGTTCAAAATAATCGAATATCCCCATTAGAATT
63 TGCCCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATAT-CCCTTTGGAATT
3730756 TCAC
127 TCAC
* * ** ** ** * * *
3730760 TCATGTTTCTTAAAAAT-TCTAAAAATAAGACAATGCTCGATGTTTAGAAATTCGAGGAATTGTG
1 TCATGTTTCCTAAAAATCTTTAAAACGAAGGTAATATTCGATGTTTGGCAATTCG-GGAATCGTG
3730824 CCCTA-CTGTGCTGGGTT
65 CCCTATC-GTGCTGGGTT
3730841 TCGGTTTTAC
Statistics
Matches: 291, Mismatches: 44, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
130 40 0.14
131 179 0.62
132 67 0.23
133 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (130 bp):
TCATGTTTCCTAAAAATCTTTAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGAATCGTGC
CCTATCGTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCAC
Found at i:3732440 original size:18 final size:18
Alignment explanation
Indices: 3732404--3732454 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
3732394 TGTTGTAATA
3732404 CTATTTATATATTTAAATA-T
1 CTATTTA-AT-TTT-AATAGT
3732424 CTATTTCAATTTTAATAGT
1 CTATTT-AATTTTAATAGT
*
3732443 TTATTTAATTTT
1 CTATTTAATTTT
3732455 TAAAATTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.36
19 9 0.32
20 8 0.29
21 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (18 bp):
CTATTTAATTTTAATAGT
Found at i:3734606 original size:49 final size:49
Alignment explanation
Indices: 3734534--3734720 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
3734524 TGAGGTCACG
* *
3734534 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
3734583 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT-GGTCGCA
* *
3734634 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
3734683 TGTGTAGTACTAAGTGCAGGCTACTA--TGCTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATA
3734721 GGTTTGGCTA
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 9 0.08
49 61 0.52
50 9 0.08
51 37 0.31
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:3734702 original size:100 final size:99
Alignment explanation
Indices: 3734529--3734715 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 99
3734519 TATTGTGAGG
* * *
3734529 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
3734594 AAGTGCAGGCTACTATGCGTACCCAATAACTTCGA
66 AAGTGCAGGCTACTATGC-TACCCAATAACTTCGA
*
3734629 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
3734694 AAGTGCAGGCTACTATGCTACC
66 AAGTGCAGGCTACTATGCTACC
3734716 AGATAGGTTT
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 4 0.05
100 79 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCTACCCAATAACTTCGA
Found at i:3765516 original size:21 final size:21
Alignment explanation
Indices: 3765478--3765517 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3765468 AAATGTATAA
* *
3765478 ATTAAATTAAAGACAAAAAAT
1 ATTAAAATAAAAACAAAAAAT
*
3765499 ATTAAAATAAAAATAAAAA
1 ATTAAAATAAAAACAAAAA
3765518 TGGCTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (21 bp):
ATTAAAATAAAAACAAAAAAT
Found at i:3770056 original size:29 final size:30
Alignment explanation
Indices: 3770009--3770067 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
3769999 TTAAGTTTAA
*
3770009 TGTGCAATTTTATACATG-AATGTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
* * *
3770038 TGTGTAATTTCATATATGAAATTTTGATTT
1 TGTGCAATTTCATACATGAAATGTTGATTT
3770068 GATTCAGTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (30 bp):
TGTGCAATTTCATACATGAAATGTTGATTT
Found at i:3771547 original size:3 final size:3
Alignment explanation
Indices: 3771539--3771571 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3771529 TTTAGCTCAT
3771539 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3771572 AGGATATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3775251 original size:28 final size:30
Alignment explanation
Indices: 3775212--3775278 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
3775202 AAGTTATAGA
*
3775212 TTTAGTCCTTGTAGTTTT-AGTTGATCA-T
1 TTTAGTCCTTGTACTTTTAAGTTGATCACT
* *
3775240 TTTAGTCTTTGTACTTTTCAAGTTGGTCACT
1 TTTAGTCCTTGTACTTTT-AAGTTGATCACT
3775271 TTTAGTCC
1 TTTAGTCC
3775279 CAATACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 16 0.50
30 8 0.25
31 8 0.25
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.52
Consensus pattern (30 bp):
TTTAGTCCTTGTACTTTTAAGTTGATCACT
Found at i:3775734 original size:61 final size:62
Alignment explanation
Indices: 3775660--3775783 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 62
3775650 AATATAGGGA
3775660 TTAAATCCACAACTTGACAAAAATTGACAAAAAATAT-AAAATTGAGGACTAAAAATATTAT
1 TTAAATCCACAACTTGACAAAAATTGACAAAAAATATAAAAATTGAGGACTAAAAATATTAT
*
3775721 TTAAATCCACAACTTGACAAAAATTGACAAAAAATATAAAAATTGAGGACTAAAAATTTTAT
1 TTAAATCCACAACTTGACAAAAATTGACAAAAAATATAAAAATTGAGGACTAAAAATATTAT
3775783 T
1 T
3775784 ATACCAACTA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 37 0.61
62 24 0.39
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.27
Consensus pattern (62 bp):
TTAAATCCACAACTTGACAAAAATTGACAAAAAATATAAAAATTGAGGACTAAAAATATTAT
Found at i:3776114 original size:3 final size:3
Alignment explanation
Indices: 3776106--3776142 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3776096 TGGTACTCGT
3776106 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
3776143 GCTATTATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:3797474 original size:21 final size:21
Alignment explanation
Indices: 3797449--3797490 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3797439 TTAAATATTT
3797449 TTTAAGCAACCTTATGTTGGA
1 TTTAAGCAACCTTATGTTGGA
3797470 TTTAAGCAACCTTATGTTGGA
1 TTTAAGCAACCTTATGTTGGA
3797491 GGGGTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
TTTAAGCAACCTTATGTTGGA
Found at i:3798778 original size:18 final size:18
Alignment explanation
Indices: 3798737--3798771 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3798727 TACACATCTT
3798737 GTTATTATTTACTTTAAA
1 GTTATTATTTACTTTAAA
3798755 GTTATT-TTTACTATTAA
