Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 284 of 378
Found at i:85589581 original size:5 final size:6
Alignment explanation
Indices: 85589567--85589597 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
85589557 AGATTTTGGG
85589567 AAAATA AAAATA AAAATA AAAAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
85589598 GCAAAAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:85591695 original size:2 final size:2
Alignment explanation
Indices: 85591688--85591714 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85591678 TGGTTTCCTC
85591688 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
85591715 GCATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85596576 original size:31 final size:30
Alignment explanation
Indices: 85596511--85596571 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
85596501 TAAATCAGAC
85596511 ATTTTAATTTAATGTGTAATATTATACATAA
1 ATTTTAATTT-ATGTGTAATATTATACATAA
* *
85596542 ATTTTAATTT-TGTGTAATTTTATATATAA
1 ATTTTAATTTATGTGTAATATTATACATAA
85596571 A
1 A
85596572 AATTTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.64
31 10 0.36
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (30 bp):
ATTTTAATTTATGTGTAATATTATACATAA
Found at i:85602792 original size:3 final size:3
Alignment explanation
Indices: 85602784--85602838 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
85602774 AAGAAATATT
**
85602784 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
85602832 TAA TAA T
1 TAA TAA T
85602839 GAGAGCTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85603841 original size:22 final size:22
Alignment explanation
Indices: 85603816--85603857 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
85603806 TATAAATGTA
*
85603816 TGTATTTTTGTTCTAATTGTTG
1 TGTATTTTTATTCTAATTGTTG
85603838 TGTATTTTTATTCTAATTGT
1 TGTATTTTTATTCTAATTGT
85603858 AATTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
TGTATTTTTATTCTAATTGTTG
Found at i:85618533 original size:3 final size:3
Alignment explanation
Indices: 85618519--85618570 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
85618509 AATCATGCCA
*
85618519 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
85618567 TAT T
1 TAT T
85618571 TATTGAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:85620122 original size:25 final size:26
Alignment explanation
Indices: 85620082--85620143 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
85620072 TCTATTCCAC
85620082 ATTTTT-T-TTTTGAATTTTT-ATGA
1 ATTTTTATATTTTGAATTTTTGATGA
* *
85620105 ACTTTTTATATTTT-AATTTTTGGTGT
1 A-TTTTTATATTTTGAATTTTTGATGA
85620131 ATTTTTATATTTT
1 ATTTTTATATTTT
85620144 TTGAATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 20 0.61
26 7 0.21
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (26 bp):
ATTTTTATATTTTGAATTTTTGATGA
Found at i:85622045 original size:13 final size:13
Alignment explanation
Indices: 85622027--85622053 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85622017 TGTGTTTGTT
85622027 TATCACATAGGAA
1 TATCACATAGGAA
85622040 TATCACATAGGAA
1 TATCACATAGGAA
85622053 T
1 T
85622054 TGGAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (13 bp):
TATCACATAGGAA
Found at i:85623377 original size:18 final size:18
Alignment explanation
Indices: 85623354--85623389 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85623344 CTTTACACCA
*
85623354 CGTTGTGAATGAACCACT
1 CGTTGTGAATAAACCACT
*
85623372 CGTTGTGGATAAACCACT
1 CGTTGTGAATAAACCACT
85623390 AGTAATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
CGTTGTGAATAAACCACT
Found at i:85624418 original size:161 final size:161
Alignment explanation
Indices: 85624238--85624562 Score: 605
Period size: 161 Copynumber: 2.0 Consensus size: 161
85624228 TGATTTCAAC
85624238 AATCAGTACAGAATCTATTTATCAGGGATTGATTTGATATTGAGAGCAAAGATAATTTCAGCAAT
1 AATCAGTACAGAATCTATTTATCAGGGATTGATTTGATATTGAGAGCAAAGATAATTTCAGCAAT
85624303 GGAGCAAAAATTTAATGCAAAGAAGATGATGAAAAATAAATAGGAAGAGAAAAGAGAAATTCTAA
66 GGAGCAAAAATTTAATGCAAAGAAGATGATGAAAAATAAATAGGAAGAGAAAAGAGAAATTCTAA
85624368 TTGGGATAGGAAAGAAACATAATCCTAGTGT
131 TTGGGATAGGAAAGAAACATAATCCTAGTGT
*
85624399 AATCAGTAGAGAATCTATTTATCAGGGATTGATTTGATATTGAGAGCAAAGATAATTTCAGCAAT
1 AATCAGTACAGAATCTATTTATCAGGGATTGATTTGATATTGAGAGCAAAGATAATTTCAGCAAT
* * *
85624464 GGAGCGAAAATTTGATGCAAAGAAGATGATGAAAAATAAATAGGAAGAGAGAAGAGAAATTCTAA
66 GGAGCAAAAATTTAATGCAAAGAAGATGATGAAAAATAAATAGGAAGAGAAAAGAGAAATTCTAA
*
85624529 TTGGGATGGGAAAGAAACATAATCCTAGTGT
131 TTGGGATAGGAAAGAAACATAATCCTAGTGT
85624560 AAT
1 AAT
85624563 TAGGGGAAAA
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (161 bp):
AATCAGTACAGAATCTATTTATCAGGGATTGATTTGATATTGAGAGCAAAGATAATTTCAGCAAT
GGAGCAAAAATTTAATGCAAAGAAGATGATGAAAAATAAATAGGAAGAGAAAAGAGAAATTCTAA
TTGGGATAGGAAAGAAACATAATCCTAGTGT
Found at i:85627834 original size:34 final size:34
Alignment explanation
Indices: 85627789--85627855 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
85627779 AATAACAATC
* *
85627789 ATTATGGTTATAATAGT-TCGATTCAGTGGAAAAT
1 ATTATGCTTATAATA-TATCGATTCAGTAGAAAAT
*
85627823 ATTATGCTTATAATATATTGATTCAGTAGAAAA
1 ATTATGCTTATAATATATCGATTCAGTAGAAAA
85627856 AAGCATGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (34 bp):
ATTATGCTTATAATATATCGATTCAGTAGAAAAT
Found at i:85628285 original size:13 final size:13
Alignment explanation
Indices: 85628269--85628293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85628259 TGAGGGGGCT
85628269 GTGTGGTCCACAC
1 GTGTGGTCCACAC
85628282 GTGTGGTCCACA
1 GTGTGGTCCACA
85628294 TGCCCGTGTG
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:0.28, G:0.32, T:0.24
Consensus pattern (13 bp):
GTGTGGTCCACAC
Found at i:85629873 original size:6 final size:6
Alignment explanation
Indices: 85629864--85629892 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
85629854 AATCCGAAAT
85629864 AGTAAC AGTAAC AGTAAC AGTAAC AGTAA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTAA
85629893 GGCAACACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (6 bp):
AGTAAC
Found at i:85630122 original size:19 final size:18
Alignment explanation
Indices: 85630078--85630124 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
85630068 ACAATACCAC
*
85630078 AATATCAATACTTACATT
1 AATATCAATACATACATT
*
85630096 AATTTCAATAGCCATACA-T
1 AATATCAATA--CATACATT
85630115 AATATCAATA
1 AATATCAATA
85630125 ATATGTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 10 0.42
20 5 0.21
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (18 bp):
AATATCAATACATACATT
Found at i:85630813 original size:20 final size:20
Alignment explanation
Indices: 85630790--85630828 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85630780 TCTGTTCTGT
85630790 TTCTTACTT-TTATTTCTTTC
1 TTCTT-CTTATTATTTCTTTC
*
85630810 TTCTTTTTATTATTTCTTT
1 TTCTTCTTATTATTTCTTT
85630829 TATTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTCTTATTATTTCTTTC
Found at i:85630849 original size:28 final size:29
Alignment explanation
Indices: 85630796--85630851 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
85630786 CTGTTTCTTA
* *
85630796 CTTTTATTTCTTTCTTCTTTTTATTATTT
1 CTTTTATTTCTTTCTACTTTATATTATTT
*
85630825 CTTTTATTTGTTT-TACTTTATATTATT
1 CTTTTATTTCTTTCTACTTTATATTATT
85630852 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.14, C:0.11, G:0.02, T:0.73
Consensus pattern (29 bp):
CTTTTATTTCTTTCTACTTTATATTATTT
Found at i:85630866 original size:28 final size:28
Alignment explanation
Indices: 85630812--85630868 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
85630802 TTTCTTTCTT
* * *
85630812 CTTTTTATTATTTCTTTTATTTGTTTTA
1 CTTTATATTATTTATTATATTTGTTTTA
*
85630840 CTTTATATTATTATATTATATTTTTTTTA
1 CTTTATATTATT-TATTATATTTGTTTTA
85630869 AATTATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (28 bp):
CTTTATATTATTTATTATATTTGTTTTA
Found at i:85630890 original size:21 final size:22
Alignment explanation
Indices: 85630849--85630897 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
85630839 ACTTTATATT
* *
85630849 ATTAT-ATTATATTTTTTTTAA
1 ATTATAATTATATATTTCTTAA
85630870 ATTATAATTAT-TATTTCTTAA
1 ATTATAATTATATATTTCTTAA
*
85630891 ATAATAA
1 ATTATAA
85630898 GCAAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATAATTATATATTTCTTAA
Found at i:85638567 original size:52 final size:52
Alignment explanation
Indices: 85638490--85638592 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
85638480 ATACTTACCA
85638490 CACACTTGTCACATAAGGCTTATTTGCTAATTTAGTCCCTTCAATTTTCTTC
1 CACACTTGTCACATAAGGCTTATTTGCTAATTTAGTCCCTTCAATTTTCTTC
85638542 CACACTTGTCACATAAGGCTTATTTGCTAATTTAGTCCCTTCAATTTTCTT
1 CACACTTGTCACATAAGGCTTATTTGCTAATTTAGTCCCTTCAATTTTCTT
85638593 TAGTCTATAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (52 bp):
