Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 20
Found at i:743588 original size:17 final size:17
Alignment explanation
Indices: 743566--743608 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
743556 CTCCTTGCTC
743566 GGTTGTTGCACGTTTGT
1 GGTTGTTGCACGTTTGT
743583 GGTTGTTGCACGTTTGT
1 GGTTGTTGCACGTTTGT
743600 GGTTGTTGC
1 GGTTGTTGC
743609 TTTAAAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.12, G:0.37, T:0.47
Consensus pattern (17 bp):
GGTTGTTGCACGTTTGT
Found at i:744423 original size:36 final size:36
Alignment explanation
Indices: 744374--744505 Score: 176
Period size: 36 Copynumber: 3.6 Consensus size: 36
744364 GTTTTTTTTG
*
744374 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
744410 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
744447 AG-TTCAAGGGAAACTGTCTCAAGAGAGACAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA-AATT
* *
744483 TGTTTCAAGGGAAACTCTCTCAA
1 TGTTTCAAGAGAAACTGTCTCAA
744506 AACTCATTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
36 62 0.73
37 23 0.27
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:744621 original size:37 final size:36
Alignment explanation
Indices: 744570--744656 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 36
744560 TCAAGGTTTA
* * * *
744570 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTACCCCAAGCGAGACAAAATT
*
744606 TCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATT
1 T-GTTTCAAGGGAAACTACCCCAAGCGAGACAAAATT
*
744643 TATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
744657 TGTTTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
36 13 0.30
37 31 0.70
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTACCCCAAGCGAGACAAAATT
Found at i:744660 original size:87 final size:86
Alignment explanation
Indices: 744569--744754 Score: 230
Period size: 87 Copynumber: 2.1 Consensus size: 86
744559 TTCAAGGTTT
744569 ATGTTTCAA-GAGAAACTATCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCG
1 ATGTTTCAATG-GAAA-TATCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCG
*
744633 AGATAAAATTTATTTCAAGGGAA
64 AGATAAAATTCATTTCAAGGGAA
*** * * * ** * *
744656 ATGTTTTCAATGTTTATGTTTCAATGGAGACAAAATTTCGTTTCAAGGGAAACTGTCTCAATCGA
1 ATG-TTTCAATGGAAATATCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGA
744721 GATAAAATTCATTTCAAGGGAA
65 GATAAAATTCATTTCAAGGGAA
744743 ATGTTTTCAATG
1 ATG-TTTCAATG
744755 TTTATGTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 78 0.91
88 7 0.08
89 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (86 bp):
ATGTTTCAATGGAAATATCTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAG
ATAAAATTCATTTCAAGGGAA
Found at i:744753 original size:36 final size:37
Alignment explanation
Indices: 744672--744753 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
744662 TCAATGTTTA
* *
744672 TGTTTCAATGGAGACAAAATTTCGTTTCAAGGGAAAC
1 TGTTTCAATCGAGACAAAATTTCATTTCAAGGGAAAC
* *
744709 TGTCTCAATCGAGATAAAA-TTCATTTCAAGGGAAA-
1 TGTTTCAATCGAGACAAAATTTCATTTCAAGGGAAAC
744744 TGTTTTCAAT
1 TG-TTTCAAT
744754 GTTTATGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.05
36 21 0.54
37 16 0.41
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (37 bp):
TGTTTCAATCGAGACAAAATTTCATTTCAAGGGAAAC
Found at i:744755 original size:87 final size:87
Alignment explanation
Indices: 744589--744767 Score: 304
Period size: 87 Copynumber: 2.1 Consensus size: 87
744579 AGAAACTATC
*
744589 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
744654 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* ** * *
744676 TCAATGGAGACAAAATTTCGTTTCAAGGGAAACTGTCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
744741 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
744763 TCAAG
1 TCAAG
744768 AGAAACTGTC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTT
Found at i:745211 original size:106 final size:106
Alignment explanation
Indices: 745026--745346 Score: 464
Period size: 106 Copynumber: 3.0 Consensus size: 106
745016 TATTGTTTCG
* * * * ** * *
745026 AGTCCAATATCCTCCG-TCGTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGATAT
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
745090 CCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCA
65 CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCA
* *
745132 AGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
*
745197 CAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCG
66 CAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCA
*
745238 AGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
* *
745303 CAGTCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCTCA
66 CAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCA
745344 AGT
1 AGT
745347 GGCACGATAT
Statistics
Matches: 193, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
106 192 0.99
107 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
CAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCA
Found at i:745942 original size:32 final size:33
Alignment explanation
Indices: 745906--745995 Score: 121
Period size: 32 Copynumber: 2.8 Consensus size: 33
745896 ATTCCCAAAG
* * *
745906 ATGCCCCAATACTCGATGTTGAATCTAAAAA-A
1 ATGCCCCAACATTTGATGTTGAATCTAAAAACA
* *
745938 ATGCCCCAACATTTTATGTTAAATC-AAAAACA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAACA
745970 ATGCCCCAACATTTGATGTTGAATCT
1 ATGCCCCAACATTTGATGTTGAATCT
745996 TCAAAGATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 5 0.10
32 44 0.90
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (33 bp):
ATGCCCCAACATTTGATGTTGAATCTAAAAACA
Found at i:747017 original size:69 final size:69
Alignment explanation
Indices: 746940--747077 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
746930 TGTATCTCTC
* *
746940 TTGATGCTCCATGATCTTTGAGTGGAGTGATTCAATAATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAATAATTCAGAAATGATTGTGCTTGATCAATC
747005 TCAT
66 TCAT
* * * * *
747009 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAATAATTCAGAAATGATTGTGCTTGATCAATC
747074 TCAT
66 TCAT
747078 AGTTTGAATC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCCATGATCTTCGAGTGAAGTGATTCAATAATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:747176 original size:13 final size:13
Alignment explanation
Indices: 747150--747187 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
747140 TTTTCTTTAA
747150 TTTTC-CTTTGTTT
1 TTTTCTCTTT-TTT
747163 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
747176 TTTTCTCTTTTT
1 TTTTCTCTTTTT
747188 GCTTTGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:750377 original size:25 final size:22
Alignment explanation
Indices: 750342--750421 Score: 56
Period size: 25 Copynumber: 3.4 Consensus size: 22
750332 AAATAAATAT
750342 AAAAAA-AATAAAGAAAAAGAAGA
1 AAAAAATAATAAA-AAAAAGAA-A
750365 AAAAAATATATAAATAAAACA-AATA
1 AAAAAATA-ATAAA-AAAA-AGAA-A
*
750390 AATAAAATAATAATAAAAAAGTAA
1 AA-AAAATAATAA-AAAAAAGAAA
*
750414 AAATAATA
1 AAAAAATA
750422 TATATATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
23 11 0.23
24 5 0.11
25 23 0.49
26 8 0.17
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAAAATAATAAAAAAAAGAAA
Found at i:750383 original size:24 final size:23
Alignment explanation
Indices: 750356--750448 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 23
750346 AAAATAAAGA
750356 AAAAGAAGAAAAAAATATATAAAT
1 AAAA-AAGAAAAAAATATATAAAT
*
750380 AAAACAAATAAATAAAATA-AT-AAT
1 -AAA-AAAGAAA-AAAATATATAAAT
750404 AAAAAAGTAAAAATAATATATATATAT
1 AAAAAAG-AAAAA-AATATATA-A-AT
*
750431 ATAATAAATAAAAAAATA
1 A-AA-AAAGAAAAAAATA
750449 GTAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
22 5 0.09
23 10 0.18
24 5 0.09
25 10 0.18
26 8 0.15
27 7 0.13
28 7 0.13
29 3 0.05
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (23 bp):
AAAAAAGAAAAAAATATATAAAT
Found at i:750391 original size:47 final size:51
Alignment explanation
Indices: 750340--750446 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 51
750330 AAAAATAAAT
750340 ATAAAAAAAATAA-AGA-AAAAGAAG-AAAAA-AATATATA-A-ATAAAACAA
1 ATAAAAAAAATAATA-ATAAAA-AAGTAAAAATAATATATATATATAAAACAA
* * *
750387 ATAAATAAAATAATAATAAAAAAGTAAAAATAATATATATATATATAATAA
1 ATAAAAAAAATAATAATAAAAAAGTAAAAATAATATATATATATAAAACAA
750438 ATAAAAAAA
1 ATAAAAAAA
750447 TAGTAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
47 16 0.32
48 10 0.20
49 8 0.16
50 1 0.02
51 15 0.30
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.21
Consensus pattern (51 bp):
ATAAAAAAAATAATAATAAAAAAGTAAAAATAATATATATATATAAAACAA
Found at i:750394 original size:17 final size:16
Alignment explanation
Indices: 750330--750448 Score: 59
Period size: 17 Copynumber: 7.4 Consensus size: 16
750320 AAATAGTAAG
*
750330 AAAAATAAATATA-AA
1 AAAAATAAATAAATAA
*
750345 AAAAATAAAGAAA-AA
1 AAAAATAAATAAATAA
* *