1 GTTATTATTTACT-TTAA
3798772 TATTATTCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
GTTATTATTTACTTTAAA
Found at i:3799009 original size:47 final size:47
Alignment explanation
Indices: 3798941--3799036 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 47
3798931 GGTTTTATTC
* * * *
3798941 TTGAGTCTCAGATTTAGTTCTTCTCCTATTCATATTTGTATTTTTAT
1 TTGAGTCTCAAATTTAGTTCTTCTCCCATTCACATTTGCATTTTTAT
3798988 TTGAGTCTCAAATTT-GATTCTTCTCCCATTCACATTTGCATTTTTAT
1 TTGAGTCTCAAATTTAG-TTCTTCTCCCATTCACATTTGCATTTTTAT
3799035 TT
1 TT
3799037 CATGTTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.53
Consensus pattern (47 bp):
TTGAGTCTCAAATTTAGTTCTTCTCCCATTCACATTTGCATTTTTAT
Found at i:3799092 original size:15 final size:15
Alignment explanation
Indices: 3799074--3799111 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3799064 ATTAAATTTT
3799074 TTATTAATAAAT-ATG
1 TTATTAATAAATGA-G
*
3799089 TTATAAATAAATGAG
1 TTATTAATAAATGAG
3799104 TTATTAAT
1 TTATTAAT
3799112 TAAGAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
TTATTAATAAATGAG
Found at i:3804746 original size:12 final size:12
Alignment explanation
Indices: 3804729--3804753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3804719 TCTTGTTTGG
3804729 TTTTTATTTTTT
1 TTTTTATTTTTT
3804741 TTTTTATTTTTT
1 TTTTTATTTTTT
3804753 T
1 T
3804754 GGTTACTGCC
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:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:3805281 original size:9 final size:9
Alignment explanation
Indices: 3805267--3805292 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3805257 TTCATGCTAT
3805267 TTTTTAAAA
1 TTTTTAAAA
3805276 TTTTTAAAA
1 TTTTTAAAA
3805285 TTTTTAAA
1 TTTTTAAA
3805293 TTATTTATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:3809973 original size:113 final size:113
Alignment explanation
Indices: 3809775--3810328 Score: 892
Period size: 113 Copynumber: 4.9 Consensus size: 113
3809765 CAATAAGCAA
* * *
3809775 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
3809840 GTGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
3809888 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
3809953 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
3810001 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
*
3810066 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTT
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* * **
3810115 TAGCGGCGTTTTTAAGATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTGGTGAGCTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTT-GTGAGCTT
* *
3810180 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
3810230 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
3810295 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
3810329 AAAAAACCTA
Statistics
Matches: 411, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
113 159 0.39
114 157 0.38
115 95 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:3810169 original size:227 final size:228
Alignment explanation
Indices: 3809775--3810328 Score: 889
Period size: 227 Copynumber: 2.4 Consensus size: 228
3809765 CAATAAGCAA
* ** *
3809775 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
3809840 GTGGCTTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
*
3809905 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTT-GTGAGCTTT-GTGGATTTAGCGGCA
131 AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGCA
*
3809968 TTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
196 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
3810001 TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAATCCAAAACGATGCAGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGGAAGCGCCGC-AAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
3810066 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
65 TGTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAG
* * **
3810131 ATAGCGCCGCAAAAAACCTAATGTAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGC
130 AAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGC
*
3810196 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
195 ATTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
*
3810230 TAGCGGCGTTTTTG-GGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTT
1 TAGCGGCGTTTTTGAGG-AAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTT
* * *
3810294 TCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
65 T-GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
3810329 AAAAAACCTA
Statistics
Matches: 303, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
226 23 0.08
227 134 0.44
228 48 0.16
229 98 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (228 bp):
TAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCACGGCTTTAGCGGCGTTTTTAAGA
AAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGGTGAGCTTTCGGGGATTTAGCGGCA
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:3810309 original size:73 final size:73
Alignment explanation
Indices: 3810228--3810386 Score: 237
Period size: 73 Copynumber: 2.2 Consensus size: 73
3810218 TGCTCAGGGC
* * *
3810228 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
3810293 TTCGGGGA
66 TTCGGGGA
* * * * *
3810301 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
3810366 TTCGGGGA
66 TTCGGGGA
*
3810374 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
3810387 AATTGATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:3810770 original size:17 final size:17
Alignment explanation
Indices: 3810739--3810782 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
3810729 TAGGGAGTAT
3810739 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
3810754 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
3810771 TTATGGTTTAAT
1 TTATGGATTAAT
3810783 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:3811093 original size:14 final size:15