CACACTTGTCACATAAGGCTTATTTGCTAATTTAGTCCCTTCAATTTTCTTC
Found at i:85640805 original size:20 final size:20
Alignment explanation
Indices: 85640762--85640805 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
85640752 ATTTAATAAT
* *
85640762 TATCAATACCCTGCAAAAGG
1 TATCAATACCCTCCAAAAGA
**
85640782 TATCAATACCCTCCTCAAGA
1 TATCAATACCCTCCAAAAGA
85640802 TATC
1 TATC
85640806 GGTATTTTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (20 bp):
TATCAATACCCTCCAAAAGA
Found at i:85645816 original size:17 final size:19
Alignment explanation
Indices: 85645794--85645828 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
85645784 TAATTAATGT
85645794 AAAATAA-TATT-ATTAAA
1 AAAATAATTATTAATTAAA
85645811 AAAATAATTATTAATTAA
1 AAAATAATTATTAATTAA
85645829 CATAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTATTAATTAAA
Found at i:85646692 original size:22 final size:22
Alignment explanation
Indices: 85646660--85646701 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85646650 ATGTTTGTTT
85646660 CAATTAATGTTTTGTTATTTTC
1 CAATTAATGTTTTGTTATTTTC
* *
85646682 CAATTACTGTTTTTTTATTT
1 CAATTAATGTTTTGTTATTT
85646702 ATACACCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (22 bp):
CAATTAATGTTTTGTTATTTTC
Found at i:85647663 original size:3 final size:3
Alignment explanation
Indices: 85647655--85647685 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85647645 CCACTAACTA
85647655 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
85647686 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:85648476 original size:2 final size:2
Alignment explanation
Indices: 85648469--85648504 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
85648459 ACAAAGTGAG
85648469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85648505 TTGACTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85649463 original size:10 final size:11
Alignment explanation
Indices: 85649433--85649462 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
85649423 CTATTTTTAT
85649433 TTAAATAAATTC
1 TTAAA-AAATTC
85649445 TTAAAAAATTC
1 TTAAAAAATTC
85649456 TTAAAAA
1 TTAAAAA
85649463 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TTAAAAAATTC
Found at i:85655118 original size:55 final size:55
Alignment explanation
Indices: 85655057--85655169 Score: 190
Period size: 55 Copynumber: 2.1 Consensus size: 55
85655047 TTATATATCT
*
85655057 ATTCTCATGGGCAAATGAGTCAGCTCAAATTGAAAATTAGTGGCCAAGACCACAA
1 ATTCTCATGGGCAAATGAGTCAGCTCAAATGGAAAATTAGTGGCCAAGACCACAA
* * *
85655112 ATTCTCATGGGCAAATGAGTCGGCTCAAATGGAAAATTGGTGGCCAATACCACAA
1 ATTCTCATGGGCAAATGAGTCAGCTCAAATGGAAAATTAGTGGCCAAGACCACAA
85655167 ATT
1 ATT
85655170 TTACAAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (55 bp):
ATTCTCATGGGCAAATGAGTCAGCTCAAATGGAAAATTAGTGGCCAAGACCACAA
Found at i:85663027 original size:51 final size:51
Alignment explanation
Indices: 85662907--85663035 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 51
85662897 CCATGGTGTC
* * **
85662907 TTTCATCCATTGTCTTACACTACGTACCTCATACCAAACTGCCATAGCATT
1 TTTCATCCATGGTCTTACGCTATATACCTCATACCAAACTGCCATAGCATT
** * * * * * *
85662958 TTTCATATATGATCTTACGCTATATACCTTATACTAGATTGCTATAGCATT
1 TTTCATCCATGGTCTTACGCTATATACCTCATACCAAACTGCCATAGCATT
*
85663009 TTTCATCCATGGTCTTACGCCATATAC
1 TTTCATCCATGGTCTTACGCTATATAC
85663036 AGTCGTCACG
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (51 bp):
TTTCATCCATGGTCTTACGCTATATACCTCATACCAAACTGCCATAGCATT
Found at i:85664509 original size:46 final size:46
Alignment explanation
Indices: 85664356--85664619 Score: 225
Period size: 46 Copynumber: 5.6 Consensus size: 46
85664346 TTTGTGTGCT
* *
85664356 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * *
85664402 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
*
85664450 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * *
85664496 AGTGTAAGACATGTCTGGGACATGCATC-GACT--ACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GAGCC
* * * * *
85664540 AGTGTAAGACCATTTCTGGGACATGGCATCAGCAC-GGATACATGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCG--AGATGAGAGCC
85664590 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
85664620 AGCATTATAC
Statistics
Matches: 182, Mismatches: 22, Indels: 24
0.80 0.10 0.11
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 11 0.06
45 16 0.09
46 56 0.31
47 30 0.16
48 24 0.13
49 1 0.01
50 33 0.18
51 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:85665797 original size:20 final size:21
Alignment explanation
Indices: 85665759--85665797 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
85665749 TTATAATGAA
85665759 CACACGGACGTGTTGCCCTTC
1 CACACGGACGTGTTGCCCTTC
*
85665780 CACACGGGCGTG-TGCCCT
1 CACACGGACGTGTTGCCCT
85665798 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGACGTGTTGCCCTTC
Found at i:85667769 original size:17 final size:17
Alignment explanation
Indices: 85667721--85667770 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
85667711 TTTATTTAAA
*
85667721 TTTTTATCTTTATAATAT
1 TTTTTATCTTTA-AATTT
* *
85667739 TTTCT-TC-TTCAATTT
1 TTTTTATCTTTAAATTT
85667754 TTTTTATCTTTAAATTT
1 TTTTTATCTTTAAATTT
85667771 GTTGTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 9 0.36
18 4 0.16
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATCTTTAAATTT
Found at i:85675175 original size:19 final size:19
Alignment explanation
Indices: 85675140--85675200 Score: 95
Period size: 19 Copynumber: 3.1 Consensus size: 19
85675130 GAAGCTTTTA
85675140 TTTAGCTCTTACGAGCTTCTG
1 TTTAGCT-TT-CGAGCTTCTG
*
85675161 TTTTGCTTTCGAGCTTCTG
1 TTTAGCTTTCGAGCTTCTG
85675180 TTTAGCTTTCGAGCTTCTG
1 TTTAGCTTTCGAGCTTCTG
85675199 TT
1 TT
85675201 GATGTATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 30 0.79
20 2 0.05
21 6 0.16
ACGTcount: A:0.10, C:0.21, G:0.20, T:0.49
Consensus pattern (19 bp):
TTTAGCTTTCGAGCTTCTG
Found at i:85683779 original size:40 final size:41
Alignment explanation
Indices: 85683719--85683812 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
85683709 GTCGATATCA
* *
85683719 CACACTTAGTGCC-TTATATAGCCGGAGCTAT-CCCAACTCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAAC-CG
**
85683759 CACACTTAGTGCCATT-TATAGCCGAAGCTATATTAAACCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAACCG
85683799 CACACTTAGTGCCA
1 CACACTTAGTGCCA
85683813 AGCATAATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 43 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (41 bp):
CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAACCG
Found at i:85687527 original size:25 final size:25
Alignment explanation
Indices: 85687490--85687594 Score: 83
Period size: 25 Copynumber: 4.2 Consensus size: 25
85687480 GTCATTAGGG
* * *
85687490 TTACTGAT-TTCAGCTCATATGAGC
1 TTACCGATATTCAGCTCAGAGGAGC
* *
85687514 TTACCGATACTCAGCTTGCATA--AGC
1 TTACCGATATTCAGC-T-CAGAGGAGC
* *
85687539 TTGCC-ATTATTCAACTCAGAGGAGC
1 TTACCGA-TATTCAGCTCAGAGGAGC
*
85687564 TTACCGTTATTCAGCTCAGAGGAGC
1 TTACCGATATTCAGCTCAGAGGAGC
85687589 TTACCG
1 TTACCG
85687595 TTTACAGCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.05
24 9 0.14
25 48 0.74
26 1 0.02
27 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (25 bp):
TTACCGATATTCAGCTCAGAGGAGC
Found at i:85687595 original size:25 final size:25
Alignment explanation
Indices: 85687536--85687596 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
85687526 AGCTTGCATA
* *
85687536 AGCTTGCCATTATTCAACTCAGAGG
1 AGCTTACCGTTATTCAACTCAGAGG
*
85687561 AGCTTACCGTTATTCAGCTCAGAGG
1 AGCTTACCGTTATTCAACTCAGAGG
85687586 AGCTTACCGTT
1 AGCTTACCGTT
85687597 TACAGCTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (25 bp):
AGCTTACCGTTATTCAACTCAGAGG
Found at i:85694090 original size:53 final size:54
Alignment explanation
Indices: 85694001--85694216 Score: 233
Period size: 55 Copynumber: 4.0 Consensus size: 54
85693991 TATGTGGTAT
* * * *
85694001 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * *
85694055 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * *
85694108 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
**
85694163 CCTTA-GAAACCTTACCAATTTTCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
85694217 AAACCCTAAT
Statistics
Matches: 134, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.01
53 46 0.34
54 15 0.11
55 69 0.51
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:85696433 original size:126 final size:126
Alignment explanation
Indices: 85696208--85696463 Score: 485
Period size: 126 Copynumber: 2.0 Consensus size: 126
85696198 ATCATTATAC
85696208 ATCTTTGTACTACCTGGATGAATAGACAAAGAACTACTATGTGCTTCCTGTAAGATCTTTCGAAT
1 ATCTTTGTACTACCTGGATGAATAGACAAAGAACTACTATGTGCTTCCTGTAAGATCTTTCGAAT
85696273 AAGCTCATCATTCTTCGGTACGCATACCCTATCTCTGAACATCAAACAACCGTCAGAACTG