750360 GAAGAAAAAAATATATAA
1 -AA-AAATAAATAAATAA
*
750378 ATAAAACAAATAAATAA
1 A-AAAATAAATAAATAA
*
750395 AATAAT-AATAAA-AA
1 AAAAATAAATAAATAA
** *
750409 AGTAA-AAATAATATAT
1 AAAAATAAATAA-ATAA
* *
750425 ATATATATAATAAATAA
1 AAAAATA-AATAAATAA
750442 AAAAATA
1 AAAAATA
750449 GTAAATATAT
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
14 11 0.14
15 20 0.26
16 8 0.10
17 31 0.40
18 8 0.10
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATAAATAAATAA
Found at i:750408 original size:38 final size:35
Alignment explanation
Indices: 750317--750448 Score: 93
Period size: 38 Copynumber: 3.5 Consensus size: 35
750307 GAAAGCAAAG
* *
750317 ATAAAATAGTAAGAAAAATAAATATAAAAAAAATAA
1 ATAAAATAATAA-AAAAATAAAAATAAAAAAAATAA
* * * *
750353 AGAAAAAGAAGAAAAAAATATATAAATAAAACAAATAA
1 A-TAAAATAATAAAAAAATA-A-AAATAAAAAAAATAA
* * * *
750391 ATAAAATAATAATAAAAAAGTAAAAATAATATATATAT
1 ATAAAATAAT-A-AAAAAA-TAAAAATAAAAAAAATAA
*
750429 ATATAATAAATAAAAAAATA
1 ATAAAAT-AATAAAAAAATA
750449 GTAAATATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
36 10 0.13
37 20 0.27
38 33 0.44
39 10 0.13
40 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (35 bp):
ATAAAATAATAAAAAAATAAAAATAAAAAAAATAA
Found at i:750424 original size:2 final size:2
Alignment explanation
Indices: 750419--750477 Score: 57
Period size: 2 Copynumber: 29.5 Consensus size: 2
750409 AGTAAAAATA
* * * * *
750419 AT AT AT AT AT AT AT A- AT AA AT AA AA AA AT AGT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
750461 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
750478 AATTAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 1 0.02
2 46 0.94
3 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (2 bp):
AT
Found at i:750435 original size:32 final size:30
Alignment explanation
Indices: 750386--750463 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
750376 AAATAAAACA
*
750386 AATAAATA-AAATAATAATAAAAAAGTAAAAAT
1 AATAAATATATAT-ATAATAAAAAA--AAAAAT
* *
750418 AATATATATATATATAATAAATAAAAAAAT
1 AATAAATATATATATAATAAAAAAAAAAAT
*
750448 AGTAAATATATATATA
1 AATAAATATATATATA
750464 TATATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 20 0.50
32 17 0.43
33 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (30 bp):
AATAAATATATATATAATAAAAAAAAAAAT
Found at i:750464 original size:32 final size:30
Alignment explanation
Indices: 750370--750465 Score: 101
Period size: 32 Copynumber: 3.2 Consensus size: 30
750360 GAAGAAAAAA
* *
750370 ATAT-ATAAATAAAACAAATAAATA-AAAT
1 ATATAATAAATAAAAAAAATAAATATATAT
750398 A-ATAATAAA-AAAGTAAAAATAATATATATAT
1 ATATAATAAATAAA--AAAAATAA-ATATATAT
750429 ATATAATAAATAAAAAAATAGTAAATATATAT
1 ATATAATAAATAAAAAAA-A-TAAATATATAT
750461 ATATA
1 ATATA
750466 TATATATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
27 5 0.09
28 6 0.11
29 7 0.12
30 3 0.05
31 8 0.14
32 22 0.39
33 6 0.11
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (30 bp):
ATATAATAAATAAAAAAAATAAATATATAT
Found at i:750589 original size:22 final size:21
Alignment explanation
Indices: 750535--750595 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
750525 CTAAAAAAAT
750535 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
750555 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
750578 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
750596 AAATAACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:751180 original size:21 final size:21
Alignment explanation
Indices: 751154--751211 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
751144 GTAAACATAA
751154 TGTATCGATACGTTTTTAAAT
1 TGTATCGATACGTTTTTAAAT
751175 TGTATCGATACGTTTTTAAAT
1 TGTATCGATACGTTTTTAAAT
* *
751196 TGTTTTGATAC-TTTTT
1 TGTATCGATACGTTTTT
751212 GTCCAGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (21 bp):
TGTATCGATACGTTTTTAAAT
Found at i:753620 original size:20 final size:20
Alignment explanation
Indices: 753595--753641 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
753585 AGCAAGATCT
753595 TGGCTCAGCGAAGTTCCTTC
1 TGGCTCAGCGAAGTTCCTTC
753615 TGGCTCAGCGAAGTTCCTTC
1 TGGCTCAGCGAAGTTCCTTC
*
753635 CGGCTCA
1 TGGCTCA
753642 ATGAAGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.32, G:0.26, T:0.28
Consensus pattern (20 bp):
TGGCTCAGCGAAGTTCCTTC
Found at i:753647 original size:20 final size:20
Alignment explanation
Indices: 753596--753648 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
753586 GCAAGATCTT
* *
753596 GGCTCAGCGAAGTTCCTTCT
1 GGCTCAACGAAGTTCCTTCC
*
753616 GGCTCAGCGAAGTTCCTTCC
1 GGCTCAACGAAGTTCCTTCC
*
753636 GGCTCAATGAAGT
1 GGCTCAACGAAGT
753649 CATGGGTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (20 bp):
GGCTCAACGAAGTTCCTTCC
Found at i:764597 original size:23 final size:23
Alignment explanation
Indices: 764567--764615 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
764557 TGGTGTTTGG
*
764567 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
764590 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
764613 TTT
1 TTT
764616 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:765121 original size:11 final size:11
Alignment explanation
Indices: 765105--765129 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
765095 TTCTTTTCAT
765105 TTTATTTACTG
1 TTTATTTACTG
765116 TTTATTTACTG
1 TTTATTTACTG
765127 TTT
1 TTT
765130 TTACCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTATTTACTG
Found at i:765507 original size:18 final size:18
Alignment explanation
Indices: 765486--765530 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
765476 TGCCAGAGCA
765486 TTTTATTTTGTTTTGCAT
1 TTTTATTTTGTTTTGCAT
765504 TTTTATTTTGTTTTGCAT
1 TTTTATTTTGTTTTGCAT
765522 TTTTATTTT
1 TTTTATTTT
765531 TGTATAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTATTTTGTTTTGCAT
Found at i:771489 original size:20 final size:20
Alignment explanation
Indices: 771460--771504 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
771450 TTAACTTTTT
*
771460 CTTTTTTATTTC-TTCCTTAA
1 CTTTTCTATTTCATT-CTTAA
*
771480 CTTTTCTATTTCATTTTTAA
1 CTTTTCTATTTCATTCTTAA
771500 CTTTT
1 CTTTT
771505 ACTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTTCTATTTCATTCTTAA
Found at i:774742 original size:23 final size:23
Alignment explanation
Indices: 774712--774760 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
774702 TGGTGTTTGG
*
774712 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
774735 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
774758 TTT
1 TTT
774761 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:775268 original size:11 final size:11
Alignment explanation
Indices: 775252--775276 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
775242 TTCTTTTCAT
775252 TTTATTTACTG
1 TTTATTTACTG
775263 TTTATTTACTG
1 TTTATTTACTG
775274 TTT
1 TTT
775277 TTACCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTATTTACTG
Found at i:778569 original size:3 final size:3
Alignment explanation
Indices: 778561--778597 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
778551 ATATTAACAT
778561 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
778598 GTATTAAAAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:778741 original size:171 final size:170
Alignment explanation
Indices: 778444--778791 Score: 624
Period size: 171 Copynumber: 2.0 Consensus size: 170
778434 ATTTTAGCAA
778444 ATCCTAAATTCAGTAAGTCGGGTCACTGAACCGGGTCACACTTGGGCTTGAACCAACATCTTGTA
1 ATCCTAAATTCAGTAAGTCGGGTCACTGAACCGGGTCACACTTGGGCTTGAACCAACATCTTGTA
778509 ATTGGGTTGATATTTGTAACAGGGTCTGGGCCTGTAAATATAATATTAACATTAATAATAATAAT
66 ATTGGGTTGATATTTGTAACAGGGTCTGGGCCTGTAAATATAATATTAACATT-ATAATAATAAT
778574 AATAATAATAATAATAATAATAATGTATTAAAAAACAGGAC
130 AATAATAATAATAATAATAATAATGTATTAAAAAACAGGAC
778615 ATCCTAAATTCAGTAAGTCGGGTCACTGAACCGGGTCACACTTGGGCTTGAACCAACATCTTGTA
1 ATCCTAAATTCAGTAAGTCGGGTCACTGAACCGGGTCACACTTGGGCTTGAACCAACATCTTGTA
778680 ATTGGGTTGATATTTGTAACAGGGTCTTGGGCCTGTAAAATATAATATGTAACATTAATAATAAT
66 ATTGGGTTGATATTTGTAACAGGGTC-TGGGCCTGT-AAATATAATAT-TAACA-T--T-ATAAT
778745 AATAATAATAATAATAATAATAATAATAATGTATTAAAAAACAGGAC
124 AATAATAATAATAATAATAATAATAATAATGTATTAAAAAACAGGAC
778792 GAAAAGTTAG
Statistics
Matches: 171, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
171 91 0.53
172 9 0.05
173 11 0.06
174 5 0.03
175 1 0.01
177 54 0.32
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (170 bp):
ATCCTAAATTCAGTAAGTCGGGTCACTGAACCGGGTCACACTTGGGCTTGAACCAACATCTTGTA
ATTGGGTTGATATTTGTAACAGGGTCTGGGCCTGTAAATATAATATTAACATTATAATAATAATA
ATAATAATAATAATAATAATAATGTATTAAAAAACAGGAC
Found at i:778743 original size:3 final size:3
Alignment explanation
Indices: 778735--778774 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
778725 TATGTAACAT
778735 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