Alignment explanation
Indices: 3811063--3811100 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
3811053 CTACTACATA
3811063 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
3811078 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
3811092 TATGG-TTTA
1 TATGGATTTA
3811101 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:3811175 original size:14 final size:14
Alignment explanation
Indices: 3811130--3811178 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
3811120 GATTTAAGGT
3811130 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
3811144 TTTAGGGGTT-AGACG
1 -TTAGGGGTTAAGA-G
*
3811159 TTAGTGGTTAAGAG
1 TTAGGGGTTAAGAG
3811173 TTAGGG
1 TTAGGG
3811179 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:3811652 original size:46 final size:47
Alignment explanation
Indices: 3811595--3811695 Score: 159
Period size: 47 Copynumber: 2.2 Consensus size: 47
3811585 AATAATGAAA
* * *
3811595 TAAAACACT-AAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAAACTAAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
3811641 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACTAAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
3811688 TAAAAAAC
1 TAAAAAAC
3811696 CTATGTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 8 0.16
47 42 0.84
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.44
Consensus pattern (47 bp):
TAAAAAACTAAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:3814818 original size:43 final size:43
Alignment explanation
Indices: 3814747--3814905 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 43
3814737 CTAAAATTAA
3814747 CGGCG-TTTGTTTAAAAAAGCGCCGCTAAAGACCAGGACTTTTAG
1 CGGCGCTTT-TTTAAAAAA-CGCCGCTAAAGACCAGGACTTTTAG
* *
3814791 CGGCGCTTTTTTGAAAAACGCCGCTAAAGACCAAGACTTTTAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
* * *
3814834 AGGTGCTTTTTTAAAAAACGCCACTAAAGACCAGGACTTTTAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
* *** *
3814877 CGGCACTTTTCCCACAAACGCCGCTAAAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAG
3814906 GTCATTAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
43 83 0.84
44 13 0.13
45 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
Found at i:3814956 original size:28 final size:26
Alignment explanation
Indices: 3814919--3814971 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
3814909 ATTAAATTTA
3814919 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAA-ATT-TAAAAGTCATG
* *
3814947 AAAAATATAAAAATTTAAAATTCAT
1 AAAAAAATAAAAATTTAAAAGTCAT
3814972 TATCAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 3 0.13
28 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAAAAATAAAAATTTAAAAGTCATG
Found at i:3817027 original size:5 final size:5
Alignment explanation
Indices: 3817017--3817052 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
3817007 TTATGTTTTA
3817017 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
3817053 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:3817607 original size:55 final size:55
Alignment explanation
Indices: 3817546--3817655 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
3817536 TAAAGTAAAT
3817546 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
1 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
*
3817601 CAACATTTTGTACTAAGACTATTTTGGACAGCAGCAGTAGTCTAAGTTTGAAAAA
1 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
3817656 TCACCAAAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (55 bp):
CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
Found at i:3818396 original size:15 final size:15
Alignment explanation
Indices: 3818376--3818432 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
3818366 CGATGAATTT
3818376 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
3818391 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
3818406 ATTGAATTTATATTG
1 ATTGAATTTATATTG
3818421 ATTGAA-TTATAT
1 ATTGAATTTATAT
3818433 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:3818834 original size:23 final size:22
Alignment explanation
Indices: 3818804--3818910 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 22
3818794 GCTTTATCGA
**
3818804 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCGTGTGTCGTA-T
*
3818827 TCAGGCACTTCGTGTTTCGTA-
1 TCAGGCACTTCGTGTGTCGTAT
*
3818848 TC-GGCA-TCTCGTGTGACGTA-
1 TCAGGCACT-TCGTGTGTCGTAT
*
3818868 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTCGTGTGTCGTAT
* **
3818889 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCGTGTGTCGTAT
3818911 ACTGATCAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 16 0.24
21 32 0.47
22 1 0.01
23 18 0.26
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTCGTGTGTCGTAT
Found at i:3818879 original size:21 final size:21
Alignment explanation
Indices: 3818827--3818883 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
3818817 GTGTCGTATT
* **
3818827 TCAGGCACTTCGTGTTTCGTA
1 TCAGGCACCTCGTGTGACGTA
*
3818848 TC-GGCATCTCGTGTGACGTA
1 TCAGGCACCTCGTGTGACGTA
3818868 TCAGGCACCTCGTGTG
1 TCAGGCACCTCGTGTG
3818884 TCGTTTTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.32
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGACGTA
Found at i:3820986 original size:25 final size:25
Alignment explanation
Indices: 3820952--3821015 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
3820942 AAGTTGACGA
3820952 CGATGCAGCAGATGGTCGGGTCCGG
1 CGATGCAGCAGATGGTCGGGTCCGG
* *
3820977 CGATGCAGCATATGGTCGGGTCTGG
1 CGATGCAGCAGATGGTCGGGTCCGG
3821002 CGATGCAG-AGATGG
1 CGATGCAGCAGATGG
3821016 GTTGGGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 5 0.14
25 31 0.86
ACGTcount: A:0.19, C:0.20, G:0.42, T:0.19
Consensus pattern (25 bp):
CGATGCAGCAGATGGTCGGGTCCGG
Found at i:3821190 original size:7 final size:7
Alignment explanation
Indices: 3821166--3821209 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