66 AAGCTCATCATTCTTCGGTACGCATACCCTATCTCTGAACATCAAACAACCGTCAGAACTG
85696334 ATCTTTGTACTACCTGGATGAATAGACAAAGAACTACTATGTGCTTCCTGTAAGATCTTTCGAAT
1 ATCTTTGTACTACCTGGATGAATAGACAAAGAACTACTATGTGCTTCCTGTAAGATCTTTCGAAT
* * *
85696399 AAGCTCATCATTCTTCGGTACGCATACCCTATCTCTGAACATCAAACAACTGTTAGGACTG
66 AAGCTCATCATTCTTCGGTACGCATACCCTATCTCTGAACATCAAACAACCGTCAGAACTG
85696460 ATCT
1 ATCT
85696464 GAAAATCTGA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (126 bp):
ATCTTTGTACTACCTGGATGAATAGACAAAGAACTACTATGTGCTTCCTGTAAGATCTTTCGAAT
AAGCTCATCATTCTTCGGTACGCATACCCTATCTCTGAACATCAAACAACCGTCAGAACTG
Found at i:85701391 original size:55 final size:53
Alignment explanation
Indices: 85701250--85701458 Score: 199
Period size: 55 Copynumber: 3.9 Consensus size: 53
85701240 ACCCTTTTGA
* ** *
85701250 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTACCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* * * *
85701303 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G
* *** *
85701357 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* *
85701410 AAACCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTTA
1 -AA-CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTTA
85701459 AACCCTAATG
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 44 0.34
54 9 0.07
55 71 0.55
56 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
Found at i:85701394 original size:108 final size:110
Alignment explanation
Indices: 85701250--85701450 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
85701240 ACCCTTTTGA
* *
85701250 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTACCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
*
85701313 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** * * *
85701358 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
85701423 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
85701451 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:85707436 original size:3 final size:3
Alignment explanation
Indices: 85707428--85707498 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
85707418 GCATTAGTAA
*
85707428 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85707476 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
85707499 CAGAGACTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85711267 original size:66 final size:66
Alignment explanation
Indices: 85711185--85711355 Score: 225
Period size: 66 Copynumber: 2.6 Consensus size: 66
85711175 GTCAATAGGC
* * * *
85711185 TCACACGGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGTCAGAAGCCAGAATACTCACCATTT
1 TCACACGGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGTCACAAGCCACAATACTCACCATTT
85711250 T
66 T
* * * * * *
85711251 TCACACGGCCTAGCACACGGGCATGTGGCGTGGCCATGTGTCACAAGTCACTATGCTCATCATTT
1 TCACACGGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGTCACAAGCCACAATACTCACCATTT
85711316 T
66 T
* * *
85711317 TCACATGGCCTAGCACATGGGCATGTGGCTTGGCTGTGT
1 TCACACGGCCTAGCACACGGGCATGTGGCTTGGCCGTGT
85711356 AACCCAAGTC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 90 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCATGTGGCTTGGCCGTGTGTCACAAGCCACAATACTCACCATTT
T
Found at i:85711791 original size:28 final size:27
Alignment explanation
Indices: 85711738--85711798 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
85711728 GGAATTGGCA
* *
85711738 ATATACATATATATGAGTGGGGTTATAT
1 ATATACATATATATGAGT-GGATTATAC
85711766 ATATACATATATACATGAGT-GATTATAC
1 ATATACATATAT--ATGAGTGGATTATAC
85711794 ATATA
1 ATATA
85711799 TAATATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 23 0.79
30 6 0.21
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
ATATACATATATATGAGTGGATTATAC
Found at i:85714230 original size:16 final size:17
Alignment explanation
Indices: 85714211--85714256 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
85714201 TAAAAAATTA
*
85714211 TAAATATATATAA-CTT
1 TAAATATATAAAATCTT
*
85714227 TAAAAATA-AAAATCTT
1 TAAATATATAAAATCTT
85714243 TAGAATATATAAAA
1 TA-AATATATAAAA
85714257 ACGTTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 5 0.21
18 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAATATATAAAATCTT
Found at i:85715295 original size:3 final size:3
Alignment explanation
Indices: 85715287--85715323 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
85715277 CTATTTAGTT
85715287 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
85715324 TTTTATTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:85717552 original size:18 final size:18
Alignment explanation
Indices: 85717531--85717577 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
85717521 AGGTTTTAGT
85717531 TAGTAGTGTTAAACCTAG
1 TAGTAGTGTTAAACCTAG
85717549 TAGTAGTGTTAAACCTAG
1 TAGTAGTGTTAAACCTAG
*
85717567 TAGTGGTGTTA
1 TAGTAGTGTTA
85717578 GAGTTTGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (18 bp):
TAGTAGTGTTAAACCTAG
Found at i:85721588 original size:67 final size:67
Alignment explanation
Indices: 85721489--85721773 Score: 254
Period size: 67 Copynumber: 4.3 Consensus size: 67
85721479 AAGGTATAAG
85721489 GTGTAAGACCATAA-CTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGAGGTAT
1 GTGTAAGACCA-AAGCTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGAGGTAT
85721553 GTT
65 GTT
* * * * * * ** * *
85721556 GTGTATGATCATAGTTCGACTATGGCAACATAAAGA-TTCTGTCAGGACAGTAAACACGAGGTAT
1 GTGTAAGACCAAAGCTCGACTATGGCAGCATAAAGAGTCCACT-AGGATAGTAAACATGAGGTAT
85721620 GTT
65 GTT
** * * ** **
85721623 GTGTAAGACCAAAGCTCGACTATGATAGCACAGAGAGTCTGCTAGGATAGTAAACATGTTGTATG
1 GTGTAAGACCAAAGCTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGAGGTATG
85721688 TT
66 TT
* * * *** * * *
85721690 GTGTAAGACCATAA-CTCGATTATGGCAGTATACAGAGTTTGCTAGCACAGTAAACA-CAGGGTA
1 GTGTAAGACCA-AAGCTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGA-GGTA
85721753 TGTT
64 TGTT
*
85721757 GTGTAAGACCATAGCTC
1 GTGTAAGACCAAAGCTC
85721774 AGCTACGACA
Statistics
Matches: 172, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
66 5 0.03
67 163 0.95
68 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (67 bp):
GTGTAAGACCAAAGCTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGAGGTATG
TT
Found at i:85721740 original size:134 final size:134
Alignment explanation
Indices: 85721489--85721786 Score: 345
Period size: 134 Copynumber: 2.2 Consensus size: 134
85721479 AAGGTATAAG
* *
85721489 GTGTAAGACCATAA-CTCGACTATGGCAGCATAAAGAGTCCACTAGGATAGTAAACATGAGGTAT
1 GTGTAAGACCA-AAGCTCGACTATGACAGCACAAAGAGTCCACTAGGATAGTAAACATGAGGTAT
* * ** *
85721553 GTTGTGTATGATCATAGTTCGACTATGGCAACATAAAGATTCTGTCAGGACAGTAAACAC-GAGG
65 GTTGTGTAAGACCATAACTCGACTATGGCAACATAAAGATTCTGTCAGCACAGTAAACACAG-GG
85721617 TATGTT
129 TATGTT
* * ** **
85721623 GTGTAAGACCAAAGCTCGACTATGATAGCACAGAGAGTCTGCTAGGATAGTAAACATGTTGTATG
1 GTGTAAGACCAAAGCTCGACTATGACAGCACAAAGAGTCCACTAGGATAGTAAACATGAGGTATG
* ** *
85721688 TTGTGTAAGACCATAACTCGATTATGGCAGTATACAGAGTT-TG-CTAGCACAGTAAACACAGGG
66 TTGTGTAAGACCATAACTCGACTATGGCAACATAAAGA-TTCTGTC-AGCACAGTAAACACAGGG
85721751 TATGTT
129 TATGTT
* *
85721757 GTGTAAGACCATAGCTC-AGCTACGACAGCA
1 GTGTAAGACCAAAGCTCGA-CTATGACAGCA
85721787 TAGTGTAACA
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
133 4 0.03
134 132 0.95
135 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (134 bp):
GTGTAAGACCAAAGCTCGACTATGACAGCACAAAGAGTCCACTAGGATAGTAAACATGAGGTATG
TTGTGTAAGACCATAACTCGACTATGGCAACATAAAGATTCTGTCAGCACAGTAAACACAGGGTA
TGTT
Found at i:85723145 original size:13 final size:13
Alignment explanation
Indices: 85723114--85723186 Score: 74
Period size: 13 Copynumber: 5.5 Consensus size: 13
85723104 TCCTACAAAT
* *
85723114 ATTTCGTATAAAC
1 ATTTCATATAACC
*
85723127 ACTTCATATAACC
1 ATTTCATATAACC
* *
85723140 ATTTCATATATCT
1 ATTTCATATAACC
*
85723153 ATTTCTATATAAAC
1 ATTTC-ATATAACC
*
85723167 ATTTCGTATAACC
1 ATTTCATATAACC
85723180 ATTTCAT
1 ATTTCAT
85723187 TTACACATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
13 37 0.79
14 10 0.21
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:85723183 original size:27 final size:26
Alignment explanation
Indices: 85723114--85723196 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
85723104 TCCTACAAAT
* * *
85723114 ATTTCGTATAAACACTTCATATAACC
1 ATTTCGTATAACCATTTCATATAAAC
* * *
85723140 ATTTCATATATCTATTTCTATATAAAC
1 ATTTCGTATAACCATTTC-ATATAAAC
* *
85723167 ATTTCGTATAACCATTTCATTTACAC
1 ATTTCGTATAACCATTTCATATAAAC
85723193 ATTT
1 ATTT
85723197 AACACAATCA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTTCGTATAACCATTTCATATAAAC
Found at i:85728194 original size:21 final size:21
Alignment explanation
Indices: 85728155--85728194 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85728145 AAAGGTCATG