778775 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:779298 original size:111 final size:111
Alignment explanation
Indices: 778985--779436 Score: 631
Period size: 111 Copynumber: 4.1 Consensus size: 111
778975 TTCAGGGAAT
* * * * *
778985 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTATGGAATATCAAATCTTGAAAGACATGGATC
1 ATTGAATCAGGGTAGACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* * * *
779050 TGTTCCGC-TGCTTCTGAGGGAATATTAGATCTAGGAAAGTTGATGC
66 TGTTCCGCTTCCTT-TGAGGGAATATCAGATCTGGGAAAGTTGATTC
* *
779096 ATTGAATCAGGGCAGACTTGTTCCATTGTCACTCA-GGAATATCAAATCTTGAAAGAGAGGGATT
1 ATTGAATCAGGGTAGACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* * *
779160 TTTTCCTCTTCCTATGAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCGCTTCCTTTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * * *
779206 ATTGAATCAGTGTAGACTTGTTTCGTTGTCGCTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAGGGTAGACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* *
779271 TGTTTCGCTTCCTTTGAGGGAATATCAGATTTGGGAAAGTTGATTC
66 TGTTCCGCTTCCTTTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * * *
779317 ATTGAATCAAGGTAGACTTGTTCTGA-TGTCATTCAGAGAATATCAAATCTTGAAAGAGAGGGAT
1 ATTGAATCAGGGTAGACTTGTTC-CATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* *
779381 CTGTTCCGCTTCCTCTGAGGGAATATCAGATCTGAGAAAGTTGATTC
65 CTGTTCCGCTTCCTTTGAGGGAATATCAGATCTGGGAAAGTTGATTC
779428 ATTGAATCA
1 ATTGAATCA
779437 AGGTCGAAAC
Statistics
Matches: 302, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
110 91 0.30
111 211 0.70
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (111 bp):
ATTGAATCAGGGTAGACTTGTTCCATTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
TGTTCCGCTTCCTTTGAGGGAATATCAGATCTGGGAAAGTTGATTC
Found at i:780630 original size:21 final size:21
Alignment explanation
Indices: 780604--780660 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
780594 TACTTTTACT
780604 ATTTTTTATTT-ATTTCTTCTC
1 ATTTTTTATTTCATTT-TTCTC
780625 ATTTTTTATTTCATTTTTCT-
1 ATTTTTTATTTCATTTTTCTC
*
780645 -TTTCTT-TTTCATTTTT
1 ATTTTTTATTTCATTTTT
780661 TTAGTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
21 15 0.44
22 4 0.12
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTTTATTTCATTTTTCTC
Found at i:780647 original size:17 final size:15
Alignment explanation
Indices: 780626--780679 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
780616 TTTCTTCTCA
*
780626 TTTTTTATTTCATTTT
1 TTTTTTTTTTCA-TTT
780642 TCTTTTCTTTTTCATTT
1 T-TTTT-TTTTTCATTT
780659 TTTTAGTTTTTTCATTT
1 TTTT--TTTTTTCATTT
780676 TTTT
1 TTTT
780680 CAGGCAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
16 4 0.12
17 22 0.67
18 7 0.21
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTCATTT
Found at i:787543 original size:21 final size:21
Alignment explanation
Indices: 787514--787556 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
787504 GTTCTTCAGA
*
787514 TGTAATACCAATAGTTGGAGC
1 TGTAATACCAATAGTTGAAGC
*
787535 TGTACTACCAATAGTTGAAGC
1 TGTAATACCAATAGTTGAAGC
787556 T
1 T
787557 TTTCCACGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTAATACCAATAGTTGAAGC
Found at i:794083 original size:3 final size:3
Alignment explanation
Indices: 794075--794108 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
794065 TATGTACCAT
794075 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
794109 GTATTAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:794350 original size:15 final size:15
Alignment explanation
Indices: 794330--794387 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
794320 AATGACAACC
794330 TTCTTCTCAACCAAG
1 TTCTTCTCAACCAAG
* *
794345 TTCTTCTCAATAACAACC
1 TTCTTCTC-A-ACCAA-G
794363 TTCTTCTCAACCAAG
1 TTCTTCTCAACCAAG
794378 TTCTTCTCAA
1 TTCTTCTCAA
794388 TGACAACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 18 0.50
16 5 0.14
17 5 0.14
18 8 0.22
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (15 bp):
TTCTTCTCAACCAAG
Found at i:794366 original size:33 final size:33
Alignment explanation
Indices: 794324--794405 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
794314 CTTTTAAATG
794324 ACAACCTTCTTCTCAACCAAGTTCTTCTCAATA
1 ACAACCTTCTTCTCAACCAAGTTCTTCTCAATA
*
794357 ACAACCTTCTTCTCAACCAAGTTCTTCTCAATG
1 ACAACCTTCTTCTCAACCAAGTTCTTCTCAATA
794390 ACAACCTTCTTCTCAA
1 ACAACCTTCTTCTCAA
794406 TGACAACCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.33
Consensus pattern (33 bp):
ACAACCTTCTTCTCAACCAAGTTCTTCTCAATA
Found at i:794399 original size:18 final size:18
Alignment explanation
Indices: 794320--794417 Score: 109
Period size: 18 Copynumber: 5.8 Consensus size: 18
794310 AGGTCTTTTA
794320 AATGACAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
* *
794338 AA--CCAA-GTTCTTCTC
1 AATGACAACCTTCTTCTC
*
794353 AATAACAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
* *
794371 AA--CCAA-GTTCTTCTC
1 AATGACAACCTTCTTCTC
794386 AATGACAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
794404 AATGACAACCTTCT
1 AATGACAACCTTCT
794418 CAATCAATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
15 20 0.30
16 6 0.09
17 6 0.09
18 34 0.52
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.33
Consensus pattern (18 bp):
AATGACAACCTTCTTCTC
Found at i:794431 original size:15 final size:16
Alignment explanation
Indices: 794346--794432 Score: 58
Period size: 18 Copynumber: 5.4 Consensus size: 16
794336 TCAACCAAGT
*
794346 TCTTCTCAATAACAACC
1 TCTTCTCAAT-ACAATC
*
794363 TTCTTCTCAA-CCAAGT-
1 -TCTTCTCAATACAA-TC
*
794379 TCTTCTCAATGACAACC
1 TCTTCTCAAT-ACAATC
794396 TTCTTCTCAATGACAA-C
1 -TCTTCTCAAT-ACAATC
794413 -CTTCTCAAT-CAATC
1 TCTTCTCAATACAATC
794427 TCTTCT
1 TCTTCT
794433 TTTGACCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
13 3 0.05
14 1 0.02
15 23 0.40
16 3 0.05
17 4 0.07
18 24 0.41
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
TCTTCTCAATACAATC
Found at i:796669 original size:34 final size:34
Alignment explanation
Indices: 796626--796693 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
796616 TCCCATGTGA
796626 GTACTTTATTCCCATGTGACAAGTGTGACAACCC
1 GTACTTTATTCCCATGTGACAAGTGTGACAACCC
796660 GTACTTTATTCCCATGTGACAAGTGTGACAACCC
1 GTACTTTATTCCCATGTGACAAGTGTGACAACCC
796694 CATCAACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (34 bp):
GTACTTTATTCCCATGTGACAAGTGTGACAACCC
Found at i:796867 original size:24 final size:24
Alignment explanation
Indices: 796829--796884 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
796819 TTTCATGTTC
* *
796829 ATTTCATTTTTAATTGGAGTTTAA
1 ATTTCAATTTCAATTGGAGTTTAA
* *
796853 ATTTCAATTTCAATTTGAGTTTGA
1 ATTTCAATTTCAATTGGAGTTTAA
796877 ATTTCAAT
1 ATTTCAAT
796885 ATAAATTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (24 bp):
ATTTCAATTTCAATTGGAGTTTAA
Found at i:796891 original size:24 final size:24
Alignment explanation
Indices: 796840--796892 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
796830 TTTCATTTTT
* * *
796840 AATTGGAGTTTAAATTTCAATTTC
1 AATTTGAGTTTAAATTTCAATATA
*
796864 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTAAATTTCAATATA
796888 AATTT
1 AATTT
796893 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTCAATATA
Found at i:800184 original size:15 final size:15
Alignment explanation
Indices: 800163--800216 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
800153 AAATGAAAAC
800163 CTTCTTCTCAACCAA
1 CTTCTTCTCAACCAA
* *
800178 GTTCTTCTCAATGACAA
1 CTTCTTCTCAA--CCAA
800195 CCTTCTTCTCAACCAA
1 -CTTCTTCTCAACCAA
*
800211 TTTCTT
1 CTTCTT
800217 TTTCTCAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 15 0.48
16 3 0.10
17 3 0.10
18 10 0.32
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (15 bp):
CTTCTTCTCAACCAA
Found at i:800200 original size:18 final size:18
Alignment explanation
Indices: 800154--800242 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
800144 AGGTCTTTTA
*
800154 AATGAAAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
* *
800172 AA--CCAA-GTTCTTCTC
1 AATGACAACCTTCTTCTC
800187 AATGACAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
* * *
800205 AA--CCAATTTCTTTTTCTC
1 AATGACAA--CCTTCTTCTC
800223 AATGACAACCTTCTTCTC
1 AATGACAACCTTCTTCTC
800241 AA
1 AA
800243 CCAATCTCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
15 10 0.19
16 5 0.09
17 3 0.06
18 32 0.60
20 3 0.06
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.36
Consensus pattern (18 bp):
AATGACAACCTTCTTCTC
Found at i:800222 original size:36 final size:35
Alignment explanation
Indices: 800154--800257 Score: 149
Period size: 36 Copynumber: 3.0 Consensus size: 35
800144 AGGTCTTTTA
* *
800154 AATGAAAACCTTCTTCTCAACCAAGTTC--TTCTC
1 AATGACAACCTTCTTCTCAACCAATTTCTTTTCTC
800187 AATGACAACCTTCTTCTCAACCAATTTCTTTTTCTC
1 AATGACAACCTTCTTCTCAACCAATTTC-TTTTCTC
*