3821156 CATAAATCTA
*
3821166 AACCCAT
1 AACCCCT
*
3821173 AACCTCTT
1 AACC-CCT
3821181 AACCCCT
1 AACCCCT
3821188 AACCCCT
1 AACCCCT
3821195 AACCCCT
1 AACCCCT
*
3821202 AACACCT
1 AACCCCT
3821209 A
1 A
3821210 CACCTTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (7 bp):
AACCCCT
Found at i:3821262 original size:15 final size:15
Alignment explanation
Indices: 3821240--3821274 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3821230 AAACCACCAT
3821240 TAAA-CCATAATCCA
1 TAAACCCATAATCCA
*
3821254 TAAACCCATCATCCA
1 TAAACCCATAATCCA
3821269 TAAACC
1 TAAACC
3821275 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:3828361 original size:37 final size:37
Alignment explanation
Indices: 3828297--3828406 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
3828287 TACGTATGAT
*
3828297 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
3828333 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
3828370 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
3828407 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:3828449 original size:52 final size:52
Alignment explanation
Indices: 3828370--3828684 Score: 393
Period size: 52 Copynumber: 6.2 Consensus size: 52
3828360 TAAGTGTAGC
* * **
3828370 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
3828423 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
3828475 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
3828527 CAC---T---TTGTCACTTGATTAGATAAGTATAGCCGAAGCTATAACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
3828573 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
3828619 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
3828671 CACTTTATCACTTG
1 CACTTT-TCACTTG
3828685 ATCAGAAGTA
Statistics
Matches: 232, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
46 81 0.35
47 2 0.01
48 2 0.01
52 132 0.57
53 15 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:3828480 original size:98 final size:98
Alignment explanation
Indices: 3828370--3828690 Score: 429
Period size: 98 Copynumber: 3.3 Consensus size: 98
3828360 TAAGTGTAGC
* * *
3828370 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
3828435 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3828468 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
* *
3828530 T---TTGTCACTTGATTAGATAAGTATAGCCGAAGCTAT
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * * *
3828566 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
** *
3828631 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3828664 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
3828691 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
92 39 0.20
96 1 0.01
98 114 0.58
101 1 0.01
104 40 0.21
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:3832182 original size:18 final size:18
Alignment explanation
Indices: 3832159--3832251 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3832149 CCCAACTACT
* *
3832159 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTACC
*
3832177 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
3832195 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
3832213 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
3832231 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3832249 GTA
1 GTA
3832252 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3832217 original size:36 final size:36
Alignment explanation
Indices: 3832159--3832251 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
3832149 CCCAACTACT
* * *
3832159 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
3832195 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
3832231 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
3832252 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:3834606 original size:18 final size:20
Alignment explanation
Indices: 3834585--3834626 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
3834575 AACATTTATC
*
3834585 ATTTAAAATTTTA-AT-AAT
1 ATTTAAAAGTTTATATAAAT
*
3834603 ATTTATAAGTTTATATAAAT
1 ATTTAAAAGTTTATATAAAT
3834623 ATTT
1 ATTT
3834627 TAGCTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAAAGTTTATATAAAT
Found at i:3838975 original size:21 final size:22
Alignment explanation
Indices: 3838928--3838978 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3838918 AACATTTAAT
3838928 TAATTTTATAAAATTTTAAAAG
1 TAATTTTATAAAATTTTAAAAG
* *
3838950 TAATTTT-TATAATTTTTAAA-
1 TAATTTTATAAAATTTTAAAAG
*
3838970 TAAATTTAT
1 TAATTTTAT
3838979 TGATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATTTTATAAAATTTTAAAAG
Found at i:3839009 original size:24 final size:24
Alignment explanation
Indices: 3838950--3839025 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 24
3838940 ATTTTAAAAG
3838950 TAATTTTTATAATTTTTAAATAAATT-
1 TAATTTTT-TAATTTTT-AA-AAATTA
*
3838976 TATTGATTTTTAATTTTTAAAAATTA
1 TAAT--TTTTTAATTTTTAAAAATTA
*
3839002 TAATTTTTTAAATTTTAAAAATTA
1 TAATTTTTTAATTTTTAAAAATTA
3839026 ATTAAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.43
25 5 0.11
26 8 0.18
27 8 0.18
28 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TAATTTTTTAATTTTTAAAAATTA
Found at i:3839604 original size:3 final size:3
Alignment explanation
Indices: 3839596--3839648 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
3839586 GCCGCTGTTG
3839596 CTT CTT CTT -TGT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
3839641 CTT CTT CT
1 CTT CTT CT
3839649 CACTTTCAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:3851387 original size:21 final size:21
Alignment explanation
Indices: 3851340--3851388 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
3851330 ATTTAAATTT
*
3851340 TAAAATTTTTAAAAAATTAAA
1 TAAAATTTTTAAAAAATGAAA
*
3851361 TTAAATTTTCTAAAAAATGAAA
1 TAAAATTTT-TAAAAAATGAAA
3851383 -AAAATT
1 TAAAATT
