Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 359 of 427
Found at i:104318628 original size:39 final size:39
Alignment explanation
Indices: 104318521--104318655 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
104318511 GACCTCGAGT
* * * *
104318521 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
104318562 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
*
104318600 CGATGAGACACTGGGTGTCAAATATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
104318639 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
104318656 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:104318799 original size:18 final size:19
Alignment explanation
Indices: 104318778--104318818 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
104318768 AATGAAATGA
104318778 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
104318796 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
104318815 GAAA
1 GAAA
104318819 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:104321930 original size:13 final size:13
Alignment explanation
Indices: 104321914--104321944 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
104321904 AAATTTAACT
104321914 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
104321927 AAAAAAAACAAAG
1 AAAAAAAAAAAAG
104321940 AAAAA
1 AAAAA
104321945 CTTATTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.90, C:0.03, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:104321996 original size:23 final size:23
Alignment explanation
Indices: 104321949--104321997 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
104321939 GAAAAACTTA
*
104321949 TTTTTCTATATAAAAATCCAGAT
1 TTTTTCTATATAAAAATCCAAAT
*
104321972 TTTTTCT-TGTAAAAATCCCAAAT
1 TTTTTCTATATAAAAAT-CCAAAT
104321995 TTT
1 TTT
104321998 CATTGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (23 bp):
TTTTTCTATATAAAAATCCAAAT
Found at i:104321997 original size:22 final size:22
Alignment explanation
Indices: 104321948--104322005 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
104321938 AGAAAAACTT
*
104321948 ATTTTTCTATATAAAAATCCAGA
1 ATTTTTCT-TGTAAAAATCCAGA
*
104321971 TTTTTTCTTGTAAAAATCCCA-A
1 ATTTTTCTTGTAAAAAT-CCAGA
104321993 A-TTTTCATTGTAA
1 ATTTTTC-TTGTAA
104322006 TACCATGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.17
22 15 0.50
23 10 0.33
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTTTCTTGTAAAAATCCAGA
Found at i:104337470 original size:18 final size:18
Alignment explanation
Indices: 104337449--104337484 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104337439 GACTTGCGTA
*
104337449 GTGGGCGCGACTAGTGTC
1 GTGGCCGCGACTAGTGTC
*
104337467 GTGGCCGCGACTTGTGTC
1 GTGGCCGCGACTAGTGTC
104337485 AGGTACGGGC
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:0.08, C:0.25, G:0.42, T:0.25
Consensus pattern (18 bp):
GTGGCCGCGACTAGTGTC
Found at i:104340019 original size:5 final size:5
Alignment explanation
Indices: 104340009--104340063 Score: 69
Period size: 5 Copynumber: 11.0 Consensus size: 5
104339999 ATCCTAAAAT
*
104340009 AATAA AATAA AATAA AA-ATA AATAAA AATAA AA-AT AATAA AATAA AATAA
1 AATAA AATAA AATAA AATA-A AAT-AA AATAA AATAA AATAA AATAA AATAA
104340059 AATAA
1 AATAA
104340064 TATCTTCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 35 0.80
6 4 0.09
7 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:104340028 original size:6 final size:6
Alignment explanation
Indices: 104340012--104340060 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
104340002 CTAAAATAAT
104340012 AAAAT- AAAATA AAAAT- -AAATA AAAATA AAAATA ATAAA-A TAAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA -AAAATA
104340058 AAA
1 AAA
104340061 TAATATCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.11
5 5 0.13
6 24 0.63
7 5 0.13
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:104348461 original size:24 final size:23
Alignment explanation
Indices: 104348417--104348463 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
104348407 TACACACTAC
*
104348417 TATATAATAGTAATAATAATAAA
1 TATATAATAGTAATAACAATAAA
* *
104348440 TATAGTAATGGTAATAGCAATAAA
1 TATA-TAATAGTAATAACAATAAA
104348464 AAGTAGAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (23 bp):
TATATAATAGTAATAACAATAAA
Found at i:104351780 original size:21 final size:21
Alignment explanation
Indices: 104351755--104351819 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
104351745 TAGCCTCCGG
104351755 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* *
104351776 GCTTCAG-TTAGC-CTT-TGG
1 GCTTCCGTTTAGCACTTATGT
* *
104351794 GCTACCGTTTCGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
104351815 GCTTC
1 GCTTC
104351820 AACTAGATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:104351783 original size:39 final size:39
Alignment explanation
Indices: 104351737--104351820 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
104351727 GCTCTGATGA
*
104351737 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTACCGTTTAGCACTTATGT
** *
104351776 GCTTCAGTTAGCCTTTGGGCTACCGTTTCGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTACCGTTTAGCACTTATGT
104351815 GCTTCA
1 GCTTCA
104351821 ACTAGATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTACCGTTTAGCACTTATGT
Found at i:104351835 original size:39 final size:40
Alignment explanation
Indices: 104351752--104351835 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
104351742 AGTTAGCCTC