800223 AATGACAACCTTCTTCTCAACCAATCTCTTCTTCT
1 AATGACAACCTTCTTCTCAACCAATTTCTT-TTCT
800258 GACCAAATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
33 26 0.41
35 2 0.03
36 36 0.56
ACGTcount: A:0.27, C:0.32, G:0.04, T:0.38
Consensus pattern (35 bp):
AATGACAACCTTCTTCTCAACCAATTTCTTTTCTC
Found at i:800253 original size:18 final size:18
Alignment explanation
Indices: 800196--800257 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
800186 CAATGACAAC
*
800196 CTTCTTCTCAACCAATTT
1 CTTCTTCTCAACCAATCT
* *
800214 CTTTTTCTCAATGACAA-C-
1 CTTCTTCTCAA--CCAATCT
800232 CTTCTTCTCAACCAATCT
1 CTTCTTCTCAACCAATCT
800250 CTTCTTCT
1 CTTCTTCT
800258 GACCAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 28 0.80
20 3 0.09
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.44
Consensus pattern (18 bp):
CTTCTTCTCAACCAATCT
Found at i:802830 original size:24 final size:24
Alignment explanation
Indices: 802792--802847 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
802782 TTTCATGTTC
* *
802792 ATTTCATTTTTAATTGGAGTTTAA
1 ATTTCAATTTCAATTGGAGTTTAA
* *
802816 ATTTCAATTTCAATTTGAGTTTGA
1 ATTTCAATTTCAATTGGAGTTTAA
802840 ATTTCAAT
1 ATTTCAAT
802848 ATAAATTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (24 bp):
ATTTCAATTTCAATTGGAGTTTAA
Found at i:802854 original size:24 final size:24
Alignment explanation
Indices: 802803--802855 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
802793 TTTCATTTTT
* * *
802803 AATTGGAGTTTAAATTTCAATTTC
1 AATTTGAGTTTAAATTTCAATATA
*
802827 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTAAATTTCAATATA
802851 AATTT
1 AATTT
802856 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTCAATATA
Found at i:805333 original size:118 final size:117
Alignment explanation
Indices: 805116--805373 Score: 320
Period size: 118 Copynumber: 2.2 Consensus size: 117
805106 ATGACAAATT
** * *
805116 CAGTAATTAACCTACTT-TGTTATCGTCGAATTTTCAAAGCCACATCAGCTTAAAAAGGCGCTAC
1 CAGTAATTAA-CTGGTTATGTTATCGTCGAATTTCCAAAGCCACATCAGCTTAAAAAGGCACTAC
** * *
805180 CTATTACGTTATATAAGTGCTACCTAATATGTTATTATGCTTGATAATGTTTC
65 CTATTACGTTATATAAACGCTACCTAATATATTATTATACTTGATAATGTTTC
* ** * * *
805233 CAGTAATTAACTGGTTATGTTATCGTCGGATTTCCAAAGCTTCGTCAGCTTTAACAAGGCACTAT
1 CAGTAATTAACTGGTTATGTTATCGTCGAATTTCCAAAGCCACATCAGC-TTAAAAAGGCACTAC
* *
805298 CTATTACGTTATATAAACGCTACTTAATATATTATTGTACTTGATAATGTTTC
65 CTATTACGTTATATAAACGCTACCTAATATATTATTATACTTGATAATGTTTC
* * *
805351 TAATAATTAACCGGTTATGTTAT
1 CAGTAATTAACTGGTTATGTTAT
805374 AATCTATATA
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
116 4 0.03
117 37 0.31
118 79 0.66
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (117 bp):
CAGTAATTAACTGGTTATGTTATCGTCGAATTTCCAAAGCCACATCAGCTTAAAAAGGCACTACC
TATTACGTTATATAAACGCTACCTAATATATTATTATACTTGATAATGTTTC
Found at i:808844 original size:12 final size:12
Alignment explanation
Indices: 808822--808867 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
808812 CTTGCCCTCT
*
808822 AGTATCGATACC
1 AGTATCAATACC
*
808834 AATATCAATACC
1 AGTATCAATACC
* *
808846 AGTATTATTACC
1 AGTATCAATACC
808858 AGTATCAATA
1 AGTATCAATA
808868 TTGTCCAACA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (12 bp):
AGTATCAATACC
Found at i:812345 original size:39 final size:39
Alignment explanation
Indices: 812297--812384 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 39
812287 TGGATCAAAT
812297 TGGAAAATTTTGAAATTATAAGGACCTATTCAAAATTTA
1 TGGAAAATTTTGAAATTATAAGGACCTATTCAAAATTTA
*
812336 TGGAAAATTTTGAAATTATAAGGACCTATTCAAATTTTA
1 TGGAAAATTTTGAAATTATAAGGACCTATTCAAAATTTA
*
812375 GGGAAAATTT
1 TGGAAAATTT
812385 AGAGATTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (39 bp):
TGGAAAATTTTGAAATTATAAGGACCTATTCAAAATTTA
Found at i:812370 original size:19 final size:19
Alignment explanation
Indices: 812309--812371 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
812299 GAAAATTTTG
812309 AAATTATAAGGACCTATTC
1 AAATTATAAGGACCTATTC
* ** * *
812328 AAAATT-TATGGAAAATTTTG
1 -AAATTATAAGG-ACCTATTC
812348 AAATTATAAGGACCTATTC
1 AAATTATAAGGACCTATTC
812367 AAATT
1 AAATT
812372 TTAGGGAAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 5
0.67 0.22 0.11
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (19 bp):
AAATTATAAGGACCTATTC
Found at i:813359 original size:47 final size:47
Alignment explanation
Indices: 813305--813562 Score: 184
Period size: 47 Copynumber: 5.6 Consensus size: 47
813295 ATGTGCGATA
* **
813305 TGTTACTGGCAGTTTATATTGCATATTGGACACTAAATATTTCATAC
1 TGTTACTGGCAGTTTATATTGCATACTGGACACTAAATATGCCATAC
* * * * *
813352 TGTTACTGGTAGTTTATACTGCATACTGGGCACTGAATATGCCATAT
1 TGTTACTGGCAGTTTATATTGCATACTGGACACTAAATATGCCATAC
* * ** *
813399 TGTTACTGGCAGTTTATATTGCATACTGGACAATGAACGTGCCATAA
1 TGTTACTGGCAGTTTATATTGCATACTGGACACTAAATATGCCATAC
* * * * * * * ** * *
813446 TGTTATTGGTAGTTCATACTACATATTGGGCACTAAACGTGTCGTA-
1 TGTTACTGGCAGTTTATATTGCATACTGGACACTAAATATGCCATAC
** * *
813492 TCGTTACTGGCAG-TTATGCTGTATACATGG-CACT-AATGTGCCATAC
1 T-GTTACTGGCAGTTTATATTGCATAC-TGGACACTAAATATGCCATAC
* * *
813538 AGTTACAGGCAG-TTATACTGCATAC
1 TGTTACTGGCAGTTTATATTGCATAC
813563 CGCACTGAAC
Statistics
Matches: 168, Mismatches: 40, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
45 29 0.17
46 13 0.08
47 126 0.75
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (47 bp):
TGTTACTGGCAGTTTATATTGCATACTGGACACTAAATATGCCATAC
Found at i:813476 original size:94 final size:94
Alignment explanation
Indices: 813305--813506 Score: 242
Period size: 94 Copynumber: 2.1 Consensus size: 94
813295 ATGTGCGATA
* * * ** * *
813305 TGTTACTGGCAGTTTATATTGCATATTGGACACTAAATATTTCATACTGTTACTGGTAGTTTATA
1 TGTTACTGGCAGTTTATATTGCATACTGGACAATAAACATGCCATAATGTTACTGGTAGTTCATA
* * *
813370 CTGCATACTGGGCACTGAATATGCCATAT
66 CTACATACTGGGCACTAAACATGCCATAT
* * *
813399 TGTTACTGGCAGTTTATATTGCATACTGGACAATGAACGTGCCATAATGTTATTGGTAGTTCATA
1 TGTTACTGGCAGTTTATATTGCATACTGGACAATAAACATGCCATAATGTTACTGGTAGTTCATA
* * * *
813464 CTACATATTGGGCACTAAACGTGTCGTAT
66 CTACATACTGGGCACTAAACATGCCATAT
*
813493 CGTTACTGGCAGTT
1 TGTTACTGGCAGTT
813507 ATGCTGTATA
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (94 bp):
TGTTACTGGCAGTTTATATTGCATACTGGACAATAAACATGCCATAATGTTACTGGTAGTTCATA
CTACATACTGGGCACTAAACATGCCATAT
Found at i:813691 original size:17 final size:17
Alignment explanation
Indices: 813660--813733 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
813650 AAGTAATAAA
813660 ACAATAAAA-ATTACAGT
1 ACAATAAAAGA-TACAGT
* *
813677 ATAATAAAAGATACAAT
1 ACAATAAAAGATACAGT
* * *
813694 ACAGTAATAGATATAGT
1 ACAATAAAAGATACAGT
* *
813711 ACAGTAAAAGATACAAT
1 ACAATAAAAGATACAGT
813728 ACAATA
1 ACAATA
813734 CATTCAATGA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 44 0.98
18 1 0.02
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (17 bp):
ACAATAAAAGATACAGT
Found at i:813840 original size:17 final size:17
Alignment explanation
Indices: 813757--813840 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 17
813747 GAAATAGTAT
* *
813757 AATACAATATATGAAAC
1 AATACAATAAAAGAAAC
*
813774 AACACAATAAAAGAATA-
1 AATACAATAAAAGAA-AC
* *
813791 AATACAATGAAAGAGAC
1 AATACAATAAAAGAAAC
* * **
813808 AGTACAGTAAGGGAAAC
1 AATACAATAAAAGAAAC
*
813825 AATACAGTAAAAGAAA
1 AATACAATAAAAGAAA
813841 AGGTAGAGGA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
16 1 0.02
17 48 0.96
18 1 0.02
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (17 bp):
AATACAATAAAAGAAAC
Found at i:814353 original size:20 final size:20
Alignment explanation
Indices: 814328--814366 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
814318 TTGATTATAA
814328 AAGTTAAATTTGGAATTTTT
1 AAGTTAAATTTGGAATTTTT
814348 AAGTTAAATTTGGAATTTT
1 AAGTTAAATTTGGAATTTT
814367 AAAAGAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
AAGTTAAATTTGGAATTTTT
Found at i:817548 original size:6 final size:6
Alignment explanation
Indices: 817537--817609 Score: 110
Period size: 6 Copynumber: 12.2 Consensus size: 6
817527 GACACGTATT
* * *
817537 ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
817585 ACCTCG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
817610 GCCGAGCCGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.29, C:0.49, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:817617 original size:5 final size:5
Alignment explanation
Indices: 817607--817655 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
817597 ACCACGACCA
* * * *
817607 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
817656 ACGGACGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.16, C:0.37, G:0.41, T:0.06
Consensus pattern (5 bp):
CGAGC
Found at i:823505 original size:6 final size:6
Alignment explanation
Indices: 823494--823554 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
823484 GACACGTATT