*
85728155 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
85728176 GATGATTTGAA-AGTCACTT
1 GATGATTT-AAGAGTCACTT
85728195 GTTATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:85728756 original size:27 final size:28
Alignment explanation
Indices: 85728698--85728770 Score: 112
Period size: 27 Copynumber: 2.6 Consensus size: 28
85728688 GATTGCATGA
*
85728698 ATATGAATGTGATTGGACCTGATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
85728726 ATATGGATGTGATTGGGCC-GATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
85728753 ATATGAATGAGATTGGGC
1 ATATGAATGTGATTGGGC
85728771 TTAAAAGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.25, C:0.12, G:0.36, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGGCC
Found at i:85736318 original size:17 final size:18
Alignment explanation
Indices: 85736285--85736318 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85736275 TTCAAAGAAG
85736285 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
85736303 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
85736319 CTTTAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:85736872 original size:49 final size:49
Alignment explanation
Indices: 85736814--85736939 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 49
85736804 GCACATCAAA
* **
85736814 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATTTAG
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * *
85736863 GTCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGAT
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
*
85736912 GTTGATGCCATGTCCTAGACAGGTCTTA
1 GTCGATGCCATGTCCTAGACAGGTCTTA
85736940 AACTAACACA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:85737074 original size:46 final size:45
Alignment explanation
Indices: 85736964--85737130 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
85736954 AAGCTGACGC
* **
85736964 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTAGAGGTAGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-TATATC-A-A-GCCGATG
* * *
85737012 CATGTCCCAGATATGTCTTACACTAGCTCTTGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTTATATCAA-GCCGATG
* * * **
85737058 CATGTCCCAGACATGTCTTACAAT-GACACTCATAATGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAG-CTCTTAT-ATCAAGCCGATG
*
85737104 CATGTCCCAGACATCTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
85737131 ACACATATCA
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.63
47 4 0.04
48 30 0.31
49 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTTATATCAAGCCGATG
Found at i:85739994 original size:51 final size:51
Alignment explanation
Indices: 85739911--85740108 Score: 254
Period size: 51 Copynumber: 3.9 Consensus size: 51
85739901 AGATACATGG
* * *
85739911 TGGCCTTCACATAGTACCACCCTTGTAG-CCAAAACTATTTTGTTCACAAAT
1 TGGCCTTCACATAGTACCACACTTGT-GTCCAAAACTATTTTATTCACAAAC
* * *
85739962 TGGCCTTCACATAGTACCACATTTGTGTCCAAAAATATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTCACAAAC
* * * * * *
85740013 TGACCTTCACATAGTATCGCACTTGTGTCTAAAGCTATTATATTCACAAAC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTCACAAAC
* *
85740064 TGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTC
85740109 CTAAGGTTCA
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 1 0.01
51 125 0.99
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTTTATTCACAAAC
Found at i:85740217 original size:28 final size:27
Alignment explanation
Indices: 85740132--85740275 Score: 147
Period size: 28 Copynumber: 5.4 Consensus size: 27
85740122 GGGAAGTTTC
* * *
85740132 TCACTGAGCACAATGCCATAGACCTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
85740160 TCACTTAG---ATGCCATGGACTTGTT
1 TCACTTAGCACATGCCATGGACTTATT
*
85740184 TTACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
85740212 TCACTTAGCACATTACCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
85740240 TCACTTAG---ATGCCGTGGCCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
85740264 TCACTTAGCACA
1 TCACTTAGCACA
85740276 ATGTCATATC
Statistics
Matches: 98, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
24 40 0.41
25 1 0.01
27 2 0.02
28 55 0.56
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:85746402 original size:51 final size:51
Alignment explanation
Indices: 85746333--85746530 Score: 333
Period size: 51 Copynumber: 3.9 Consensus size: 51
85746323 GGATACACAA
* *
85746333 TGGCCTTCACATAGTACCACACTTTTGTCCAAAGCTATTTTATTCACAAAC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
85746384 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* * *
85746435 TGGCCTTCACATAGTACCAAACTTGTGTCCAAAGATATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
* *
85746486 TGGTCTTCACATAGTACCACACTTGTGTCTAAAGCTATTTTATTC
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
85746531 CTAAGGTTCA
Statistics
Matches: 137, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 137 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAG
Found at i:85752757 original size:47 final size:47
Alignment explanation
Indices: 85752698--85752819 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
85752688 GCATTGGCAC
*
85752698 TAAGACAAGGATACCATGTAAGACCATGTTTGGAAAATGACATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGACATTTGG
* * *
85752745 TAAGACAAGGATATCATGTAAGACCTTGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGACATTTGG
* *
85752792 TACGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATATCATGTAAGACCATG
85752820 GCAAGGCATG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATATCATGTAAGACCATGTTTGGAAAATGACATTTGG
Found at i:85752926 original size:55 final size:54
Alignment explanation
Indices: 85752806--85752992 Score: 198
Period size: 55 Copynumber: 3.5 Consensus size: 54
85752796 ATAAGGATAT
** * * *
85752806 CATGTAAGACCATGGCAAGGCATGGCATTGATAAGTTCTATAAGGAAAGGAAAT
1 CATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
**
85752860 CATGTAAGACCATATCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATATCAAGACATGGCATTGATGAGTT-CTATAAGG-AAAGGAAAC
* * * * *
85752915 CATGTAAGACCATTTCAAGTCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
** * *
85752968 CACATAAGACCTTGTCAAGACATGG
1 CATGTAAGACCATATCAAGACATGG
85752993 AAATGGTAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
52 4 0.04
53 28 0.25
54 34 0.30
55 42 0.37
56 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
CATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
Found at i:85752986 original size:53 final size:54
Alignment explanation
Indices: 85752798--85753015 Score: 215
Period size: 54 Copynumber: 4.0 Consensus size: 54
85752788 TTGGTACGAT
* * *
85752798 AAGGATATCATGTAAGACCATGGCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
* * * *
85752852 AAGGAAATCATGTAAGACCATATCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAGG-A
* * * * * *
85752908 AAGG-TCCCATGTAAGACCATTTCAAGTCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
** * * * * * *
85752960 AAGGATACCACATAAGACCTTGTCAAGACATGGAAATGGTAAGTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
85753014 AA
1 AA
85753016 AGGTTCCCGA
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 38 0.28
54 48 0.35
55 42 0.31
56 5 0.04
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAGGA
Found at i:85762865 original size:29 final size:28
Alignment explanation
Indices: 85762804--85762889 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
85762794 TACCTGTATC
**
85762804 TGGCCCATTAAGCCCAATCGTATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
* * *
85762832 TGGCCCATTAGGCCCAAATCACATTTATG
1 TGGCCCATTAAGCCC-AATCACATTCATA
** *
85762861 TGGCCTGTTAAGCCCAGTCACATTCATA
1 TGGCCCATTAAGCCCAATCACATTCATA
85762889 T
1 T
85762890 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAAGCCCAATCACATTCATA
Found at i:85764377 original size:16 final size:16
Alignment explanation
Indices: 85764356--85764386 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
85764346 AAATTCAAAG
85764356 TTTCGAGATTTTTGGA
1 TTTCGAGATTTTTGGA
85764372 TTTCGAGATTTTTGG
1 TTTCGAGATTTTTGG
85764387 GGCGTTACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGA
Found at i:85768421 original size:23 final size:23
Alignment explanation
Indices: 85768368--85768414 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85768358 ATGGCTAAAC
85768368 GAGGTACTATATGCTTTGAAAAT
1 GAGGTACTATATGCTTTGAAAAT
85768391 GAGGTACTATATGCTTTGAAAAT
1 GAGGTACTATATGCTTTGAAAAT
85768414 G
1 G
85768415 GCTTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (23 bp):
GAGGTACTATATGCTTTGAAAAT
Found at i:85772525 original size:28 final size:28
Alignment explanation
Indices: 85772464--85772561 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
85772454 TCACAAATTG