* ** *
104351752 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTT
1 CGGGCTACCGTTTAGCACTTATGTGCTTCAACTAGCATTT
*
104351792 -GGGCTACCGTTTCGCACTTATGTGCTTCAACTAG-ATTT
1 CGGGCTACCGTTTAGCACTTATGTGCTTCAACTAGCATTT
104351830 CGGGCT
1 CGGGCT
104351836 TCAGATCACA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
38 3 0.08
39 35 0.92
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (40 bp):
CGGGCTACCGTTTAGCACTTATGTGCTTCAACTAGCATTT
Found at i:104354965 original size:21 final size:20
Alignment explanation
Indices: 104354923--104354965 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
104354913 TCATTTGCAG
* *
104354923 CATCAATCATGCGTTAATGC
1 CATCAATCATGCGTCAAAGC
*
104354943 CATCAATTATTGCGTCAAAGC
1 CATCAATCA-TGCGTCAAAGC
104354964 CA
1 CA
104354966 GCAAACAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
CATCAATCATGCGTCAAAGC
Found at i:104355757 original size:75 final size:75
Alignment explanation
Indices: 104355634--104356024 Score: 479
Period size: 75 Copynumber: 5.3 Consensus size: 75
104355624 TCAGCAAGAC
* * *
104355634 CAAGCTTCTCAAAATGGAGCAAATGGTGCCTCTTTTCCCTACAATTGGTTTCAAGAAGATCATAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
104355699 AAATGATCAG
66 AAATGATCAG
* *
104355709 CAAGCTTCTCGAAATGGAGCCAATGGTGCCTCTTTTACCAACAGTTGGTTTCAAGAAGATCATCA
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCAT-A
*
104355774 -AAATGATCAC
65 GAAATGATCAG
* * * * *
104355784 CAAGCTGCTCAAAAAGGAGCCAATGGAGCCTCTTTTACAAACAATTGGTTTCAAGAAGATCTTAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
*
104355849 AAATCATCAG
66 AAATGATCAG
* * * * * *
104355859 CAAGCTTCTCAAAATGGAGCCATTGGTGTCTCTTTTCCCAACAACTGGCTTCAAGAAGATCAAAG
1 CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
*
104355924 AAATGA-CCG
66 AAATGATCAG
* ** * * *
104355933 ACAAGCTTCTCAAAATGGAGCCAATGGTGTCTGC-TTTACCAACAGCTGGCTCCAAGAAGATCTT
1 -CAAGCTTCTCAAAATGGAGCCAATGGTGCCT-CTTTTACCAACAATTGGTTTCAAGAAGATCAT
104355997 AG-AA--ATCAG
64 AGAAATGATCAG
*
104356006 CAAGCGTCTCAAAATGGAG
1 CAAGCTTCTCAAAATGGAG
104356025 TCATGGTTCA
Statistics
Matches: 275, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
72 19 0.07
73 2 0.01
74 5 0.02
75 247 0.90
76 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (75 bp):
CAAGCTTCTCAAAATGGAGCCAATGGTGCCTCTTTTACCAACAATTGGTTTCAAGAAGATCATAG
AAATGATCAG
Found at i:104360755 original size:3 final size:3
Alignment explanation
Indices: 104360749--104360791 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
104360739 TATTATTACG
104360749 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104360792 AGAAGGGTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:104367526 original size:31 final size:31
Alignment explanation
Indices: 104367484--104367597 Score: 79
Period size: 31 Copynumber: 3.5 Consensus size: 31
104367474 ACTAACTAAT
104367484 ATAA-AAA-TGAAAATATTCAAAAATTCAAG
1 ATAATAAAGTGAAAATATTCAAAAATTCAAG
* * * **
104367513 ATAATAAAGTGAAAAAAATAAAGTTAAATAAAATG
1 ATAATAAAGTGAAAATATTCAA---AAATTCAA-G
* *
104367548 ATTATTGTAAAAATGAAAATATTCAAAAATTCAAG
1 A-TA--AT-AAAGTGAAAATATTCAAAAATTCAAG
104367583 ATAATAAAGTGAAAA
1 ATAATAAAGTGAAAA
104367598 AAATAAAGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
29 4 0.07
30 3 0.05
31 19 0.31
32 1 0.02
34 8 0.13
35 4 0.07
36 8 0.13
38 1 0.02
39 13 0.21
ACGTcount: A:0.61, C:0.04, G:0.10, T:0.25
Consensus pattern (31 bp):
ATAATAAAGTGAAAATATTCAAAAATTCAAG
Found at i:104367568 original size:70 final size:70
Alignment explanation
Indices: 104367485--104367623 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
104367475 CTAACTAATA
104367485 TAAAAATGAAAATATTCAAAAATTCAAGATAATAAAGTGAAAAAAATAAAGTTAAATAAAATGAT
1 TAAAAATGAAAATATTCAAAAATTCAAGATAATAAAGTGAAAAAAATAAAGTTAAATAAAATGAT
104367550 TATTG
66 TATTG
*
104367555 TAAAAATGAAAATATTCAAAAATTCAAGATAATAAAGTGAAAAAAATAAAGTTAAATAGAATGAT
1 TAAAAATGAAAATATTCAAAAATTCAAGATAATAAAGTGAAAAAAATAAAGTTAAATAAAATGAT
104367620 TATT
66 TATT
104367624 TTATAAATTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (70 bp):
TAAAAATGAAAATATTCAAAAATTCAAGATAATAAAGTGAAAAAAATAAAGTTAAATAAAATGAT
TATTG
Found at i:104368738 original size:20 final size:19
Alignment explanation
Indices: 104368710--104368749 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
104368700 AAAACAATCA
* *
104368710 TTTATTAAATGTCATCTCAT
1 TTTAGTAAATATCAT-TCAT
104368730 TTTAGTAAATATCATTCAT
1 TTTAGTAAATATCATTCAT
104368749 T
1 T
104368750 CACATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTAGTAAATATCATTCAT
Found at i:104370167 original size:24 final size:24
Alignment explanation
Indices: 104370092--104370195 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 24
104370082 AGTTCGTCCT
*
104370092 GAGCTGATGAACAGTAAGCTCATAC
1 GAGCTGA-AAACAGTAAGCTCATAC
* * * *
104370117 AAACTG-AAACGGTAAGCTCCA-AT
1 GAGCTGAAAACAGTAAGCT-CATAC
*
104370140 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACAGTAAGCTCATAC
* *
104370164 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGA-A-AACAGTAAGCTCATAC
*
104370190 AAGCTG
1 GAGCTG
104370196 TGGTGATCCG
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
23 16 0.27
24 21 0.35
25 5 0.08
26 18 0.30
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCATAC
Found at i:104371514 original size:26 final size:26
Alignment explanation
Indices: 104371485--104371540 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
104371475 TGATACAAAT