3851389 GCATTTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATTTTTAAAAAATGAAA
Found at i:3853724 original size:9 final size:9
Alignment explanation
Indices: 3853711--3853778 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
3853701 ATAAGTATAA
*
3853711 AATTAACCA
1 AATTAACCG
*
3853720 AATTAATCG
1 AATTAACCG
3853729 AATTAACCG
1 AATTAACCG
*
3853738 AATTACCCG
1 AATTAACCG
* * *
3853747 AACTACCCA
1 AATTAACCG
3853756 AATTAACCG
1 AATTAACCG
*
3853765 AATTAATCG
1 AATTAACCG
3853774 AATTA
1 AATTA
3853779 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:3853864 original size:18 final size:18
Alignment explanation
Indices: 3853841--3853875 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3853831 TTTATGATCA
3853841 GGTTGGGTAATTGGGTTG
1 GGTTGGGTAATTGGGTTG
*
3853859 GGTTGGGTACTTGGGTT
1 GGTTGGGTAATTGGGTT
3853876 AATATATATT
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:0.09, C:0.03, G:0.49, T:0.40
Consensus pattern (18 bp):
GGTTGGGTAATTGGGTTG
Found at i:3854080 original size:18 final size:18
Alignment explanation
Indices: 3854057--3854095 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3854047 AACCGACCCC
**
3854057 TAACCGAATTAATTCGGT
1 TAACCGAACGAATTCGGT
*
3854075 TAACCGACCGAATTCGGT
1 TAACCGAACGAATTCGGT
3854093 TAA
1 TAA
3854096 TCGGTCAGTT
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:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (18 bp):
TAACCGAACGAATTCGGT
Found at i:3856012 original size:78 final size:78
Alignment explanation
Indices: 3855883--3856037 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
3855873 ATTGACAATA
* *
3855883 ACTGTAGCTTGTAGGTGATAATGCTAAATACTAAAGTTCACCCTAAACAATGTTTACTTTCATCT
1 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
3855948 ACATTCAGAACTT
66 ACATTCAGAACTT
3855961 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
1 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
3856026 ACATTCAGAACT
66 ACATTCAGAACT
3856038 AAGTCCAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (78 bp):
ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
ACATTCAGAACTT
Found at i:3881068 original size:59 final size:59
Alignment explanation
Indices: 3880988--3881171 Score: 311
Period size: 59 Copynumber: 3.2 Consensus size: 59
3880978 ACTTTTCTCA
3880988 ACTAGCCACTCCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
*
3881048 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCT
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
* *
3881107 ACTA-CCACTC-TTTTCCACCACCAACTCCACTAGCCACACTTTTCCA-CACCAAATCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
3881163 ACTAGCCAC
1 ACTAGCCAC
3881172 ACTGCTCATT
Statistics
Matches: 119, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
56 12 0.10
57 39 0.33
58 6 0.05
59 52 0.44
60 10 0.08
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.22
Consensus pattern (59 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTCCACCACCAACTCC
Found at i:3881163 original size:28 final size:29
Alignment explanation
Indices: 3881001--3881174 Score: 271
Period size: 29 Copynumber: 6.0 Consensus size: 29
3880991 AGCCACTCCT
3881001 TTTTCCACCACCAACTCCACTAGCCACAC
1 TTTTCCACCACCAACTCCACTAGCCACAC
* *
3881030 CTTTCCACCACCAACTCCACTAGCCACTC
1 TTTTCCACCACCAACTCCACTAGCCACAC
3881059 TTTTTCCACCACCAACTCCACTAGCCACAC
1 -TTTTCCACCACCAACTCCACTAGCCACAC
* * *
3881089 CTTTCCACCACCAACTCTACTA-CCACTC
1 TTTTCCACCACCAACTCCACTAGCCACAC
3881117 TTTTCCACCACCAACTCCACTAGCCACAC
1 TTTTCCACCACCAACTCCACTAGCCACAC
*
3881146 TTTTCCA-CACCAAATCCACTAGCCACAC
1 TTTTCCACCACCAACTCCACTAGCCACAC
3881174 T
1 T
3881175 GCTCATTCTA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
28 46 0.35
29 59 0.45
30 27 0.20
ACGTcount: A:0.27, C:0.48, G:0.03, T:0.22
Consensus pattern (29 bp):
TTTTCCACCACCAACTCCACTAGCCACAC
Found at i:3881810 original size:29 final size:28
Alignment explanation
Indices: 3881766--3881870 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 28
3881756 ATATTACATA
*
3881766 TATATTTATACTATTTATGTATATATCTT
1 TATA-TTATATTATTTATGTATATATCTT
* *
3881795 TAATATTATATTATTTATATATATATATT
1 T-ATATTATATTATTTATGTATATATCTT
* * *
3881824 TTTA-CATGTTATCTTATGTATATATC-T
1 TATATTATATTAT-TTATGTATATATCTT
* *
3881851 TA-ACTATATTATGTATGTAT
1 TATATTATATTATTTATGTAT
3881871 TTTTAACACT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
26 8 0.13
27 14 0.23
28 13 0.21
29 23 0.38
30 3 0.05
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (28 bp):
TATATTATATTATTTATGTATATATCTT
Found at i:3881863 original size:22 final size:24
Alignment explanation
Indices: 3881837--3881895 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
3881827 ACATGTTATC
3881837 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
3881859 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
3881884 TTATGTACATAT
1 TTATGTATATAT
3881896 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:3881885 original size:25 final size:25
Alignment explanation
Indices: 3881853--3881901 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
3881843 ATATATCTTA
**
3881853 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
3881878 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
3881902 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:3883628 original size:12 final size:12
Alignment explanation
Indices: 3883611--3883646 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3883601 ATTCATTTGA
*
3883611 CATTCATGCATT
1 CATTCATACATT
3883623 CATTCATACATT
1 CATTCATACATT
3883635 CATTCATACATT
1 CATTCATACATT
3883647 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (12 bp):
CATTCATACATT
Found at i:3892131 original size:73 final size:73
Alignment explanation
Indices: 3891951--3892205 Score: 404
Period size: 73 Copynumber: 3.5 Consensus size: 73
3891941 CTTTTCAAGG
* * * * * *
3891951 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