** * *
85772464 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
85772493 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
85772521 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
85772549 GCACTAAGTGTGC
1 GCACTAAGTGTGC
85772562 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:85780190 original size:28 final size:28
Alignment explanation
Indices: 85780129--85780226 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
85780119 TCACAAATTG
** * *
85780129 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
85780158 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
85780186 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
85780214 GCACTAAGTGTGC
1 GCACTAAGTGTGC
85780227 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:85786688 original size:39 final size:39
Alignment explanation
Indices: 85786634--85786711 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
85786624 AGGTGCCCCC
*
85786634 GTACTATTCGTGAAAAAGAAATATAGTTTGATGAGATTA
1 GTACTATTCGTGAAAAAGAAATATAGTTCGATGAGATTA
85786673 GTACTATTCGTGAAAAAGAAATATAGTTCGATGAGATTA
1 GTACTATTCGTGAAAAAGAAATATAGTTCGATGAGATTA
85786712 TGTATAGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (39 bp):
GTACTATTCGTGAAAAAGAAATATAGTTCGATGAGATTA
Found at i:85792784 original size:17 final size:18
Alignment explanation
Indices: 85792742--85792784 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
85792732 TGCTGATTCG
85792742 ATTATTCACTTTCTAAAC
1 ATTATTCACTTTCTAAAC
* *
85792760 ATTATTCACTTTTTGAAC
1 ATTATTCACTTTCTAAAC
85792778 A-TATTCA
1 ATTATTCA
85792785 AAACCCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (18 bp):
ATTATTCACTTTCTAAAC
Found at i:85794622 original size:27 final size:27
Alignment explanation
Indices: 85794592--85794722 Score: 176
Period size: 27 Copynumber: 4.9 Consensus size: 27
85794582 TAGAATTACA
85794592 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATATC
* * *
85794619 GAAATACCCCTGTAGGATAGAATTATC
1 GAAATACCCTTGTAGGGTAGAAATATC
*
85794646 GAAATACCCTTGTAGGGTAGAAATATT
1 GAAATACCCTTGTAGGGTAGAAATATC
*
85794673 GAAATACCCCTGTAGGGTA-AAATTATC
1 GAAATACCCTTGTAGGGTAGAAA-TATC
* *
85794700 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
85794723 TACCATTTTG
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.04
27 87 0.96
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATATC
Found at i:85794657 original size:54 final size:54
Alignment explanation
Indices: 85794582--85794722 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
85794572 GGATAAGTTG
85794582 TAGAATTA-CAGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGA
1 TAGAATTATC-GAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGA
* *
85794636 TAGAATTATCGAAATACCCTTGTAGGGTAGAAATATTGAAATACCCCTGTAGGG
1 TAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGA
* * *
85794690 TAAAATTATCGAGATACCCTTGTGGGGTA-AAAT
1 TAGAATTATCGAAATACCCTTGTAGGGTAGAAAT
85794723 TACCATTTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 4 0.05
54 76 0.94
55 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (54 bp):
TAGAATTATCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGA
Found at i:85795421 original size:27 final size:26
Alignment explanation
Indices: 85795377--85795428 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
85795367 CTCGCTGCAA
*
85795377 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
85795404 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
85795429 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:85804964 original size:10 final size:11
Alignment explanation
Indices: 85804949--85805017 Score: 76
Period size: 11 Copynumber: 6.7 Consensus size: 11
85804939 ATTTTGATAT
*
85804949 ACATGATTTG-
1 ACATGATATGC
85804959 ACATGATATGC
1 ACATGATATGC
85804970 ACATGATATG-
1 ACATGATATGC
*
85804980 -TATGATATGC
1 ACATGATATGC
85804990 ACATGATATG-
1 ACATGATATGC
*
85805000 -TATGATATGC
1 ACATGATATGC
85805010 ACATGATA
1 ACATGATA
85805018 AACTCATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
9 16 0.33
10 9 0.18
11 24 0.49
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:85804986 original size:20 final size:20
Alignment explanation
Indices: 85804961--85805017 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
85804951 ATGATTTGAC
85804961 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
85804981 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
85805001 ATGATATGCACATGATA
1 ATGATATGCACATGATA
85805018 AACTCATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:85805099 original size:25 final size:25
Alignment explanation
Indices: 85805065--85805134 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
85805055 GAGGAAGTGT
85805065 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
85805090 AAAAGGGCTTTGCCTCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
85805115 AAAAGGGCTTCGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
85805135 ATTTAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:85805147 original size:24 final size:24
Alignment explanation
Indices: 85805116--85805161 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
85805106 AGTTTATCGA
*
85805116 AAAGGGCTTCGCC-CCAGTTATTT
1 AAAGGGCTACGCCTCCAGTTATTT
*
85805139 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTACGCCTCCAGTTAT
85805162 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAGGGCTACGCCTCCAGTTATTT
Found at i:85805372 original size:31 final size:31
Alignment explanation
Indices: 85805337--85805477 Score: 201
Period size: 31 Copynumber: 4.5 Consensus size: 31
85805327 CGTTTACAGT
* *
85805337 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
* *
85805368 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
* * *
85805399 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
* *
85805430 AAAGGCTTCGGCCCAGTGGTTTGATTAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTAATGA
85805461 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
85805478 AACCGTTAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 98 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTAATGA
Found at i:85805513 original size:28 final size:28
Alignment explanation
Indices: 85805337--85805516 Score: 130
Period size: 31 Copynumber: 6.0 Consensus size: 28
85805327 CGTTTACAGT
* *
85805337 AAAGGCTTCGGCCTAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGT-ATATG-TTAA-GA
* *
85805368 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATG--TTAAGA
* * *
85805399 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGT-ATATG--TTAAGA
* *
85805430 AAAGGCTTCGGCCCAGTGGTTTGATTAATGA
1 AAAGGCTTCGGCCCAGT-ATATG-TTAA-GA
*
85805461 AAAGGCTTCGGCCCAGTA-ACCGTTAA-A
1 AAAGGCTTCGGCCCAGTATA-TGTTAAGA
85805488 CAAAGGCTTCGGCCCAGTATATGTTAAGA
1 -AAAGGCTTCGGCCCAGTATATGTTAAGA
85805517 CTGAATGTGG
Statistics
Matches: 125, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 23 0.18
29 6 0.05
30 4 0.03
31 89 0.71
32 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (28 bp):
AAAGGCTTCGGCCCAGTATATGTTAAGA
Found at i:85809042 original size:250 final size:250
Alignment explanation
Indices: 85808589--85809043 Score: 567
Period size: 250 Copynumber: 1.8 Consensus size: 250
85808579 TCAGATCGAA
* * * * * *
85808589 GAACTCTAGAGTTTGTACTAGAAATTGAGAAATTGGCCTAAAAACTGCGGAAAGAATCCATTTGA
1 GAACTCTAGAGTTTGAACCAGAAATTGAGAAATTGGCCCAAAAACTACGAAAAGAAGCCATTTGA
* ** * * *
85808654 CGCGGTAAACGACCAAATCTAGGATTTGAAACCATATCTTACACCGAGGAAATTTTCCAGTTTGA
66 CGCCGTAAACGACCAAATCTAGGATTCAAAACCATATCTTACACCAAAGAAATTTTCCAGTTCGA
* ** * * *
85808719 CAAACCGACAGAGATGGTTGAACAAACTATATGCCAACTTGCAGCGGCACTAGATGAACAAAAAC
131 CAAACCAACAGAGATGGCCGAACAAACAATATGCCAACTCGCAGCGGCACCAGATGAACAAAAAC
85808784 CCTTATGTATGACCTATTCAGTGGGAGGAACGTTGTTTGAGTTAAAATCAGGTTT
196 CCTTATGTATGACCTATTCAGTGGGAGGAACGTTGTTTGAGTTAAAATCAGGTTT
* * *
85808839 GAACTTTAGAGTTTGAACCAGAAATTGAGAAATTGGCCCAAAAACTATGAAAAGCAGCCATTTGA
1 GAACTCTAGAGTTTGAACCAGAAATTGAGAAATTGGCCCAAAAACTACGAAAAGAAGCCATTTGA
* * *
85808904 TGCCGTAAATGACCAAATCCTA-GATTCAAAACCATATCTTACACCAAATAAATTTTCTCA-TTC
66 CGCCGTAAACGACCAAAT-CTAGGATTCAAAACCATATCTTACACCAAAGAAATTTTC-CAGTTC
** * *
85808967 GATGAACCAAACA-AGATGGCCGAAGAGAA-AATATGTCAACTCGCAGCGGCACCAGATGAACAA
129 GACAAACC-AACAGAGATGGCCGAACA-AACAATATGCCAACTCGCAGCGGCACCAGATGAACAA
* * *
85809030 CAGCCTTTATGTAT
192 AAACCCTTATGTAT
85809044 AATCTATCTG
Statistics
Matches: 170, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
250 160 0.94
251 10 0.06
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (250 bp):
GAACTCTAGAGTTTGAACCAGAAATTGAGAAATTGGCCCAAAAACTACGAAAAGAAGCCATTTGA
CGCCGTAAACGACCAAATCTAGGATTCAAAACCATATCTTACACCAAAGAAATTTTCCAGTTCGA
CAAACCAACAGAGATGGCCGAACAAACAATATGCCAACTCGCAGCGGCACCAGATGAACAAAAAC