104371485 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104371511 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104371537 TGAT
1 TGAT
104371541 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104373594 original size:70 final size:70
Alignment explanation
Indices: 104373481--104373621 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
104373471 TTTGAATGGG
104373481 TTTTCCTTACACACCGAGTTTCCTCAAACTCACCCCTTTTATTTTCATCCACGCAAGAAATCCCC
1 TTTTCCTTACACACCGAGTTTCCTCAAACTCACCCCTTTTATTTTCATCCACGCAAGAAATCCCC
104373546 AACCA
66 AACCA
* *
104373551 TTTTCCTTACACACTGAGTTTCCTCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCC
1 TTTTCCTTACACACCGAGTTTCCTCAAACTCACCCCTTTTATTTTCATCCACGCAAGAAATCCCC
104373616 AACCA
66 AACCA
104373621 T
1 T
104373622 AGTGGGCTTG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.26, C:0.36, G:0.06, T:0.31
Consensus pattern (70 bp):
TTTTCCTTACACACCGAGTTTCCTCAAACTCACCCCTTTTATTTTCATCCACGCAAGAAATCCCC
AACCA
Found at i:104374653 original size:13 final size:13
Alignment explanation
Indices: 104374635--104374665 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
104374625 TTAATGCATA
104374635 AAACATCTGTAAT
1 AAACATCTGTAAT
104374648 AAACATCTGTAAT
1 AAACATCTGTAAT
104374661 AAACA
1 AAACA
104374666 CTGGATGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (13 bp):
AAACATCTGTAAT
Found at i:104376805 original size:5 final size:5
Alignment explanation
Indices: 104376790--104376818 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
104376780 AAATTCAGGG
104376790 TAAAA -AAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
104376819 AATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:104378012 original size:46 final size:44
Alignment explanation
Indices: 104377953--104378067 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
104377943 ACAGGACAGA
* *
104377953 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
104377999 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
104378043 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
104378068 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:104378048 original size:44 final size:45
Alignment explanation
Indices: 104377953--104378086 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
104377943 ACAGGACAGA
* *
104377953 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
104377999 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
104378043 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104378087 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:104383966 original size:46 final size:44
Alignment explanation
Indices: 104383907--104384021 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
104383897 ACAGGACAGA
* *
104383907 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
104383953 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
104383997 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
104384022 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:104384002 original size:44 final size:45
Alignment explanation
Indices: 104383907--104384040 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
104383897 ACAGGACAGA
* *
104383907 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
104383953 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
104383997 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
104384041 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:104385414 original size:26 final size:26
Alignment explanation
Indices: 104385385--104385492 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
104385375 TGATACAAAT
104385385 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104385411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104385437 TGATAATGGGTTTGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104385463 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104385489 TGAT
1 TGAT
104385493 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104388569 original size:21 final size:21
Alignment explanation
Indices: 104388531--104388570 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
104388521 AAGAAATTGA
* *
104388531 TTTTTTTTACTGTTTTCTTGC
1 TTTTTTTTACTCTATTCTTGC
104388552 TTTTTTTTACTCTATTCTT
1 TTTTTTTTACTCTATTCTT
104388571 TTTTTCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTTTTTACTCTATTCTTGC
Found at i:104389311 original size:6 final size:6
Alignment explanation
Indices: 104389291--104389339 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
104389281 AGTATACATT
* *
104389291 TTAATA TTAAT- TTAATG TTAATA TTAATA TTAAT- TTAAAA TTATATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTA-ATA
104389338 TT
1 TT
104389340 TTATTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 9 0.24
6 24 0.65
7 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAATA
Found at i:104389313 original size:17 final size:17
Alignment explanation
Indices: 104389290--104389339 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
104389280 AAGTATACAT
104389290 TTTAATATTAAT-TTAA
1 TTTAATATTAATATTAA
104389306 TGTTAATATTAATATTAA
1 T-TTAATATTAATATTAA
*
104389324 TTTAAAATTATATATT
1 TTTAATATTA-ATATT
104389340 TTATTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 1 0.03
17 19 0.63
18 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAATATTAATATTAA
Found at i:104389344 original size:23 final size:23
Alignment explanation