*
3892016 GTTTTTC-
66 GTTTGTCA
* * *
3892023 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
3892088 GTTTGTCA
66 GTTTGTCA
*
3892096 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
3892161 GTTTGTCA
66 GTTTGTCA
3892169 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
3892206 GGCTCACATG
Statistics
Matches: 167, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 62 0.37
73 105 0.63
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCA
Found at i:3892243 original size:14 final size:14
Alignment explanation
Indices: 3892224--3892252 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3892214 TGCTGAGGTC
3892224 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3892238 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3892252 T
1 T
3892253 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3892440 original size:73 final size:73
Alignment explanation
Indices: 3892261--3892478 Score: 337
Period size: 73 Copynumber: 2.9 Consensus size: 73
3892251 TTCGTAAAAA
* *
3892261 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-TTTTCAATTT
*
3892326 CTGTTTTTC
65 CTGTTTGTC
*
3892335 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
3892400 TGTTTGTC
66 TGTTTGTC
* * * *
3892408 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTTACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATT
3892473 TCTGTT
64 TCTGTT
3892479 CTTCAATTTC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
73 55 0.41
74 53 0.40
75 25 0.19
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
TGTTTGTC
Found at i:3892485 original size:14 final size:14
Alignment explanation
Indices: 3892466--3892493 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3892456 CTGAGGTCTT
3892466 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3892480 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3892494 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3892606 original size:74 final size:73
Alignment explanation
Indices: 3892499--3892722 Score: 299
Period size: 73 Copynumber: 3.0 Consensus size: 73
3892489 TGTTCGTAAA
* * *
3892499 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTTCAATTT
3892564 CTGTTTTTC
65 CTGTTTTTC
* * *
3892573 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATATGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTTCAATTT
*
3892637 CTGTTTGTC
65 CTGTTTTTC
* *
3892646 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATTCTGAGGT-TTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGGTATTTTTCAAT
*
3892710 TTCTGTTCTTC
63 TTCTGTTTTTC
3892721 AA
1 AA
3892723 TTTCTGTTCG
Statistics
Matches: 131, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
72 2 0.02
73 52 0.40
74 49 0.37
75 28 0.21
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTATTTTTCAATTTC
TGTTTTTC
Found at i:3892723 original size:14 final size:14
Alignment explanation
Indices: 3892704--3892731 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3892694 CTGAGGTTTT
3892704 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3892718 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3892732 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3892795 original size:91 final size:86
Alignment explanation
Indices: 3892629--3892812 Score: 226
Period size: 91 Copynumber: 2.1 Consensus size: 86
3892619 CTGAGGTAAT
* * * **
3892629 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATT
1 TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACG
*
3892694 CTGAGGTTTTTTCAATTTCTGTTC
64 CTGAGG-TTTTTAAATTTCTGTTC
3892718 TTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTCAATTTCTGTTCGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACAC
*
3892782 GCTGAGGTATTTTTAAATTTCTGTTT
63 GCTGAGG--TTTTTAAATTTCTGTTC
3892808 TTCAA
1 TTCAA
3892813 AAAATCAACT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
89 24 0.29
90 20 0.24
91 37 0.45
92 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (86 bp):
TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
GAGGTTTTTAAATTTCTGTTC
Found at i:3892845 original size:75 final size:73
Alignment explanation
Indices: 3892736--3892961 Score: 292
Period size: 75 Copynumber: 3.0 Consensus size: 73
3892726 CTGTTCGTAA
3892736 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
3892801 TCTGTTTTTC
64 TCTGTTTTTC
* * * *
3892811 AAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GACACGCTGAGGTATTTTTAATTT
*
3892876 CTGTTTGTC
65 CTGTTTTTC
* * * * *
3892885 -AAAAATTAACCCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAAT
*
3892949 TTCTGCTTTTC
63 TTCTGTTTTTC
3892960 AA
1 AA
3892962 TTTCTGTTTT
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
72 1 0.01
73 34 0.26
74 14 0.11
75 80 0.62
76 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
TGTTTTTC
Found at i:3892915 original size:239 final size:238
Alignment explanation
Indices: 3892023--3892969 Score: 1637
Period size: 238 Copynumber: 4.0 Consensus size: 238
3892013 TTTGTTTTTC
* * * *
3892023 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * * *
3892087 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATT
*
3892152 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
*
3892217 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT--AAAA
3892262 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
3892327 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATT
*
3892392 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTTACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
3892457 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
*
3892500 AAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * *
3892565 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATATGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATT
*
3892630 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATTC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