CCTTATGTATGACCTATTCAGTGGGAGGAACGTTGTTTGAGTTAAAATCAGGTTT
Found at i:85814659 original size:18 final size:18
Alignment explanation
Indices: 85814638--85814680 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
85814628 CGCTGATTTG
*
85814638 ATTATTCACTTTCTAAAC
1 ATTATTCACTTTCAAAAC
85814656 ATTATTCACTTTCAAAAC
1 ATTATTCACTTTCAAAAC
85814674 ATT-TTCA
1 ATTATTCA
85814681 AAACCCTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTATTCACTTTCAAAAC
Found at i:85816590 original size:40 final size:39
Alignment explanation
Indices: 85816546--85816671 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
85816536 GGGACTCAAC
*
85816546 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
85816586 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
85816626 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
85816666 CCGGAT
1 CCGGAT
85816672 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:85816630 original size:80 final size:80
Alignment explanation
Indices: 85816485--85816671 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
85816475 GCTACACATT
* * *
85816485 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
85816549 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
85816565 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
85816628 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
85816646 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
85816672 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:85824648 original size:40 final size:39
Alignment explanation
Indices: 85824604--85824729 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
85824594 GGGACTCAAC
*
85824604 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
85824644 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
85824684 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
85824724 CCGGAT
1 CCGGAT
85824730 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:85824688 original size:80 final size:80
Alignment explanation
Indices: 85824543--85824729 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
85824533 GCTACACATT
* * *
85824543 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
85824607 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
85824623 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
85824686 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
85824704 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
85824730 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:85829267 original size:19 final size:20
Alignment explanation
Indices: 85829223--85829268 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
85829213 AAGATGACAC
*
85829223 CAAATTAACTTGTTGTTTTA
1 CAAATTAACTTGTTATTTTA
**
85829243 TTAATTAACTT-TTATTTTA
1 CAAATTAACTTGTTATTTTA
85829262 CAAATTA
1 CAAATTA
85829269 CCTTAATAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (20 bp):
CAAATTAACTTGTTATTTTA
Found at i:85831478 original size:30 final size:30
Alignment explanation
Indices: 85831420--85831478 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
85831410 TTTACGAGCC
* * *
85831420 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* *
85831450 TAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
85831479 ATGATTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:85831735 original size:18 final size:20
Alignment explanation
Indices: 85831699--85831744 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
85831689 AGTTGTAAGT
85831699 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
*
85831719 ATAT-TATGTG-ATTATTTG
1 ATATATATGTGAATAATTTG
85831737 ATGATATA
1 AT-ATATA
85831745 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:85832174 original size:50 final size:50
Alignment explanation
Indices: 85832093--85832476 Score: 310
Period size: 50 Copynumber: 7.6 Consensus size: 50
85832083 TCCATTGTAA
* * * * *
85832093 GTCACGTGTGTAGTACTAATTGCGGGTTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * ** * * *
85832143 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
85832194 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
85832244 GTCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
85832294 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
85832345 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAG-TTGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT-GATAG
* *
85832395 CTCA-AGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAG
1 GTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
85832445 G-CTGCATGTGTAATACTAAGTGTAGGCTACTA
1 GTC-ACATGTGTAGTACTAAGTGCAGGCTACTA
85832477 TGCATACCAA
Statistics
Matches: 258, Mismatches: 66, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
49 7 0.03
50 173 0.67
51 77 0.30
52 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:85832364 original size:151 final size:151
Alignment explanation
Indices: 85832090--85832484 Score: 630
Period size: 151 Copynumber: 2.6 Consensus size: 151
85832080 TGATCCATTG
* * * * *
85832090 TAAGTCACGTGTGTAGTACTAATTGCGGGTTACTATGTGTACCAGATTGATAGGTCGCATGTGTA
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTA
*
85832155 GTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGG
66 GTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAAG
85832220 CTACTACGTGTATCAAATGGT
131 CTACTACGTGTATCAAATGGT
*
85832241 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACTAGATTGATAGGTCGCATGTGTA
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTA
* *
85832306 GTACTAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAAG
66 GTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAAG
**
85832371 CTACTACGTGTATCAGTTGGT
131 CTACTACGTGTATCAAATGGT
* *
85832392 TAACTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGG-CTGCATGTGT
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTC-GCATGTGT
* * *
85832456 AATACTAAGTGTAGGCTACTATGCATACC
65 AGTACTAAGTGCAAGCTACTATGCATACC
85832485 AAAGAGCTTC
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
150 1 0.00
151 224 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTA
GTACTAAGTGCAAGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAAG
CTACTACGTGTATCAAATGGT
Found at i:85832405 original size:101 final size:101
Alignment explanation
Indices: 85832245--85832426 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 101
85832235 AATGGTTAAG
* * ** *
85832245 TCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTACTAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATTGATAACTCGAATGTGTAGTAC
85832310 TAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
*
85832346 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-TCAG-TTGGTTAACTC-AAGTGTGTAG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACT-AGATT-GATAACTCGAA-TGTGTAG
*
85832408 TACTAAGTGCAGGCTACTA
63 TACTAAGTGCAAGCTACTA
85832427 CGTGTACTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 4 0.06
101 67 0.94
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATTGATAACTCGAATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
Found at i:85832707 original size:16 final size:16
Alignment explanation
Indices: 85832686--85832717 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85832676 AGAATGGAGT
85832686 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
85832702 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
85832718 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:85842511 original size:29 final size:29
Alignment explanation
Indices: 85842478--85842551 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
85842468 GTGACGAGAT
85842478 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
85842507 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
85842536 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85842552 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:85842567 original size:29 final size:29
Alignment explanation
Indices: 85842535--85842610 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
85842525 CTGGAAATAT
* *
85842535 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
85842564 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
85842593 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
85842611 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:85842578 original size:58 final size:58
Alignment explanation
Indices: 85842478--85842610 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
85842468 GTGACGAGAT
* * * * * *
85842478 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
85842536 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
85842594 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
85842611 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:85850378 original size:29 final size:29