Indices: 104389268--104389352 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
104389258 AGGTTTCTTA
* *
104389268 TATTAATGTTAAAAGTATACATTTT
1 TATTAAT-TTAAAATTATATA-TTT
** *
104389293 AATATTAATTTAATGTTA-ATATTAA
1 --TATTAATTTAAAATTATATATT-T
104389318 TATTAATTTAAAATTATATATTT
1 TATTAATTTAAAATTATATATTT
104389341 TATT-ATTTAAAA
1 TATTAATTTAAAA
104389353 AGTAATAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
22 8 0.17
23 18 0.38
24 7 0.15
25 2 0.04
26 6 0.12
27 7 0.15
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTAATTTAAAATTATATATTT
Found at i:104391506 original size:32 final size:34
Alignment explanation
Indices: 104391470--104391542 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 34
104391460 GATGTTATAT
* * *
104391470 TATTTTATGTA-AATATT-TTTCCTTTAAAAA-TC
1 TATTTTATATATAAT-TTATTTCCTATAAAAACCC
104391502 TA-TTTATATATAATTTATTTCCTATAAAAACCC
1 TATTTTATATATAATTTATTTCCTATAAAAACCC
104391535 TATTTTAT
1 TATTTTAT
104391543 CATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 9 0.26
32 17 0.50
33 3 0.09
34 5 0.15
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.52
Consensus pattern (34 bp):
TATTTTATATATAATTTATTTCCTATAAAAACCC
Found at i:104391648 original size:16 final size:16
Alignment explanation
Indices: 104391627--104391666 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
104391617 ATGTAAATTG
104391627 ATATATGTATT-ACTTT
1 ATATAT-TATTAACTTT
104391643 ATATATTATTAACTTT
1 ATATATTATTAACTTT
104391659 ATAGTATT
1 ATA-TATT
104391667 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (16 bp):
ATATATTATTAACTTT
Found at i:104391697 original size:30 final size:30
Alignment explanation
Indices: 104391663--104391735 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
104391653 AACTTTATAG
*
104391663 TATTTATTTTAAAATTTATTTTTATATTGC
1 TATTTATTATAAAATTTATTTTTATATTGC
* ** * *
104391693 TATTTAATATATTATTTATTTTTATTTTTC
1 TATTTATTATAAAATTTATTTTTATATTGC
*
104391723 TATTTATTCTAAA
1 TATTTATTATAAA
104391736 TTCTTATATC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTTATTATAAAATTTATTTTTATATTGC
Found at i:104393758 original size:8 final size:8
Alignment explanation
Indices: 104393747--104393786 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
104393737 TTACATATGA
*
104393747 TAATATTT
1 TAATAATT
104393755 TAATAATT
1 TAATAATT
104393763 TAATAATT
1 TAATAATT
104393771 TAATAATT
1 TAATAATT
104393779 TAATAATT
1 TAATAATT
104393787 AAATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TAATAATT
Found at i:104394420 original size:2 final size:2
Alignment explanation
Indices: 104394413--104394445 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
104394403 TGGTATTTGA
104394413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104394446 TTTTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:104398688 original size:5 final size:5
Alignment explanation
Indices: 104398680--104398704 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
104398670 ATTTCAAATT
104398680 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
104398705 TATACATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:104399260 original size:11 final size:10
Alignment explanation
Indices: 104399238--104399268 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
104399228 AAAAATTATG
104399238 AAGAAAAAAA
1 AAGAAAAAAA
104399248 AAGAAAAAGAA
1 AAGAAAAA-AA
104399259 AAGAAAAAAA
1 AAGAAAAAAA
104399269 TCCTACACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:104401879 original size:20 final size:20
Alignment explanation
Indices: 104401854--104401901 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
104401844 TAAATTCTAA
* *
104401854 AAAGATAAATACATATAATT
1 AAAGATAAATAAAGATAATT
104401874 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
104401894 AAA-ATAAA
1 AAAGATAAA
104401902 ATCCTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:104401881 original size:10 final size:10
Alignment explanation
Indices: 104401854--104401901 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
104401844 TAAATTCTAA
104401854 AAAGATAAAT
1 AAAGATAAAT
* * *
104401864 ACATATAATT
1 AAAGATAAAT
104401874 AAAGATAAAT
1 AAAGATAAAT
*
104401884 AAAGATAATT
1 AAAGATAAAT
104401894 AAA-ATAAA
1 AAAGATAAA
104401902 ATCCTAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 4 0.13
10 26 0.87
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:104407089 original size:2 final size:2
Alignment explanation
Indices: 104407076--104407113 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
104407066 AAAAATTTGA
*
104407076 AT AT AA 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
104407114 TCTAAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:104407913 original size:46 final size:46
Alignment explanation
Indices: 104407859--104407951 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
104407849 GGTAAGGGCC
* *
104407859 ATATAAGCCTTAAGTAGCTCAATTACTATTCACACGTCATGTACTA
1 ATATAAGCCTGAAGTAGCACAATTACTATTCACACGTCATGTACTA
* *
104407905 ATATAAGCCTGAGGTAGCACAATTACTATTCACACGTTATGTACTA
1 ATATAAGCCTGAAGTAGCACAATTACTATTCACACGTCATGTACTA
104407951 A
1 A
104407952 CACCTCTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (46 bp):
ATATAAGCCTGAAGTAGCACAATTACTATTCACACGTCATGTACTA
Found at i:104409353 original size:22 final size:22
Alignment explanation
Indices: 104409328--104409371 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