*
3892695 TGAGGTTTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
196 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
3892738 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
3892803 TGTTTTTCAAAAAATCAACTCATATTGTGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAAT
66 TGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAAT
* *
3892868 TTCAATTTCTGTTTGTCAAAAATTAACCCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
*
3892933 CTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
195 CTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
3892970 TTTTCAATTT
Statistics
Matches: 677, Mismatches: 28, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
238 307 0.45
239 197 0.29
240 173 0.26
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (238 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:3892963 original size:14 final size:15
Alignment explanation
Indices: 3892938--3892979 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
3892928 ACATGCTGAG
*
3892938 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
3892953 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
3892967 GTTTTTTCAATTT
1 GTCTTTTCAATTT
3892980 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:3892975 original size:15 final size:14
Alignment explanation
Indices: 3892941--3892990 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
3892931 TGCTGAGGTC
3892941 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
3892954 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
3892968 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
3892983 TTTTTCAA
1 TTTTTCAA
3892991 AAATCCACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:3893774 original size:30 final size:30
Alignment explanation
Indices: 3893738--3893971 Score: 321
Period size: 30 Copynumber: 7.8 Consensus size: 30
3893728 ACTTTTCTCA
*
3893738 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3893768 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3893798 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3893827 ACTAGCCACACCTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3893857 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3893887 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
3893917 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
3893947 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
3893972 CTTGTACCTA
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
29 31 0.17
30 152 0.83
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3893920 original size:119 final size:120
Alignment explanation
Indices: 3893738--3893971 Score: 364
Period size: 119 Copynumber: 2.0 Consensus size: 120
3893728 ACTTTTCTCA
*
3893738 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
* * * *
3893803 CCACTCTT-TTCCACCACCAACTCCACTAGCCACACCTT-TTCCACCACCAACTCT
66 CCACACTTGCTCCACCACCAACTCCACTAACCACA-CTTGCTCCACCACCAACTCT
*
3893857 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
** *
3893922 CCACACTTGCTCCATTACCTACTCCACTAACCACACTTGCTCCACCACCA
66 CCACACTTGCTCCACCACCAACTCCACTAACCACACTTGCTCCACCACCA
3893972 CTTGTACCTA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
119 73 0.70
120 31 0.30
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (120 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
CCACACTTGCTCCACCACCAACTCCACTAACCACACTTGCTCCACCACCAACTCT
Found at i:3893966 original size:90 final size:88
Alignment explanation
Indices: 3893738--3893971 Score: 308
Period size: 89 Copynumber: 2.6 Consensus size: 88
3893728 ACTTTTCTCA
* *
3893738 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTCTCCACCACCAACTCCACTAGCCACA-CTTTTCCACCACCAACTCCACTAG
* *
3893803 CCACTCTTTTCCACCACCAACTCC
65 CCACCCTTTTCCACCACCAAATCC
* * *
3893827 ACTAGCCACACCTTTTCCACCACCAACTCTACTAGCCACTCTTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTCTCCACCACCAACTCCACTAGCCACAC-TTTTCCACCACCAACTCCACTAG
3893892 CCACACCTTTTCCACCACCAAATCC
65 CCAC-CCTTTTCCACCACCAAATCC
** * * *
3893917 ACTAGCCACA-CTTGCTCCATTACCTACTCCACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCAACTCCACTAGCCACACTT-TTCCACCACCA
3893972 CTTGTACCTA
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
88 1 0.01
89 69 0.54
90 58 0.45
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (88 bp):
ACTAGCCACACCTTCTCCACCACCAACTCCACTAGCCACACTTTTCCACCACCAACTCCACTAGC
CACCCTTTTCCACCACCAAATCC
Found at i:3894484 original size:23 final size:23
Alignment explanation
Indices: 3894457--3894586 Score: 65
Period size: 25 Copynumber: 5.5 Consensus size: 23
3894447 CCTTTTTTGT
3894457 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
* *
3894480 TATTA-TATATATTCTT-TTAATA
1 TATTATTATAT-TTCTTAATATTA
* *
3894502 TATTAGGTATATTT-TAAAT-TCTA
1 TATTA-TTATATTTCTTAATAT-TA
*
3894525 TATTACATATATATATT-TT-ATACTA
1 TATT--AT-TATAT-TTCTTAATATTA
* *
3894550 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATTTC-TTAATATTA
3894575 TATTATTTATAT
1 TATTA-TTATAT
3894587 ATATATATAT
Statistics
Matches: 80, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
22 16 0.20
23 26 0.32
24 7 0.09
25 27 0.34
26 4 0.05
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:3894550 original size:25 final size:25
Alignment explanation
Indices: 3894522--3894607 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
3894512 ATTTTAAATT
3894522 CTATATTACATATATATATTTTATA
1 CTATATTACATATATATATTTTATA
* ** * *
3894547 CTATTTTATGTATATATCTTTAATA
1 CTATATTACATATATATATTTTATA
* ** *
3894572 TTATATTATTTATATATATATATATA
1 CTATATTACATATATATAT-TTTATA
*
3894598 -TATTTTACAT
1 CTATATTACAT
3894608 GTTATCTTAT
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
25 42 0.91
26 4 0.09
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (25 bp):
CTATATTACATATATATATTTTATA
Found at i:3894577 original size:50 final size:48