* * *
823494 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
823542 ACCACG ACCACG A
1 ACCACG ACCACG A
823555 GCCGAGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.30, C:0.49, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:823562 original size:5 final size:5
Alignment explanation
Indices: 823552--823591 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
823542 ACCACGACCA
* * *
823552 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGAGC
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
823592 TGAGACGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.12, C:0.40, G:0.40, T:0.07
Consensus pattern (5 bp):
CGAGC
Found at i:825549 original size:21 final size:21
Alignment explanation
Indices: 825523--825596 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
825513 ATCGTTCAGG
825523 ACATATATGTGATCCTTTGGA
1 ACATATATGTGATCCTTTGGA
* * * *
825544 AAATATATGCGATCCTTCGGG
1 ACATATATGTGATCCTTTGGA
* * *
825565 ACATATATTTGGTCATTTGGA
1 ACATATATGTGATCCTTTGGA
*
825586 ACATATTTGTG
1 ACATATATGTG
825597 GTCTTTAGGG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (21 bp):
ACATATATGTGATCCTTTGGA
Found at i:825568 original size:42 final size:42
Alignment explanation
Indices: 825512--825591 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
825502 GGTTCTATAT
* *
825512 GATCGTTCAGGACATATATGTGATCCTTTGGAAAATATATGC
1 GATCCTTCAGGACATATATGTGATCATTTGGAAAATATATGC
* * * *
825554 GATCCTTCGGGACATATATTTGGTCATTTGGAACATAT
1 GATCCTTCAGGACATATATGTGATCATTTGGAAAATAT
825592 TTGTGGTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (42 bp):
GATCCTTCAGGACATATATGTGATCATTTGGAAAATATATGC
Found at i:825608 original size:42 final size:42
Alignment explanation
Indices: 825521--825609 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
825511 TGATCGTTCA
* *
825521 GGACATATATGTGATCCTTTGGAAAATATATGCGATCCTTCG
1 GGACATATATGTGATCATTTGGAAAATATATGCGATCCTTAG
* * * * * * *
825563 GGACATATATTTGGTCATTTGGAACATATTTGTGGTCTTTAG
1 GGACATATATGTGATCATTTGGAAAATATATGCGATCCTTAG
825605 GGACA
1 GGACA
825610 ATTTTATGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (42 bp):
GGACATATATGTGATCATTTGGAAAATATATGCGATCCTTAG
Found at i:825640 original size:21 final size:21
Alignment explanation
Indices: 825614--825672 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
825604 GGGACAATTT
* * *
825614 TATGTGCTCTTTCGGGATATC
1 TATGTGGTCCTTCGGGATATA
*
825635 TATGTGGTCCTTCGAGATATA
1 TATGTGGTCCTTCGGGATATA
825656 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
825673 CAATTCTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGATATA
Found at i:828159 original size:35 final size:35
Alignment explanation
Indices: 828104--828176 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
828094 ATGCATAGAT
*
828104 GATTCCTCCATCTCTTTGTAAAGTGAAAATTTGAG
1 GATTCCTCCATCTCTTTGTAAAGTAAAAATTTGAG
* * *
828139 GATTGCTCTATCTCTTTGTAAAGTAAAAATTTTAG
1 GATTCCTCCATCTCTTTGTAAAGTAAAAATTTGAG
828174 GAT
1 GAT
828177 GAATTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (35 bp):
GATTCCTCCATCTCTTTGTAAAGTAAAAATTTGAG
Found at i:828925 original size:150 final size:150
Alignment explanation
Indices: 828654--828954 Score: 548
Period size: 150 Copynumber: 2.0 Consensus size: 150
828644 TTTAGGAGTT
*
828654 TTGTTGATAAATTTGACTTCTAATAAATACGAATAAGAAGTCTAAAACAATAGAAATGAGTTTAG
1 TTGTTGATAAATTTGACTTCTAATAAATACGAATAAAAAGTCTAAAACAATAGAAATGAGTTTAG
*
828719 AACATATTGAAAGTTTAGTAAAATTTTTAATTTCAAGAGTTATGGTGAAATATTGAAGATGATGA
66 AACATATTGAAAGTTTAGTAAAATATTTAATTTCAAGAGTTATGGTGAAATATTGAAGATGATGA
*
828784 AGTGTTATAGTGATAAAAGA
131 AGTGTTATAATGATAAAAGA
* *
828804 TTGTTGATAAATTTGACTTCTCATAAATAGGAATAAAAAGTCTAAAACAATAGAAATGAGTTTAG
1 TTGTTGATAAATTTGACTTCTAATAAATACGAATAAAAAGTCTAAAACAATAGAAATGAGTTTAG
828869 AACATATTGAAAGTTTAGTAAAATATTTAATTTCAAGAGTTATGGTGAAATATTGAAGATGATGA
66 AACATATTGAAAGTTTAGTAAAATATTTAATTTCAAGAGTTATGGTGAAATATTGAAGATGATGA
*
828934 TGTGTTATAATGATAAAAGA
131 AGTGTTATAATGATAAAAGA
828954 T
1 T
828955 GGTTTAAGTA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 145 1.00
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.34
Consensus pattern (150 bp):
TTGTTGATAAATTTGACTTCTAATAAATACGAATAAAAAGTCTAAAACAATAGAAATGAGTTTAG
AACATATTGAAAGTTTAGTAAAATATTTAATTTCAAGAGTTATGGTGAAATATTGAAGATGATGA
AGTGTTATAATGATAAAAGA
Found at i:830118 original size:23 final size:23
Alignment explanation
Indices: 830091--830176 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
830081 TTGGAATATA
*
830091 TATGTGGTCTTTAGGGACAATTC
1 TATGTGGTCTTTCGGGACAATTC
830114 TATGTGGTCTTTCGGGAC-A-TC
1 TATGTGGTCTTTCGGGACAATTC
*
830135 TATGTGGTCATTCGGGACAATTC
1 TATGTGGTCTTTCGGGACAATTC
* * *
830158 TACGCGGTCCTTCGGGACA
1 TATGTGGTCTTTCGGGACA
830177 TTTTATATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.34
22 2 0.04
23 35 0.62
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.34
Consensus pattern (23 bp):
TATGTGGTCTTTCGGGACAATTC
Found at i:830138 original size:21 final size:21
Alignment explanation
Indices: 830047--830177 Score: 102
Period size: 21 Copynumber: 6.0 Consensus size: 21
830037 AGTCGAGGGT
* *
830047 TCTATGTGATCCTTCGGGACA
1 TCTATGTGGTCTTTCGGGACA
* * * *
830068 TATATTTGGTCCTTT-GGAATA
1 TCTATGTGGT-CTTTCGGGACA
* *
830089 TATATGTGGTCTTTAGGGACAA
1 TCTATGTGGTCTTTCGGGAC-A
830111 TTCTATGTGGTCTTTCGGGACA
1 -TCTATGTGGTCTTTCGGGACA
*
830133 TCTATGTGGTCATTCGGGACAA
1 TCTATGTGGTCTTTCGGGAC-A
* * *
830155 TTCTACGCGGTCCTTCGGGACA
1 -TCTATGTGGTCTTTCGGGACA
830177 T
1 T
830178 TTTATATGGC
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.04
21 43 0.48
22 7 0.08
23 35 0.39
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
TCTATGTGGTCTTTCGGGACA
Found at i:830139 original size:44 final size:44
Alignment explanation
Indices: 830091--830177 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
830081 TTGGAATATA
* * * *
830091 TATGTGGTCTTTAGGGACAATTCTATGTGGTCTTTCGGGACATC
1 TATGTGGTCATTAGGGACAATTCTACGCGGTCCTTCGGGACATC
*
830135 TATGTGGTCATTCGGGACAATTCTACGCGGTCCTTCGGGACAT
1 TATGTGGTCATTAGGGACAATTCTACGCGGTCCTTCGGGACAT
830178 TTTATATGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (44 bp):
TATGTGGTCATTAGGGACAATTCTACGCGGTCCTTCGGGACATC
Found at i:832360 original size:42 final size:42
Alignment explanation
Indices: 832308--832526 Score: 379
Period size: 42 Copynumber: 5.3 Consensus size: 42
832298 TATATTCACA
*
832308 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
832350 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
832392 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
832434 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
832476 TTGCGATAGTCCAAGTT--CGTTGCAATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
832516 TTGCGATAGTC
1 TTGCGATAGTC
832527 TAAAATCGCA
Statistics
Matches: 169, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 33 0.20
42 136 0.80
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:832515 original size:21 final size:21
Alignment explanation
Indices: 832317--832522 Score: 194
Period size: 21 Copynumber: 9.8 Consensus size: 21
832307 ATTGCGATAG
832317 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
*
832340 TCCAAGTTCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATTTAT
*
832359 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
* *
832382 TCCAAATTCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATTTAT
832401 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
*
832424 TCCAAGTTCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATTTAT
*
832443 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
* *
832466 TCCAAATTCGTTGCGA--TAG
1 TCCAAGTTCGTTGCGATTTAT
*
832485 TCCAAGTTCGTTGCAATTTAT
1 TCCAAGTTCGTTGCGATTTAT
*
832506 TCCAAATTCGTTGCGAT
1 TCCAAGTTCGTTGCGAT
832523 AGTCTAAAAT
Statistics
Matches: 150, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
19 43 0.29
21 73 0.49
23 34 0.23
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (21 bp):
TCCAAGTTCGTTGCGATTTAT
Found at i:833163 original size:6 final size:6
Alignment explanation
Indices: 833147--833184 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
833137 TCTCGTCTCG
*
833147 GGTCG- GGTCGT GGTCGT GGTCGT GGTCAT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
833185 AATACGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.03, C:0.16, G:0.50, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:833336 original size:42 final size:42
Alignment explanation
Indices: 833277--833373 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
833267 TGCGATTTTG
833277 GACTATCGCAACT-AATTTGGAATAAATCACAATGCAAACTTC
1 GACTATCGCAA-TGAATTTGGAATAAATCACAATGCAAACTTC
* * *
833319 GACTATCGCAATGAATTTGGAATAAATCGCAATGCGAACTTG
1 GACTATCGCAATGAATTTGGAATAAATCACAATGCAAACTTC
*
833361 GACTATCGTAATG