104409318 TAGTCATATA
104409328 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
104409350 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
104409372 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:104409473 original size:14 final size:15
Alignment explanation
Indices: 104409449--104409520 Score: 58
Period size: 15 Copynumber: 4.6 Consensus size: 15
104409439 ATATTATTGA
104409449 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
104409462 TAATATTTTAATAAT
1 AAATATTTTAATAAT
104409477 AAATATTTATTACAATATAT
1 AAATA-TT-TT--AATA-AT
*
104409497 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
104409512 AAATGTTTT
1 AAATATTTT
104409521 GTAATATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 15 0.32
16 6 0.13
17 2 0.04
18 2 0.04
19 5 0.11
20 7 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:104415400 original size:34 final size:34
Alignment explanation
Indices: 104415340--104415413 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 34
104415330 AGTGTAACAT
* *
104415340 AACATAATAATACATTTTTTAAACAATTTTAAATC
1 AACATAATAATACATTTTTT-AACAATATTAAAAC
104415375 AACATAATAATACATTTTTCT-ACAATATTAAAAC
1 AACATAATAATACATTTTT-TAACAATATTAAAAC
104415409 AACAT
1 AACAT
104415414 TTAGATGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 16 0.44
35 19 0.53
36 1 0.03
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (34 bp):
AACATAATAATACATTTTTTAACAATATTAAAAC
Found at i:104422791 original size:18 final size:18
Alignment explanation
Indices: 104422768--104422802 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104422758 GTGATATTCA
*
104422768 TTTATTCAGTATCAGTCG
1 TTTATTCAGTAACAGTCG
*
104422786 TTTATTCTGTAACAGTC
1 TTTATTCAGTAACAGTC
104422803 AATTATTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTATTCAGTAACAGTCG
Found at i:104422957 original size:6 final size:6
Alignment explanation
Indices: 104422946--104422984 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
104422936 CACCGCAAGG
*
104422946 GTAACA GTAACA GTAACA GTAATA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
104422985 GCGGTACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:104423362 original size:37 final size:37
Alignment explanation
Indices: 104423313--104423384 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
104423303 TTCAATTTTC
104423313 CACTCAATATTCAC--ATATTCTATTCAATATCAATAAT
1 CACTCAATATTCACGAAT-TTCTATTCAAT-TCAATAAT
*
104423350 CACT-AATAATTCACGAATTTTTATTCAATTCAATA
1 CACTCAAT-ATTCACGAATTTCTATTCAATTCAATA
104423385 CCATAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 3 0.10
37 16 0.52
38 10 0.32
39 2 0.06
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.39
Consensus pattern (37 bp):
CACTCAATATTCACGAATTTCTATTCAATTCAATAAT
Found at i:104424102 original size:11 final size:11
Alignment explanation
Indices: 104424086--104424119 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
104424076 TGCTTGTTTC
104424086 TCTTTTTCATT
1 TCTTTTTCATT
**
104424097 TCTTTTTGTTT
1 TCTTTTTCATT
104424108 TCTTTTTCATT
1 TCTTTTTCATT
104424119 T
1 T
104424120 ATTTACTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (11 bp):
TCTTTTTCATT
Found at i:104428353 original size:46 final size:46
Alignment explanation
Indices: 104428301--104428528 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
104428291 AGTGTGCTCT
*
104428301 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
104428347 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
104428393 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
104428439 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
104428485 ATGACA-GAAAATGAGCAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
104428529 TCATGTCAAA
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 169 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:104438280 original size:27 final size:27
Alignment explanation
Indices: 104438229--104438291 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
104438219 GCCAAAAAAA
* * **
104438229 AAGATACATGTGAGGAAGAGTGAGTAG
1 AAGATGCAGGTGAGGAAGAAAGAGTAG
104438256 AAGATGCAGGTGAGGAAGAAAGAGTAG
1 AAGATGCAGGTGAGGAAGAAAGAGTAG
**
104438283 CGGATGCAG
1 AAGATGCAG
104438292 TTGATGGATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.40, T:0.14
Consensus pattern (27 bp):
AAGATGCAGGTGAGGAAGAAAGAGTAG
Found at i:104445368 original size:21 final size:21
Alignment explanation
Indices: 104445329--104445369 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104445319 GGTTCTTCCC
*
104445329 ACTTCATTGCAACTTATTATA
1 ACTTCATTACAACTTATTATA
104445350 ACTTC-TTACAACTTGATTAT
1 ACTTCATTACAACTT-ATTAT
104445370 GTTATGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (21 bp):
ACTTCATTACAACTTATTATA
Found at i:104445694 original size:13 final size:13
Alignment explanation
Indices: 104445676--104445701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104445666 CTTATCGTTA
104445676 CTTAACAATATTT
1 CTTAACAATATTT
104445689 CTTAACAATATTT
1 CTTAACAATATTT
104445702 GAAACTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CTTAACAATATTT
Found at i:104459164 original size:6 final size:6
Alignment explanation
Indices: 104459117--104459176 Score: 54
Period size: 6 Copynumber: 10.0 Consensus size: 6
104459107 AAGAAAATGT
* *
104459117 AATAAA AATAATA AATAAA ACA-AAA CATAAA GATATAA AATAAA AAT-AA
1 AATAAA AATAA-A AATAAA A-ATAAA AATAAA AATA-AA AATAAA AATAAA