Alignment explanation
Indices: 85850328--85850393 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
85850318 CGGTGACGAG
** * *
85850328 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCAAGCTGAAAAAAT
85850357 ATGGCACTAAGTGTGCAAGCTGAAAAAAT
1 ATGGCACTAAGTGTGCAAGCTGAAAAAAT
*
85850386 ACGGCACT
1 ATGGCACT
85850394 GGGTGTGCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCAAGCTGAAAAAAT
Found at i:85860085 original size:29 final size:28
Alignment explanation
Indices: 85860053--85860155 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
85860043 GTGACGAGAT
* *
85860053 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
85860082 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
85860111 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
85860140 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85860156 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:85867507 original size:29 final size:28
Alignment explanation
Indices: 85867475--85867577 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
85867465 GTGACGAGAT
* *
85867475 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
85867504 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
85867533 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
85867562 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85867578 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:85878645 original size:91 final size:89
Alignment explanation
Indices: 85878445--85878654 Score: 221
Period size: 91 Copynumber: 2.3 Consensus size: 89
85878435 GGAAGTTTAT
*
85878445 CTACAAACACTGGTGGTTTATCCACAACATTATTGACAACATTTATCTGCAAACCCGTTGTACAT
1 CTAC-AACACTTGTGGTTTATCCACAA-ATTATTGACAACATTTATCTGCAAACCCGTTGTACAT
*
85878510 TCATAACCTACTGACAACGTATGAAC
64 TCACAACCTACTGACAACGTATGAAC
* * *
85878536 CTGCAAGTA-TTGGTGGTTTATCCACAAATT-TT-ACTAGCACACTTTTATCTGCAACCCCGTTG
1 CTACAA-CACTT-GTGGTTTATCCACAAATTATTGAC-A--ACA--TTTATCTGCAAACCCGTTG
** ** *
85878598 TGTATTCACAA-CTACTGACATTGTATTAAC
59 TACATTCACAACCTACTGACAACGTATGAAC
85878628 CTACAACACTTGTGGTTTATCCACAAA
1 CTACAACACTTGTGGTTTATCCACAAA
85878655 CTAGAGTGTC
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
88 2 0.02
89 3 0.03
90 6 0.06
91 39 0.39
92 23 0.23
93 26 0.26
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (89 bp):
CTACAACACTTGTGGTTTATCCACAAATTATTGACAACATTTATCTGCAAACCCGTTGTACATTC
ACAACCTACTGACAACGTATGAAC
Found at i:85884390 original size:19 final size:19
Alignment explanation
Indices: 85884366--85884410 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
85884356 GCAAAAGCTA
85884366 AAAAATTACTTTTGAATTC
1 AAAAATTACTTTTGAATTC
* * *
85884385 AAAAA-TATTTTTGACTTT
1 AAAAATTACTTTTGAATTC
85884403 AAAAATTA
1 AAAAATTA
85884411 TGGTCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (19 bp):
AAAAATTACTTTTGAATTC
Found at i:85884612 original size:29 final size:29
Alignment explanation
Indices: 85884578--85884642 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
85884568 CTTTAAATTT
* *
85884578 CCGACCAGAACTACTATTAATCGAATTAA
1 CCGACCAGAACTACCATTAACCGAATTAA
*
85884607 CCGACCCGAACTACCATTAACCGAATTAA
1 CCGACCAGAACTACCATTAACCGAATTAA
85884636 CCGACCA
1 CCGACCA
85884643 TTTTAAACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.18
Consensus pattern (29 bp):
CCGACCAGAACTACCATTAACCGAATTAA
Found at i:85895676 original size:40 final size:40
Alignment explanation
Indices: 85895597--85895734 Score: 174
Period size: 39 Copynumber: 3.5 Consensus size: 40
85895587 GGATATAACG
* *
85895597 ACTCGCTCAAATGCCTTCGGGAC-AAACCC-GGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTT-TAGTA
*
85895636 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* * *
85895676 ACTCGCACAAATGCCTTCGGG-CTTAACCTGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* *
85895715 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
85895735 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 54 0.61
40 30 0.34
41 4 0.05
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
Found at i:85901295 original size:28 final size:27
Alignment explanation
Indices: 85901232--85901301 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
85901222 ATAGTGAGTC
85901232 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
85901259 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
85901287 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85901302 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:85903849 original size:20 final size:20
Alignment explanation
Indices: 85903824--85903866 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
85903814 CAACCTAATT
*
85903824 TTTTATTTTTCT-TTATTTTA
1 TTTTATTTTT-TATTACTTTA
85903844 TTTTATTTTTTATTACTTTA
1 TTTTATTTTTTATTACTTTA
85903864 TTT
1 TTT
85903867 GGATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTATTACTTTA
Found at i:85904351 original size:22 final size:22
Alignment explanation
Indices: 85904310--85904367 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
85904300 TATTAGCATA
* **
85904310 TTAGTGCTCTCCGTTGAGCACAT
1 TTAGTGCTCTCTGTAAAGCA-AT
*
85904333 TT-GTGCTCTCTGTAAAGCATT
1 TTAGTGCTCTCTGTAAAGCAAT
85904354 TTAGTGCTCTCTGT
1 TTAGTGCTCTCTGT
85904368 TTAATAGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 25 0.83
23 2 0.07
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (22 bp):
TTAGTGCTCTCTGTAAAGCAAT
Found at i:85905977 original size:11 final size:11
Alignment explanation
Indices: 85905961--85906004 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
85905951 AGATAAATAT
85905961 TATTTTATTAA
1 TATTTTATTAA
**
85905972 TATTTTAAAATA
1 TATTTTATTA-A
*
85905984 TATTTTATTAT
1 TATTTTATTAA
85905995 TATTTTATTA
1 TATTTTATTA
85906005 GTATATAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:85905980 original size:23 final size:23
Alignment explanation
Indices: 85905955--85906001 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
85905945 TTAATCAGAT
85905955 AAATATTATTTTATTAATATTTTA
1 AAATA-TATTTTATTAATATTTTA
*
85905979 AAATATATTTTATTATTATTTTA
1 AAATATATTTTATTAATATTTTA
85906002 TTAGTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AAATATATTTTATTAATATTTTA
Found at i:85907307 original size:24 final size:24
Alignment explanation
Indices: 85907275--85907345 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
85907265 CTGTCAGGAG
85907275 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
85907299 AGGATTTAGGAGTTGATAAGGAAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
85907323 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
85907346 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:85907357 original size:48 final size:48
Alignment explanation
Indices: 85907275--85907370 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
85907265 CTGTCAGGAG
** * *
85907275 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGAAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGAAT
85907323 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGGAA
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGGAA
85907371 CAAGAGGTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 3 0.07
48 32 0.78
49 6 0.15
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGAAT
Found at i:85908818 original size:27 final size:26
Alignment explanation
Indices: 85908760--85908872 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
85908750 AGGAAGCGTC
* *
85908760 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
85908788 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
85908815 CTGGTGGTTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
85908843 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
85908869 CTGG
1 CTGG
85908873 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.50
28 30 0.41
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:85908845 original size:55 final size:54
Alignment explanation
Indices: 85908760--85908872 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
85908750 AGGAAGCGTC
*
85908760 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
85908815 CTGGTGGTTTTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
85908869 CTGG
1 CTGG
85908873 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:85911669 original size:94 final size:95
Alignment explanation
Indices: 85911558--85911759 Score: 271
Period size: 94 Copynumber: 2.1 Consensus size: 95
85911548 GTTATGTGAG
* ** *
85911558 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGAGACGAGGGCCAGTGTAAGACATG
*
85911623 TCTGGGACATGCATCAGCCAC-ATTATGAT
66 TCTGGGACATGCATCAGCCACGATGATGAT
* * * * * * *
85911652 TGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGCAGAGATGAGTGCCAGTGTTAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGAGACGAGGGCCAGTGTAAGACATG