1 GACTATCGCAATG
833374 CGAATATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (42 bp):
GACTATCGCAATGAATTTGGAATAAATCACAATGCAAACTTC
Found at i:833347 original size:21 final size:21
Alignment explanation
Indices: 833281--833352 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
833271 ATTTTGGACT
833281 ATCGCAACT-AATTTGGAATAA
1 ATCGCAA-TGAATTTGGAATAA
* * * *
833302 ATCACAATGCAAACTTCGACT--
1 ATCGCAATG--AATTTGGAATAA
833323 ATCGCAATGAATTTGGAATAA
1 ATCGCAATGAATTTGGAATAA
833344 ATCGCAATG
1 ATCGCAATG
833353 CGAACTTGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
19 7 0.18
20 1 0.03
21 23 0.61
23 7 0.18
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (21 bp):
ATCGCAATGAATTTGGAATAA
Found at i:833368 original size:21 final size:21
Alignment explanation
Indices: 833306--833377 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
833296 GAATAAATCA
* *
833306 CAATGCAAACTTCGACTATCG
1 CAATGCGAACTTGGACTATCG
* *
833327 CAAT--GAATTTGGAATAAATCG
1 CAATGCGAACTTGGACT--ATCG
833348 CAATGCGAACTTGGACTATCG
1 CAATGCGAACTTGGACTATCG
*
833369 TAATGCGAA
1 CAATGCGAA
833378 TATGTAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
19 7 0.17
21 24 0.60
23 9 0.22
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (21 bp):
CAATGCGAACTTGGACTATCG
Found at i:833460 original size:21 final size:21
Alignment explanation
Indices: 833436--833483 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
833426 TTTGGAATAA
* *
833436 ATCGCAACGCGAACTTTGACT
1 ATCGCAACGCAAACTTGGACT
*
833457 ATCGCAATGCAAACTTGGACT
1 ATCGCAACGCAAACTTGGACT
833478 ATCGCA
1 ATCGCA
833484 TTGCGATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCAAACTTGGACT
Found at i:833524 original size:21 final size:21
Alignment explanation
Indices: 833498--833614 Score: 171
Period size: 21 Copynumber: 5.6 Consensus size: 21
833488 GATTTACATA
*
833498 TTCGCATTGCGATAGTCCAAT
1 TTCGCATTGCGATAGTCCAAG
833519 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
833540 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
833561 TTCGCATTACGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
833582 TTCGCATTACGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
* *
833603 TTCACGTTGCGA
1 TTCGCATTGCGA
833615 ATCTGGAAAC
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 88 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:836398 original size:23 final size:22
Alignment explanation
Indices: 836363--836407 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
836353 TTGTATGCCT
836363 AAATAAATAAATAAAT-AAAATA
1 AAATAAATAAAT-AATGAAAATA
*
836385 AAATAAAATGAATAATGAAAATA
1 AAAT-AAATAAATAATGAAAATA
836408 GAAGATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAATAAATAATGAAAATA
Found at i:840163 original size:21 final size:21
Alignment explanation
Indices: 840137--840180 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
840127 AGATGAACTA
840137 TGGCTTTGCAA-AAATGTTCCT
1 TGGCTTTGCAACAAAT-TTCCT
*
840158 TGGCTTTGTAACAAATTTCCT
1 TGGCTTTGCAACAAATTTCCT
840179 TG
1 TG
840181 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (21 bp):
TGGCTTTGCAACAAATTTCCT
Found at i:841763 original size:21 final size:21
Alignment explanation
Indices: 841723--841766 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
841713 AGATGAACTA
*
841723 TGGCTTTGTAAAAGTGTTCCT
1 TGGCTTTGTAAAAATGTTCCT
841744 TGGCTTTGTAACAAAT-TTCCT
1 TGGCTTTGTAA-AAATGTTCCT
841765 TG
1 TG
841767 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (21 bp):
TGGCTTTGTAAAAATGTTCCT
Found at i:848020 original size:35 final size:35
Alignment explanation
Indices: 847960--848029 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
847950 AATCTTCATG
* *
847960 GGGTATCGATACTAAAGTGATAGTATCGTTACCAT
1 GGGTATCGATACCAAAGTGATAGTATCGGTACCAT
847995 GGGTATCGATACCAATA-TAGA-AGTATCGGTACCAT
1 GGGTATCGATACCAA-AGT-GATAGTATCGGTACCAT
848030 TCTTGCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (35 bp):
GGGTATCGATACCAAAGTGATAGTATCGGTACCAT
Found at i:848802 original size:21 final size:21
Alignment explanation
Indices: 848771--848931 Score: 112
Period size: 21 Copynumber: 7.6 Consensus size: 21
848761 TCGAGGGTTC
*
848771 TATGTTGTCCTTTGGGAAATA
1 TATGTGGTCCTTTGGGAAATA
* *
848792 TATGTGATCCTTTGGAAAATA
1 TATGTGGTCCTTTGGGAAATA
** ** *
848813 TATACGGTCCTTCAGGACATA
1 TATGTGGTCCTTTGGGAAATA
*
848834 TATTTGGTCCTTT-GGAACATA
1 TATGTGGTCCTTTGGGAA-ATA
*
848855 TATGTGGT-CTTTAGGGATAATTC
1 TATGTGGTCCTTT-GGGA-AA-TA
* *
848878 TATGTGGT-CTTTCGGGACATC
1 TATGTGGTCCTTT-GGGAAATA
** *
848899 TATGTGGTCCTTCAGGACATA
1 TATGTGGTCCTTTGGGAAATA
*
848920 TATGCGGTCCTT
1 TATGTGGTCCTT
848932 CAGGACATTT
Statistics
Matches: 112, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.06
21 79 0.71
22 8 0.07
23 18 0.16
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (21 bp):
TATGTGGTCCTTTGGGAAATA
Found at i:848882 original size:23 final size:21
Alignment explanation
Indices: 848855--848907 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
848845 TTGGAACATA
848855 TATGTGGTCTTTAGGGATAATTC
1 TATGTGGTCTTTAGGGA-AA-TC
* *
848878 TATGTGGTCTTTCGGGACATC
1 TATGTGGTCTTTAGGGAAATC
848899 TATGTGGTC
1 TATGTGGTC
848908 CTTCAGGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.39
22 1 0.04
23 16 0.57
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (21 bp):
TATGTGGTCTTTAGGGAAATC
Found at i:848932 original size:21 final size:21
Alignment explanation
Indices: 848818--848939 Score: 113
Period size: 21 Copynumber: 5.7 Consensus size: 21
848808 AAATATATAC
*
848818 GGTCCTTCAGGACATATATTT
1 GGTCCTTCAGGACATATATGT
*
848839 GGTCCTT-TGGAACATATATGT
1 GGTCCTTCAGG-ACATATATGT
* * *
848860 GGT-CTTTAGGGATAATTCTATGT
1 GGTCCTTCA-GGA-CA-TATATGT
* * *
848883 GGTCTTTCGGGACATCTATGT
1 GGTCCTTCAGGACATATATGT
*
848904 GGTCCTTCAGGACATATATGC
1 GGTCCTTCAGGACATATATGT
848925 GGTCCTTCAGGACAT
1 GGTCCTTCAGGACAT
848940 TTTATATGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.06
21 59 0.72
22 4 0.05
23 12 0.15
24 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (21 bp):
GGTCCTTCAGGACATATATGT
Found at i:851201 original size:54 final size:54
Alignment explanation
Indices: 851065--851510 Score: 604
Period size: 54 Copynumber: 8.2 Consensus size: 54
851055 AATTGCGTGG
* ** * *
851065 GGTTGCAAACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCGTGA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTC-TTA
* * *
851120 GGTTGCACACATATTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
** * *
851174 GGTTGCACACATAGTGCCAATATGGAAATTCATAAACTTCTTATGAACTTCTTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
* * * * *
851228 AGTTGTACACACAATGCCAATACAAAAATTCATAAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
* * *
851282 GGCTGCACACATAATGCCAATACAGAAATTCATAAACTTATTATGAACTTCTTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
* * * *
851336 AGTTGCACACATAGTGCTAATACGGAAATTCATAAACTTATTATGAATTTATTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
* * *
851390 GGTTGCACACATAGTGCCAATACAAAAATTAATAAACTTATTATGAACTTCTTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
* * * *
851444 AGTTGCACACACAGTGCCAAAACAGAAATTCATCAACTTATTATGAATTTCTTA
1 GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
851498 GGTTGCACACATA
1 GGTTGCACACATA
851511 ATACCCATTC
Statistics
Matches: 342, Mismatches: 49, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
54 296 0.87
55 46 0.13
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
GGTTGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTA
Found at i:864331 original size:21 final size:21
Alignment explanation
Indices: 864281--864343 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
864271 ATTCCCCTGT
864281 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
864304 AGGGGGAATCGGTTCCCTCAG
1 GGGGGGAATCGGTTCCCTCAA
*
864325 GGGGGGAATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
864344 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 20 0.56
22 3 0.08
23 13 0.36
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:878419 original size:108 final size:107
Alignment explanation
Indices: 878270--878611 Score: 447
Period size: 109 Copynumber: 3.1 Consensus size: 107
878260 TTTAATGGTT
* * * * ***
878270 TTGCGCACGTAGTGCCAATATAATAATTCACAAACTCATTATGAA-TTACGTGGGGTTGCACACA
1 TTGCACACATAGTGCCAATATAA-AATTCATAAACTTATTATGAACTTAC-TTAAGTTGCACACA
* * *
878334 TAGTGCTAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
64 CAGTGCCAATAC-AAAATTCATAAACTTATTATGAATTTCTTAGG
878379 TTGCACACATAGTGCCAATATAAAATTCATAAACTTATTATGAACTTA-TTAAGTTGCACACACA
1 TTGCACACATAGTGCCAATATAAAATTCATAAACTTATTATGAACTTACTTAAGTTG--CACACA
878443 CAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGG
64 CAGTGCCAATACA-AAATTCATAAACTTATTATGAATTTCTTAGG
* * * *