104459166 AAT-AA AATAAA
1 AATAAA AATAAA
104459177 CAGATGGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 11 0.24
6 23 0.50
7 12 0.26
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:104462792 original size:42 final size:43
Alignment explanation
Indices: 104462701--104462806 Score: 153
Period size: 42 Copynumber: 2.5 Consensus size: 43
104462691 AATGCCAACA
* ***
104462701 TCCCAGACATGATCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACAAAATCAAATATCGATGCCACTG
104462744 TCCCAGACATGGTCTTACACAAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACATGGTCTTACACAAAATCAAATATCGATGCC-ACTG
104462786 TCCCAGACATGGTCTTACACA
1 TCCCAGACATGGTCTTACACA
104462807 TCAATCATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACAAAATCAAATATCGATGCCACTG
Found at i:104462813 original size:43 final size:43
Alignment explanation
Indices: 104462701--104462826 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 43
104462691 AATGCCAACA
* **
104462701 TCCCAGACATGATCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACTG
*
104462744 TCCCAGACATGGTCTTACACAAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACATGGTCTTACACATAATCAAATATCGATGCC-ACTG
*
104462786 TCCCAGACATGGTCTTACACATCAATCATAA-GTCGATGCCA
1 TCCCAGACATGGTCTTACACAT-AATCA-AATATCGATGCCA
104462827 ACATCCTACA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 30 0.41
43 34 0.47
44 9 0.12
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACTG
Found at i:104468475 original size:20 final size:20
Alignment explanation
Indices: 104468450--104468489 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
104468440 TCTGACAGCT
104468450 GAGTAATTT-TTGCGTTCTTC
1 GAGTAATTTCTT-CGTTCTTC
104468470 GAGTAATTTCTTCGTTCTTC
1 GAGTAATTTCTTCGTTCTTC
104468490 TCTGTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (20 bp):
GAGTAATTTCTTCGTTCTTC
Found at i:104470446 original size:12 final size:12
Alignment explanation
Indices: 104470429--104470454 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
104470419 CAACCATAAC
104470429 AATTCAAAATAT
1 AATTCAAAATAT
104470441 AATTCAAAATAT
1 AATTCAAAATAT
104470453 AA
1 AA
104470455 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTCAAAATAT
Found at i:104470518 original size:7 final size:6
Alignment explanation
Indices: 104470488--104470539 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
104470478 AACAATAATT
* * *
104470488 ATAAAA ATATAA ATAAAA CTAAAA ATAAAA ATAAAA A-AGAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
104470535 ATAAA
1 ATAAA
104470540 TGATAAATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:104470547 original size:17 final size:17
Alignment explanation
Indices: 104470492--104470539 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
104470482 ATAATTATAA
*
104470492 AAATATAAATAAAACTAA-
1 AAATAAAAATAAAA--AAG
104470510 AAATAAAAATAAAAAAG
1 AAATAAAAATAAAAAAG
104470527 AAATAAAAATAAA
1 AAATAAAAATAAA
104470540 TGATAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 13 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAAAAATAAAAAAG
Found at i:104474359 original size:31 final size:31
Alignment explanation
Indices: 104474321--104474383 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
104474311 CTTTTCACAC
104474321 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
** *
104474352 TTCATATTTCATATTACTGGGCTGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
104474383 T
1 T
104474384 ACTGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:104474684 original size:25 final size:24
Alignment explanation
Indices: 104474577--104474697 Score: 131
Period size: 24 Copynumber: 5.0 Consensus size: 24
104474567 GCTTTATCAT
*
104474577 ATAACTAGAGGCCT-AGCCTCTTTTA
1 ATAACTAG-GGCATAAGCC-CTTTTA
* *
104474602 ATAACTGGGGCA-AAGCCTTTTTA
1 ATAACTAGGGCATAAGCCCTTTTA
104474625 ATAACT-GAGGCATAAGCCCTTTTA
1 ATAACTAG-GGCATAAGCCCTTTTA
* *
104474649 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTAGGGCATAAGCCCTTT-TA
*
104474674 ATAACTAGGGCATAAGCCTTTTTA
1 ATAACTAGGGCATAAGCCCTTTTA
104474698 CACTTCCTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 38 0.46
25 29 0.35
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (24 bp):
ATAACTAGGGCATAAGCCCTTTTA
Found at i:104474688 original size:49 final size:48
Alignment explanation
Indices: 104474568--104474697 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 48
104474558 AGCATAGCTG
*
104474568 CTTTATCATATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGC
1 CTTTATC--ATAACTAGAGGCATAAGCC-CTTTTAATAACTGGGGCAAAGC
* *
104474618 CTTTTTAATAACT-GAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTAGAGGCATAAGCCCTTTTAATAACTGGGGCA-AAG-C
*
104474667 CTTTATCATAACTAG-GGCATAAGCCTTTTTA
1 CTTTATCATAACTAGAGGCATAAGCCCTTTTA
104474698 CACTTCCTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
47 24 0.34
48 13 0.19
49 27 0.39
50 6 0.09
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (48 bp):
CTTTATCATAACTAGAGGCATAAGCCCTTTTAATAACTGGGGCAAAGC
Found at i:104474771 original size:20 final size:20
Alignment explanation
Indices: 104474746--104474812 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
104474736 TTATGAATAC
104474746 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104474766 ATCATGTGCATATCATACGT
1 ATCATGTGCATATCATACAT
*
104474786 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104474806 ACCATGT
1 ATCATGT