Alignment explanation
Indices: 3894459--3894604 Score: 142
Period size: 50 Copynumber: 3.1 Consensus size: 48
3894449 TTTTTTGTTA
* *
3894459 TTAT-TATATT-TCTTAATATTATATTATATATAT-TCTTTTA-ATATA
1 TTATGTATATTCT-TTAATATTATATTATATATATATATTTTATATATT
* * *
3894504 TTAGGTATATT-TTAAAT-TCTATATTACATATATATATTTTATACTATT
1 TTATGTATATTCTTTAATAT-TATATTATATATATATATTTTATA-TATT
* *
3894552 TTATGTATATATCTTTAATATTATATTATTTATATATATATATATATATT
1 TTATGTATAT-TCTTTAATATTATATTATATATATATAT-TTTATATATT
3894602 TTA
1 TTA
3894605 CATGTTATCT
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 20 0.24
46 13 0.16
47 1 0.01
48 12 0.15
49 1 0.01
50 28 0.34
51 6 0.07
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (48 bp):
TTATGTATATTCTTTAATATTATATTATATATATATATTTTATATATT
Found at i:3894854 original size:16 final size:15
Alignment explanation
Indices: 3894830--3894877 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3894820 TAATTATTAT
*
3894830 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3894846 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3894861 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3894877 T
1 T
3894878 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3894865 original size:7 final size:8
Alignment explanation
Indices: 3894830--3894881 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3894820 TAATTATTAT
*
3894830 TATTCTAA
1 TATTTTAA
*
3894838 TATTTTGA
1 TATTTTAA
3894846 TATTTTAA
1 TATTTTAA
3894854 TATTTT-A
1 TATTTTAA
3894861 TATTTTATA
1 TATTTTA-A
*
3894870 TATTTTAT
1 TATTTTAA
3894878 TATT
1 TATT
3894882 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3898919 original size:6 final size:6
Alignment explanation
Indices: 3898908--3898935 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3898898 TTAATTATAG
3898908 TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATA
3898936 TACTTAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:3901746 original size:24 final size:24
Alignment explanation
Indices: 3901719--3901769 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3901709 TTCTGAGAAA
* *
3901719 TTTAAATTTTTTTCTTTTATGTTT
1 TTTAAATTTCTTTCTTTTATCTTT
* *
3901743 TTTAACTTTCTTTCTTTTTTCTTT
1 TTTAAATTTCTTTCTTTTATCTTT
3901767 TTT
1 TTT
3901770 CTTTTCCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAAATTTCTTTCTTTTATCTTT
Found at i:3901765 original size:7 final size:7
Alignment explanation
Indices: 3901726--3901774 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
3901716 AAATTTAAAT
3901726 TTTTTTC
1 TTTTTTC
* *
3901733 TTTTATG
1 TTTTTTC
3901740 TTTTTTAAC
1 TTTTTT--C
3901749 TTTCTTTC
1 TTT-TTTC
3901757 TTTTTTC
1 TTTTTTC
3901764 TTTTTTC
1 TTTTTTC
3901771 TTTT
1 TTTT
3901775 CCATTCTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 25 0.71
8 4 0.11
9 3 0.09
10 3 0.09
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:3908331 original size:19 final size:19
Alignment explanation
Indices: 3908307--3908344 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3908297 TTCATATGTC
3908307 AATATTACAAAGTCGACAG
1 AATATTACAAAGTCGACAG
3908326 AATATTACAAAGTCGACAG
1 AATATTACAAAGTCGACAG
3908345 TCACCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
AATATTACAAAGTCGACAG
Found at i:3909606 original size:46 final size:46
Alignment explanation
Indices: 3909536--3909728 Score: 237
Period size: 46 Copynumber: 4.2 Consensus size: 46
3909526 GATCAAATTA
** *
3909536 ATTGAAGAAGCCACAAATCATATACCCCTAAGTTGCAGTGGGATAG
1 ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
* *
3909582 ATTGAAGAAGATACAAATCCTATACCCCTGAA-TTACAGTGGGATGG
1 ATTGAAGAAGATACAAATCCTATACCCCT-AAGTTGCAGTGGGATAG
* * *
3909628 ATTGAAGAAGATATATATCCTATACCCCTAAGCTGCAGTGGGATAG
1 ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
* * * *
3909674 ATTGAAGATAG-TATAAATCCTATATCCTTGAGTTGCAGTGGGATAG
1 ATTGAAGA-AGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
*
3909720 ATGGAAGAA
1 ATTGAAGAA
3909729 ACCGCAAATT
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
45 3 0.02
46 121 0.95
47 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (46 bp):
ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
Found at i:3910238 original size:89 final size:89
Alignment explanation
Indices: 3910086--3910279 Score: 212
Period size: 89 Copynumber: 2.2 Consensus size: 89
3910076 AAATCTCAAC
* * * * * * * *
3910086 TCCCTAAAGTAGCAGTGGAGTAGATTGAAGTCATAGATCTTATCTCCTTAAAATTACAGTGGAGT
1 TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCATAGACCTTATCTCCCTAAAATTACAATGGAGC
**
3910151 AGA-TCAAAGATGGCGAATCTTATT
66 AGACT-AAAGACAGCGAATCTTATT
* * * *
3910175 TTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCATCAG-CCTTATCTCCCTAAAGTTGCAATGGAG
1 TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCAT-AGACCTTATCTCCCTAAAATTACAATGGAG
*
3910239 CAGACTGAAGACAGCGAATCTTATT
65 CAGACTAAAGACAGCGAATCTTATT
*
3910264 TCCCTAAAATTGCAGT
1 TCCCTAAAGTTGCAGT
3910280 AGAATAGATT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
89 82 0.96
90 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (89 bp):
TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCATAGACCTTATCTCCCTAAAATTACAATGGAGC
AGACTAAAGACAGCGAATCTTATT
Found at i:3910277 original size:45 final size:45
Alignment explanation
Indices: 3910163--3910277 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 45
3910153 ATCAAAGATG
* * * * *
3910163 GCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA
1 GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
* ** * *
3910208 TC-AGCCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACA
1 GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
*
3910252 GCGAATCTTATTTCCCTAAAATTGCA
1 GCGAATCTTATTTCCCTAAAGTTGCA
3910278 GTAGAATAGA
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
44 34 0.63
45 20 0.37
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
Done.