878488 TTCCATACTTAGTGCCAATACGAAAATTCATAAACTTATTATGAACTT-CTTAAGTTGCACACAC
1 TTGCACACATAGTGCCAATA-TAAAATTCATAAACTTATTATGAACTTACTTAAGTTGCACACAC
*
878552 AGTGCCAATACAAAAATTCACAAACTTATTATGAATTTCTTAGG
65 AGTGCCAATAC-AAAATTCATAAACTTATTATGAATTTCTTAGG
*
878596 TTGTACACATAGTGCC
1 TTGCACACATAGTGCC
878612 CATTTGGTAA
Statistics
Matches: 207, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
107 5 0.02
108 80 0.39
109 88 0.43
110 34 0.16
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (107 bp):
TTGCACACATAGTGCCAATATAAAATTCATAAACTTATTATGAACTTACTTAAGTTGCACACACA
GTGCCAATACAAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:878521 original size:54 final size:54
Alignment explanation
Indices: 878270--878611 Score: 402
Period size: 54 Copynumber: 6.3 Consensus size: 54
878260 TTTAATGGTT
* * * * * * **
878270 TTGCGCACGTAGTGCCAATA-TAATAATTCACAAACTCATTATGAATTACGTGGGG
1 TTGCACACATAGTGCCAATACGAA-AATTCATAAACTTATTATGAATTTC-TTAGG
* *
878325 TTGCACACATAGTGCTAATACGAAAATTCATAAACTCATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
* * * *
878379 TTGCACACATAGTGCCAATA-TAAAATTCATAAACTTATTATGAACTTATTAAG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
878432 TTGCACACACACAGTGCCAATAC-AGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTG--CACACATAGTGCCAATACGA-AAATTCATAAACTTATTATGAATTTCTTAGG
* * * * *
878488 TTCCATACTTAGTGCCAATACGAAAATTCATAAACTTATTATGAACTTCTTAAG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
* * *
878542 TTGCACACACAGTGCCAATACAAAAATTCACAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
878596 TTGTACACATAGTGCC
1 TTGCACACATAGTGCC
878612 CATTTGGTAA
Statistics
Matches: 247, Mismatches: 34, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
53 31 0.13
54 126 0.51
55 58 0.23
56 32 0.13
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:878558 original size:163 final size:165
Alignment explanation
Indices: 878280--878604 Score: 440
Period size: 163 Copynumber: 2.0 Consensus size: 165
878270 TTGCGCACGT
* * * *
878280 AGTGCCAATATAATAATTCACAAACTCATTATGAATTACGTGGGGTTGCACACATAGTGCTAATA
1 AGTGCCAATACAATAATTCACAAACTCATTATGAATTACGTGAGGTTCCACACATAGTGCCAATA
* * * * *
878345 CGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATAGTGCCAATA-TAAAATTCAT
66 CGAAAATTCATAAACTCATTATGAACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCAC
878409 AAACTTATTATGAACTTATTAAGTTGCACACACAC
131 AAACTTATTATGAACTTATTAAGTTGCACACACAC
* * * * * *
878444 AGTGCCAATACAGA-AATTCATAAACTTATTATGAATTTC-TTAGGTTCCATACTTAGTGCCAAT
1 AGTGCCAATACA-ATAATTCACAAACTCATTATGAATTACGTGAGGTTCCACACATAGTGCCAAT
*
878507 ACGAAAATTCATAAACTTATTATGAACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCA
65 ACGAAAATTCATAAACTCATTATGAACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCA
* * * *
878572 CAAACTTATTATGAATTTCTTAGGTTGTACACA
130 CAAACTTATTATGAACTTATTAAGTTGCACACA
878605 TAGTGCCCAT
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
163 69 0.50
164 69 0.50
165 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (165 bp):
AGTGCCAATACAATAATTCACAAACTCATTATGAATTACGTGAGGTTCCACACATAGTGCCAATA
CGAAAATTCATAAACTCATTATGAACTTCTTAAGTTGCACACACAGTGCCAATACAAAAATTCAC
AAACTTATTATGAACTTATTAAGTTGCACACACAC
Found at i:880829 original size:44 final size:45
Alignment explanation
Indices: 880763--880853 Score: 175
Period size: 44 Copynumber: 2.0 Consensus size: 45
880753 TGTACCACAC
880763 TTCCATATTTTTTTTTAATTTTAGATAAATGTAATATAATATTTG
1 TTCCATATTTTTTTTTAATTTTAGATAAATGTAATATAATATTTG
880808 TTCCATA-TTTTTTTTAATTTTAGATAAATGTAATATAATATTTG
1 TTCCATATTTTTTTTTAATTTTAGATAAATGTAATATAATATTTG
880852 TT
1 TT
880854 TAAATATTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 39 0.85
45 7 0.15
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (45 bp):
TTCCATATTTTTTTTTAATTTTAGATAAATGTAATATAATATTTG
Found at i:880864 original size:44 final size:44
Alignment explanation
Indices: 880771--880864 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
880761 ACTTCCATAT
**
880771 TTTTTTTTAATTTTAGATAAATGTAATATAATATTTGTTCCATA
1 TTTTTTTTAATTTTAGATAAATGTAATATAATATTTGTTAAATA
880815 TTTTTTTTAATTTTAGATAAATGTAATATAATATTTGTTTAAATA
1 TTTTTTTTAATTTTAGATAAATGTAATATAATATTTG-TTAAATA
880860 TTTTT
1 TTTTT
880865 AATCATTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 37 0.79
45 10 0.21
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (44 bp):
TTTTTTTTAATTTTAGATAAATGTAATATAATATTTGTTAAATA
Found at i:886274 original size:2 final size:2
Alignment explanation
Indices: 886267--886314 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
886257 AATTATGAAC
886267 AT AT AT 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 AT AT AT
886309 AT AT AT
1 AT AT AT
886315 GTTCATCGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:888975 original size:2 final size:2
Alignment explanation
Indices: 888970--889003 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
888960 TGAAATGCTC
*
888970 AT AT AT AT AT AT AT AA 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
889004 GTCTTTTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:891798 original size:22 final size:20
Alignment explanation
Indices: 891773--891817 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
891763 TATGAAAATC
891773 ATTAATTAAGATTCTAACACAA
1 ATTAA-TAA-ATTCTAACACAA
* *
891795 ATTAATAAATTCTTATACAA
1 ATTAATAAATTCTAACACAA
891815 ATT
1 ATT
891818 TTAACACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 3 0.14
22 5 0.24
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTAATAAATTCTAACACAA
Found at i:892387 original size:23 final size:23
Alignment explanation
Indices: 892338--892389 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
892328 GTTAACCGAC
*
892338 TGAAAAAATGCCAAAAGACAGAA
1 TGAAAATATGCCAAAAGACAGAA
*
892361 -GAAAATATGCCATAAAGGCA-AA
1 TGAAAATATGCCA-AAAGACAGAA
892383 TGAAAAT
1 TGAAAAT
892390 TTGTCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.58, C:0.12, G:0.17, T:0.13
Consensus pattern (23 bp):
TGAAAATATGCCAAAAGACAGAA
Found at i:893767 original size:19 final size:20
Alignment explanation
Indices: 893736--893774 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
893726 GAGGGAAAAC
893736 AAATAATAGTAAAA-AATAA
1 AAATAATAGTAAAACAATAA
893755 AAATATATA-TAAAACAATAA
1 AAATA-ATAGTAAAACAATAA
893775 TAAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATAATAGTAAAACAATAA
Found at i:893777 original size:11 final size:11
Alignment explanation
Indices: 893731--893806 Score: 66
Period size: 11 Copynumber: 6.8 Consensus size: 11
893721 CAAAAGAGGG
893731 AAAACAAATAAT
1 AAAA-AAATAAT
**
893743 AGTAAAA-AAT
1 AAAAAAATAAT
*
893753 AAAAATATATAT
1 AAAAAAATA-AT
*
893765 AAAACAATAAT
1 AAAAAAATAAT
*
893776 AAAAAAAGAA-
1 AAAAAAATAAT
893786 AAAAAAGATAAT
1 AAAAAA-ATAAT
893798 AAAAAAATA
1 AAAAAAATA
893807 TATATACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
10 13 0.26
11 20 0.40
12 17 0.34
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:893825 original size:45 final size:46
Alignment explanation
Indices: 893750--893852 Score: 106
Period size: 48 Copynumber: 2.2 Consensus size: 46
893740 AATAGTAAAA
*
893750 AATAAAAATATATATAAAACAATAATAAAAA-AAGAAAAAAA-AGAT
1 AATAAAAAAATATATAAAACAATAATAAAAATAAGAAAAAAATA-AT
* *
893795 AATAAAAAAATATAT-ATAC-ATAAATGAAAAATTTTAGAAAAAAATAAT
1 AATAAAAAAATATATAAAACAAT-AAT-AAAAA--TAAGAAAAAAATAAT
893843 AATAAAAAAA
1 AATAAAAAAA
893853 CAAAAACAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
43 2 0.04
44 6 0.12
45 19 0.39
48 21 0.43
49 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (46 bp):
AATAAAAAAATATATAAAACAATAATAAAAATAAGAAAAAAATAAT
Found at i:893881 original size:2 final size:2
Alignment explanation
Indices: 893876--893910 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
893866 AAGGAAAAAA
893876 AT AT AT AT 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 AT AT AT AT A
893911 AATGTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:893988 original size:3 final size:3
Alignment explanation
Indices: 893980--894007 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
893970 ATATATATGT
893980 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
894008 AGGACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:895029 original size:23 final size:24
Alignment explanation
Indices: 894975--895031 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
894965 TAAATAAATA
*
894975 ATATAATAATATAATATATGTATT
1 ATATAATAATATAATATATGTACT
*
894999 ATA-AATAATAATCAAAATATGTACT
1 ATATAATAAT-AT-AATATATGTACT
895024 ATATAATA
1 ATATAATA
895032 TGTTTATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.21
24 5 0.18
25 13 0.46
26 4 0.14
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
ATATAATAATATAATATATGTACT
Found at i:896866 original size:19 final size:21
Alignment explanation