104474813 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:104478012 original size:24 final size:24
Alignment explanation
Indices: 104477985--104478030 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
104477975 GAATTTAACA
104477985 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
104478009 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
104478031 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:104485152 original size:29 final size:29
Alignment explanation
Indices: 104485118--104485175 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
104485108 TCAAATAGAC
104485118 TTAGACTATTACTCCATCAAAACCGAATT
1 TTAGACTATTACTCCATCAAAACCGAATT
104485147 TTAGACTATTACTCCATCAAAACCGAATT
1 TTAGACTATTACTCCATCAAAACCGAATT
104485176 ATCAAGGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (29 bp):
TTAGACTATTACTCCATCAAAACCGAATT
Found at i:104485889 original size:24 final size:24
Alignment explanation
Indices: 104485862--104485907 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
104485852 GAATTTAACA
104485862 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
104485886 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
104485908 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:104485985 original size:2 final size:2
Alignment explanation
Indices: 104485978--104486008 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
104485968 TTATAAATGC
*
104485978 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104486009 ATCAATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104494932 original size:39 final size:39
Alignment explanation
Indices: 104494878--104495118 Score: 326
Period size: 39 Copynumber: 6.2 Consensus size: 39
104494868 ATTTGATGTG
*
104494878 TATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
104494917 TATCCGGACTTAGGGTCGGCAGGCTATGTGTTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
104494956 TATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
104494995 TATCAGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* *
104495034 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
* ** * *
104495073 TATCCGGGC-TAAAGTCCCGCAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGT-CCGCAGGCTAT-GTGCTGGAATTA
104495112 TATCCGG
1 TATCCGG
104495119 GCCAAAGTCC
Statistics
Matches: 186, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 5 0.03
39 181 0.97
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:104495093 original size:78 final size:78
Alignment explanation
Indices: 104494878--104495183 Score: 302
Period size: 78 Copynumber: 3.9 Consensus size: 78
104494868 ATTTGATGTG
* * ** *
104494878 TATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAATTATATCCGGACTTAGGGTCGGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTA
*
104494943 TGTGTTGGAATTA
66 TGTGCTGGAATTA
* * * **
104494956 TATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCAGGACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTA
104495021 TGTGCTGGAATTA
66 TGTGCTGGAATTA
* *
104495034 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATGTATCCGGGC-TAAAGTCCCGCAGGC
1 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGC
* *
104495097 T-TCGTGCTGGAAATG
64 TAT-GTGCTGGAATTA
* * ** * *
104495112 TATCCGGGC-CAAAGTCCCGCAGGCT-TCATGCTGGAAATGTATCCAGG--TTAAAGTCCCGCAG
1 TATCCGGACTTAGGGT-CCGCAGGCTAT-GTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAG
*
104495173 GCTTTGTGCTG
62 GCTATGTGCTG
104495184 ATAATATAAT
Statistics
Matches: 202, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
77 9 0.04
78 190 0.94
79 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (78 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTA
TGTGCTGGAATTA
Found at i:104495119 original size:39 final size:39
Alignment explanation
Indices: 104495011--104495183 Score: 224
Period size: 39 Copynumber: 4.4 Consensus size: 39
104495001 GACTTAGGGT
* * * **
104495011 CCGCAGGCTAT-GTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCT-TCGTGCTGGAAATGTATCCGGGC-TAAAGTC
104495050 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
104495089 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
* * *
104495128 CCGCAGGCTTCATGCTGGAAATGTATCCAGGTTAAAGTC
1 CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
*
104495167 CCGCAGGCTTTGTGCTG
1 CCGCAGGCTTCGTGCTG
104495184 ATAATATAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 5 0.04
39 115 0.96
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTC
Found at i:104495144 original size:117 final size:117
Alignment explanation
Indices: 104494892--104495147 Score: 270
Period size: 117 Copynumber: 2.2 Consensus size: 117
104494882 CGGACTTAGG
* * * * *
104494892 GTCCGCAGGCTATGTACTGGAATTATATCCGGACTTAGGGTCGGCAGGCTATGTGTTGGAATTAT
1 GTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATAT
** * * **
104494957 ATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCAGGACTTAGG
66 ATCCGGACTTAAAGTCCGCAAGCTATGTGCTGGAAATATATCAGGACTCAAA
* *
104495009 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATG
1 GTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAAATA
* * * * *
104495073 TATCCGGGC-TAAAGTCCCGCAGGCT-TCGTGCTGGAAATGTATCCGGGC-CAAA
65 TATCCGGACTTAAAGT-CCGCAAGCTAT-GTGCTGGAAATATATCAGGACTCAAA
104495125 GTCCCGCAGGCT-TCATGCTGGAA
1 GT-CCGCAGGCTAT-ATGCTGGAA
104495148 ATGTATCCAG
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
116 10 0.09
117 107 0.91