* *
85911717 TCTGGGACATGCATCGGCCTCGATGATGAT
66 TCTGGGACATGCATCAGCCACGATGATGAT
85911747 AGCCAGTGTAAGA
1 AGCCAGTGTAAGA
85911760 TGTGTCTAGG
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 73 0.79
95 19 0.21
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACAGAGACGAGGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCACGATGATGAT
Found at i:85911708 original size:48 final size:46
Alignment explanation
Indices: 85911554--85911759 Score: 186
Period size: 47 Copynumber: 4.4 Consensus size: 46
85911544 TTGGGTTATG
* * *
85911554 TGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATC-GACATTGA-GA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--GATGA
* * * * * *
85911602 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGA
* *
85911648 TGATTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGCAGA-GA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATGA
* *
85911696 TGAGTGCCAGTGTTAGACATGTCTGGGACATGCATCGGCCTCGATGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-AGATGA
85911743 TGA-TAGCCAGTGTAAGA
1 TGAGT-GCCAGTGTAAGA
85911760 TGTGTCTAGG
Statistics
Matches: 130, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.02
46 30 0.23
47 59 0.45
48 36 0.28
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGA
Found at i:85912800 original size:55 final size:54
Alignment explanation
Indices: 85912685--85912808 Score: 126
Period size: 55 Copynumber: 2.3 Consensus size: 54
85912675 CTTAAACTTT
* * * **
85912685 TAAA-TCAGTATTGTCCACGGTCAGGCCACATGGGCGTGTGCCATAGCCTTGTC
1 TAAAGTCAGTATTGCCCACGGTCAGGCCACACGGGCATGTGCCATAGCCTTCCC
* * *
85912738 TATAAGTCAGTATTGCCCACGGGT-AGGCCACACGGGCATGTGTCATGGCTGTTCCC
1 TA-AAGTCAGTATTGCCCAC-GGTCAGGCCACACGGGCATGTGCCATAGC-CTTCCC
*
85912794 TAAAGTCAGTGTTGC
1 TAAAGTCAGTATTGC
85912809 ACACAGGTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 46 0.79
56 8 0.14
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGTCAGGCCACACGGGCATGTGCCATAGCCTTCCC
Found at i:85917230 original size:20 final size:20
Alignment explanation
Indices: 85917205--85917245 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
85917195 GGCAAATGGA
85917205 AAGTTAGAAAAATGAATTAT
1 AAGTTAGAAAAATGAATTAT
85917225 AAGTTAGAAAAATGAATTAT
1 AAGTTAGAAAAATGAATTAT
85917245 A
1 A
85917246 TTCTTTCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (20 bp):
AAGTTAGAAAAATGAATTAT
Found at i:85917549 original size:71 final size:71
Alignment explanation
Indices: 85917411--85917548 Score: 201
Period size: 69 Copynumber: 2.0 Consensus size: 71
85917401 TATTAATTTT
* *
85917411 CATGTCTTTTATATTTTGACTGAATTAATTAATATAAATGTTTATATTAATAAATTAGGTAAAAT
1 CATGTCTTTTACATTTTGACCGAATTAATTAATATAAATGTTTATATTAATAAATTAGGTAAAAT
85917476 ATATTC
66 ATATTC
* *
85917482 CATGTCTTTTACATTTTGACCG-A--AATTAATATTAACTGTTTATATTAATAAATTCGGTAAAA
1 CATGTCTTTTACATTTTGACCGAATTAATTAATA-TAAATGTTTATATTAATAAATTAGGTAAAA
*
85917544 CATAT
65 TATAT
85917549 ACAATTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 8 0.13
69 32 0.52
70 1 0.02
71 20 0.33
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (71 bp):
CATGTCTTTTACATTTTGACCGAATTAATTAATATAAATGTTTATATTAATAAATTAGGTAAAAT
ATATTC
Found at i:85917651 original size:207 final size:211
Alignment explanation
Indices: 85917268--85917686 Score: 656
Period size: 207 Copynumber: 2.0 Consensus size: 211
85917258 GAATATTAAT
* * *
85917268 TTCCATGTCTTTTTATATTTTGATCGAAATTAATTAATATAACTTTTCATATTAATAAAGTCATT
1 TTCCATGTCTTTTTACATTTTGACCGAAATTAATTAATATAACTTTTCATATTAATAAAGTCAGT
* * *
85917333 AAAATATATACAATTAATATCTTGTATGAATCAAATTCATATATTAATTATATTTTTTTCCGAAA
66 AAAACATATACAATTAATATCTTGTATGAATCAAATTCATATATTAATTATATTTCTTTCCAAAA
85917398 GAATATTAATTTTCATGTCTTTTATATTTTGACTGAATTAATTAATATAAATGTTTATATTAATA
131 GAATATTAATTTTCATGTCTTTTATATTTTGACTGAATTAATTAATATAAATGTTTATATTAATA
*
85917463 AATT-AGGTAAAATATA
196 AATTCA-ATAAAATATA
* *
85917479 TTCCATGTC-TTTTACATTTTGACCGAAATTAA-T-AT-TAACTGTTT-ATATTAATAAATTCGG
1 TTCCATGTCTTTTTACATTTTGACCGAAATTAATTAATATAACT-TTTCATATTAATAAAGTCAG
85917539 TAAAACATATACAATTAATAT-TTCGTATGAATCAAATTCATATATTAATTATA-TTCTTTCCAA
65 TAAAACATATACAATTAATATCTT-GTATGAATCAAATTCATATATTAATTATATTTCTTTCCAA
*
85917602 AAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAATATAATTGTTTATATTA
129 AAGAATATTAATTTTCATGTCTTTTATATTTTGACTG-AATTAATTAATATAAATGTTTATATTA
85917667 ATAAATTCAATAAAATATA
193 ATAAATTCAATAAAATATA
85917686 T
1 T
85917687 ACAATTAATA
Statistics
Matches: 194, Mismatches: 10, Indels: 12
0.90 0.05 0.06
Matches are distributed among these distances:
206 47 0.24
207 110 0.57
208 6 0.03
209 1 0.01
210 21 0.11
211 9 0.05
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (211 bp):
TTCCATGTCTTTTTACATTTTGACCGAAATTAATTAATATAACTTTTCATATTAATAAAGTCAGT
AAAACATATACAATTAATATCTTGTATGAATCAAATTCATATATTAATTATATTTCTTTCCAAAA
GAATATTAATTTTCATGTCTTTTATATTTTGACTGAATTAATTAATATAAATGTTTATATTAATA
AATTCAATAAAATATA
Found at i:85917698 original size:138 final size:135
Alignment explanation
Indices: 85917482--85917730 Score: 381
Period size: 138 Copynumber: 1.8 Consensus size: 135
85917472 AAATATATTC
**
85917482 CATGTCTTTTACATTTTGACCGAAATTAATATTAACTGTTTATATTAATAAATTCGGTAAAACAT
1 CATGTCTTTTACATTTTGACCGAAATTAATATTAACTGTTTATATTAATAAATTCAATAAAACAT
* *
85917547 ATACAATTAATATTTCGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTA
66 ATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATATTCTTTCCAAAAGAATATTA
85917612 ATTTT
131 ATTTT
* * *
85917617 CATGTCTTTTATATTTTGACTGAAATTAATTAATATAATTGTTTATATTAATAAATTCAATAAAA
1 CATGTCTTTTACATTTTGACCGAAATTAA-T-AT-TAACTGTTTATATTAATAAATTCAATAAAA
* * *
85917682 TATATACAATTAATATTTTGTATAAATTAAATTCAGATATTAATTATAT
63 CATATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATAT
85917731 CTATGTTCTC
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
135 27 0.27
136 1 0.01
137 2 0.02
138 71 0.70
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (135 bp):
CATGTCTTTTACATTTTGACCGAAATTAATATTAACTGTTTATATTAATAAATTCAATAAAACAT
ATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATATTCTTTCCAAAAGAATATTA
ATTTT
Found at i:85918462 original size:27 final size:27
Alignment explanation
Indices: 85918424--85918480 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
85918414 TAATATTGTG
85918424 ACTATTACACAATAATCCAAGAAACAT
1 ACTATTACACAATAATCCAAGAAACAT
85918451 ACTATTACACAATAATCCAAGAAACAT
1 ACTATTACACAATAATCCAAGAAACAT
85918478 ACT
1 ACT
85918481 CATAGCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
ACTATTACACAATAATCCAAGAAACAT
Found at i:85921832 original size:44 final size:44
Alignment explanation
Indices: 85921773--85921856 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
85921763 ATGTATGAGA
* * *
85921773 CATCCGAGTTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAG
1 CATCCAAGCTCGTTGAGTTGGTCCGAGTTAATTATGGATGCGAG
* *
85921817 CATCCAAGCTCGTTGAGTTGGTTCGAGTTAATTTTGGATG
1 CATCCAAGCTCGTTGAGTTGGTCCGAGTTAATTATGGATG
85921857 TGATACATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.35
Consensus pattern (44 bp):
CATCCAAGCTCGTTGAGTTGGTCCGAGTTAATTATGGATGCGAG
Found at i:85944449 original size:18 final size:19
Alignment explanation
Indices: 85944426--85944464 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
85944416 TTTATCTCAA
*
85944426 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
85944444 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
85944463 TT
1 TT
85944465 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:85944492 original size:30 final size:30
Alignment explanation
Indices: 85944458--85944524 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
85944448 TTGTTCACAT
**
85944458 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
85944488 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
85944518 TCTTTTT
1 TCTTTTT
85944525 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:85944524 original size:18 final size:18
Alignment explanation
Indices: 85944482--85944533 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
85944472 AAACTCTTTT
*
85944482 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
85944500 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
85944518 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
85944534 AGGCTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:85944531 original size:12 final size:12
Alignment explanation
Indices: 85944500--85944524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85944490 TTTTTCAATC
85944500 TCATTTTCTTTT
1 TCATTTTCTTTT
85944512 TCATTTTCTTTT
1 TCATTTTCTTTT
85944524 T
1 T
85944525 GTTTTTCAAA
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:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Done.