Indices: 896825--896867 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
896815 TTTTCTTTTC
*
896825 TTTTTCTTGTTCTTTTTTTAA
1 TTTTTCTTGTTCTTTTTTCAA
896846 TTTTTCTT-TT-TTTTTTCAA
1 TTTTTCTTGTTCTTTTTTCAA
896865 TTT
1 TTT
896868 AGGGCGCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTCTTGTTCTTTTTTCAA
Found at i:896919 original size:17 final size:17
Alignment explanation
Indices: 896899--896938 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
896889 GCCCTAAACA
896899 TTTTT-TTATCTTTTTTC
1 TTTTTCTTATC-TTTTTC
*
896916 TTTTTCTTTTCTTTTTC
1 TTTTTCTTATCTTTTTC
896933 TTTTTC
1 TTTTTC
896939 GACTTAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTTATCTTTTTC
Found at i:896925 original size:5 final size:6
Alignment explanation
Indices: 896910--896938 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
896900 TTTTTTATCT
896910 TTTTTC TTTTTC -TTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
896939 GACTTAGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:896925 original size:11 final size:11
Alignment explanation
Indices: 896911--896936 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
896901 TTTTTATCTT
896911 TTTTCTTTTTC
1 TTTTCTTTTTC
896922 TTTTCTTTTTC
1 TTTTCTTTTTC
896933 TTTT
1 TTTT
896937 TCGACTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:902831 original size:24 final size:20
Alignment explanation
Indices: 902804--902861 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
902794 GCATGGGTAG
902804 TGCATCGATACACATGTTAAAGAA
1 TGCATCGATACAC-TG-T--AGAA
*
902828 TGCATCGATGCACTGTAGAA
1 TGCATCGATACACTGTAGAA
*
902848 TGCATCGATGCACT
1 TGCATCGATACACT
902862 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 18 0.55
22 1 0.03
23 2 0.06
24 12 0.36
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TGCATCGATACACTGTAGAA
Found at i:902849 original size:20 final size:20
Alignment explanation
Indices: 902824--902861 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
902814 CACATGTTAA
902824 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
902844 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
902862 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:904418 original size:23 final size:23
Alignment explanation
Indices: 904388--904496 Score: 155
Period size: 23 Copynumber: 4.7 Consensus size: 23
904378 ACATTTTATA
904388 TGGCACTTCGGTGCAATCCTACG
1 TGGCACTTCGGTGCAATCCTACG
*
904411 TGGCACTTTGGTGCAATCCTACG
1 TGGCACTTCGGTGCAATCCTACG
904434 TGGCACTTCGGTGCAATCCTACG
1 TGGCACTTCGGTGCAATCCTACG
* * * *
904457 TGGCACTACGGTGCATTTCTATG
1 TGGCACTTCGGTGCAATCCTACG
* *
904480 CGGCACTTCGATGCAAT
1 TGGCACTTCGGTGCAAT
904497 TATACGAGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATCCTACG
Found at i:909866 original size:34 final size:33
Alignment explanation
Indices: 909823--909893 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
909813 TTTTTTAAAG
*
909823 GGGAAAGGTTCTAGCTTAGACCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGACCGTG-AAAAACTA
* **
909857 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGACCGTGAAAAACTA
909890 GGGA
1 GGGA
909894 GTTGTAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAGACCGTGAAAAACTA
Found at i:911411 original size:17 final size:19
Alignment explanation
Indices: 911389--911430 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
911379 AAACTCAAAA
911389 TTGAAAG-TA-AATTGATT
1 TTGAAAGCTAGAATTGATT
*
911406 TTGAAAGCTAGAGTTGATT
1 TTGAAAGCTAGAATTGATT
911425 TTGAAA
1 TTGAAA
911431 ATCAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGAAAGCTAGAATTGATT
Found at i:912613 original size:21 final size:18
Alignment explanation
Indices: 912570--912626 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
912560 CAACAATTGG
*
912570 TAACAATTGGTATCTTTT
1 TAACAATTGATATCTTTT
912588 TAACAATTGATATCCTTTTGT
1 TAACAATTGATAT-C-TTT-T
912609 TAACAATTGATAT-TTTT
1 TAACAATTGATATCTTTT
912626 T
1 T
912627 CATTAAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 1 0.03
20 3 0.09
21 14 0.40
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (18 bp):
TAACAATTGATATCTTTT
Found at i:912632 original size:21 final size:21
Alignment explanation
Indices: 912570--912621 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
912560 CAACAATTGG
*
912570 TAACAATTGGTAT-C-TTT-T
1 TAACAATTGATATCCTTTTAT
*
912588 TAACAATTGATATCCTTTTGT
1 TAACAATTGATATCCTTTTAT
912609 TAACAATTGATAT
1 TAACAATTGATAT
912622 TTTTTCATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
20 3 0.10
21 14 0.47
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (21 bp):
TAACAATTGATATCCTTTTAT
Found at i:919614 original size:10 final size:10
Alignment explanation
Indices: 919599--919625 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
919589 GTATATGGAA
919599 GCATCCAAAT
1 GCATCCAAAT
919609 GCATCCAAAT
1 GCATCCAAAT
919619 GCATCCA
1 GCATCCA
919626 TTGTGCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.11, T:0.19
Consensus pattern (10 bp):
GCATCCAAAT
Found at i:921470 original size:241 final size:244
Alignment explanation
Indices: 921025--921510 Score: 933
Period size: 243 Copynumber: 2.0 Consensus size: 244
921015 ATTCAACTGT
921025 GTTTTAGGCGAATTTGGGCTTGCTACCATGGTGTCACCATTATTGTTGTTATACACATTCTTTAT
1 GTTTTAGGCGAATTTGGGCTTGCTACCATGGTGTCACCATTATTGTTGTTATACACATTCTTTAT
921090 CTTCAGAATAATGAGGAAGAGAATTTTGGATCCCCTGGAGTGCCTTTATTTTTTTAAAGTTTATT
66 CTTCAGAATAATGAGGAAGAGAATTTTGGATCCCCTGGAGTGCCTTTATTTTTTTAAAGTTTATT
921155 TATGTATGAAAATAATAATAATTAGAAGAAGAACAACTCGGTGATAAATTTGGTTCTTGAAATGG
131 TATGTATGAAAATAATAATAATTAGAAGAAGAACAACTCGGTGATAAATTTGGTTCTTGAAATGG
*
921220 TTTATCACTAATTTCTTCATTTCAGG-TTAATTTTTTCTCTCTCCGTAA
196 TTTATCACTAATTTCTTCATTTCAGGTTTAATTGTTTCTCTCTCCGTAA
921268 GTTTTAGGCGAATTTGGGCTTGCTACCATGGTGTCACCATTATTGTTGTTATACACATTCTTTAT
1 GTTTTAGGCGAATTTGGGCTTGCTACCATGGTGTCACCATTATTGTTGTTATACACATTCTTTAT
921333 CTTCAGAATAATGAGGAAGAGAA-TTTGGATCCCCTGGAGTGCCTTTA-TTTTTTAAAGTTTATT
66 CTTCAGAATAATGAGGAAGAGAATTTTGGATCCCCTGGAGTGCCTTTATTTTTTTAAAGTTTATT
921396 TATGTATGAAAATAATAATAATTAGAAGAAGAACAACTCGGTGATAAATTTGGTTCTTGAAATGG
131 TATGTATGAAAATAATAATAATTAGAAGAAGAACAACTCGGTGATAAATTTGGTTCTTGAAATGG
921461 TTTATCACTAATTTCTTCATTTCAGGTTTTAATTGTTTCTCTCTCCGTAA
196 TTTATCACTAATTTCTTCATTTCAGG-TTTAATTGTTTCTCTCTCCGTAA
921511 TTGTTGGCTT
Statistics
Matches: 240, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
241 107 0.45
242 24 0.10
243 109 0.45
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (244 bp):
GTTTTAGGCGAATTTGGGCTTGCTACCATGGTGTCACCATTATTGTTGTTATACACATTCTTTAT
CTTCAGAATAATGAGGAAGAGAATTTTGGATCCCCTGGAGTGCCTTTATTTTTTTAAAGTTTATT
TATGTATGAAAATAATAATAATTAGAAGAAGAACAACTCGGTGATAAATTTGGTTCTTGAAATGG
TTTATCACTAATTTCTTCATTTCAGGTTTAATTGTTTCTCTCTCCGTAA
Found at i:922824 original size:75 final size:75
Alignment explanation
Indices: 922723--922872 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
922713 AATATTATAA
922723 GTTAATACCTGGAGATTTAGTCTTCCTTTGTCTAATAGCCATTTGTAAAACCAAAAAAGCCTTGG
1 GTTAATACCTGGAGATTTAGTCTTCCTTTGTCTAATAGCCATTTGTAAAACCAAAAAAGCCTTGG
922788 GCATTTCAAT
66 GCATTTCAAT
922798 GTTAATACCTGGAGATTTAGTCTTCCTTTGTCTAATAGCCATTTGTAAAACCAAAAAAGCCTTGG
1 GTTAATACCTGGAGATTTAGTCTTCCTTTGTCTAATAGCCATTTGTAAAACCAAAAAAGCCTTGG
922863 GCATTTCAAT
66 GCATTTCAAT
922873 AGATCTCTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (75 bp):
GTTAATACCTGGAGATTTAGTCTTCCTTTGTCTAATAGCCATTTGTAAAACCAAAAAAGCCTTGG
GCATTTCAAT
Found at i:924786 original size:13 final size:13
Alignment explanation
Indices: 924768--924792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
924758 ACATATTTTC
924768 TTGTAGTTTTGTA
1 TTGTAGTTTTGTA
924781 TTGTAGTTTTGT
1 TTGTAGTTTTGT
924793 GTTCCAAGAT
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:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (13 bp):
TTGTAGTTTTGTA
Found at i:925154 original size:17 final size:17
Alignment explanation
Indices: 925134--925183 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 17
925124 ATATTCAAAA
925134 AATATAAATAAAAATTT
1 AATATAAATAAAAATTT
925151 AATAT---TAAAAA---
1 AATATAAATAAAAATTT
925162 AATATAAATAAAAATTT
1 AATATAAATAAAAATTT
925179 AATAT
1 AATAT
925184 TCAACAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
11 5 0.19
14 12 0.44
17 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATATAAATAAAAATTT
Found at i:925156 original size:28 final size:28
Alignment explanation
Indices: 925123--925187 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
925113 AATAAAGTCC
925123 AATATTCAAAAAATATAAATAAAAATTT
1 AATATTCAAAAAATATAAATAAAAATTT
*
925151 AATATTAAAAAAATATAAATAAAAATTT
1 AATATTCAAAAAATATAAATAAAAATTT
925179 AATATTCAA
1 AATATTCAA
925188 CAAGTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (28 bp):
AATATTCAAAAAATATAAATAAAAATTT
Done.