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.26
Consensus pattern (117 bp):
GTCCGCAGGCTATATGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAATAT
ATCCGGACTTAAAGTCCGCAAGCTATGTGCTGGAAATATATCAGGACTCAAA
Found at i:104498677 original size:75 final size:75
Alignment explanation
Indices: 104498558--104498729 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
104498548 CATGGCAAAG
** *
104498558 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
104498617 CCATACTGAGC
65 CCATACCGAGC
104498628 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
104498693 CATACCGAGT
66 CATACCGAGC
***
104498703 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
104498730 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:104498696 original size:35 final size:35
Alignment explanation
Indices: 104498561--104498727 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
104498551 GGCAAAGTGT
* **
104498561 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
104498596 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
104498631 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
104498671 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
104498707 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
104498728 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:104498719 original size:36 final size:35
Alignment explanation
Indices: 104498657--104498727 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
104498647 ATTATCAAAT
* *
104498657 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
104498692 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
104498728 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:104500209 original size:31 final size:31
Alignment explanation
Indices: 104500171--104500233 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
104500161 CTTTTCACAC
* *
104500171 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
**
104500202 TTCATATTTCATATTACTAGGCCAAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
104500233 T
1 T
104500234 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCAAAGCCTT
Found at i:104500479 original size:48 final size:49
Alignment explanation
Indices: 104500427--104500572 Score: 201
Period size: 50 Copynumber: 3.0 Consensus size: 49
104500417 GTTTTATCAT
*
104500427 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
104500475 ATAACTGGGGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCTCTTTTAATAACTGGGGCATAAGCCCTTT-TA
* *
104500524 ATAATTGGGGCATAAGCCT-TTTATCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCTCTTT-TAATAACTGGGGCATAAGCCCTTTTA
104500573 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
47 22 0.25
48 21 0.24
49 22 0.25
50 23 0.26
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (49 bp):
ATAACTGGGGCATAAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:104500533 original size:25 final size:24
Alignment explanation
Indices: 104500427--104500572 Score: 199
Period size: 24 Copynumber: 6.0 Consensus size: 24
104500417 GTTTTATCAT
*
104500427 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
104500452 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
104500475 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
104500499 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
104500524 ATAATTGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
104500547 TCATAACTGGGGCATAAGCCCTTTTA
1 --ATAACTGGGGCATAAGCCCTTTTA
104500573 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.17
24 45 0.41
25 39 0.35
26 7 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104500686 original size:20 final size:20
Alignment explanation
Indices: 104500621--104500687 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
104500611 TTATGAATAC
*
104500621 ATCATGTGCATATCATACAC
1 ATCATGTGCATATCATACAT
*
104500641 ATCATGTGCATATCATACGT
1 ATCATGTGCATATCATACAT
*
104500661 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104500681 ACCATGT
1 ATCATGT
104500688 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:104508355 original size:17 final size:17
Alignment explanation
Indices: 104508333--104508380 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
104508323 TACCAGAAAT
*
104508333 AAACAAAAA-AAATTAGA
1 AAACAAAAATAAACTA-A
104508350 AAACAAAAATTAAACTAA
1 AAACAAAAA-TAAACTAA
104508368 AAACAAAAATAAA
1 AAACAAAAATAAA
104508381 ATGCAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 10 0.36
19 5 0.18
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.12
Consensus pattern (17 bp):
AAACAAAAATAAACTAA
Found at i:104517847 original size:87 final size:90
Alignment explanation
Indices: 104517644--104517847 Score: 213
Period size: 87 Copynumber: 2.3 Consensus size: 90
104517634 ATAATGATAA
* * *
104517644 TGGAGCTATAGAGAATAGCGCCACCACTTTATGTAGGGTTATTATTATTTTTTAGTTTTTTAAAT
1 TGGAGCTATATAGAATGGCGCCACCACTCTATGTAGGGTTATTATTATTTTTTA-TTTTTTAAAT
* *
104517709 TTTAAAAAAAATGTTACTTTATTTGG
65 TTTAAAAAAAATATTACTTTATTTAG
** * * * *
104517735 TAAAGCTATATAAAATGGTGTCACCACTCTATGTAAGGGTT-TT-TT-TTTAGTTT-TTTTTTTA
1 TGGAGCTATATAGAATGGCGCCACCACTCTATGT-AGGGTTATTATTATTT--TTTATTTTTTAA
*
104517796 A-TTT-AAAAAAATATTATTTTATTTAG
63 ATTTTAAAAAAAATATTACTTTATTTAG
*
104517822 TGGAGCCATATAGAATGGCGCCACCA
1 TGGAGCTATATAGAATGGCGCCACCA
104517848 GTGTAATCAA
Statistics
Matches: 92, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
87 39 0.42
88 3 0.03
89 11 0.12
90 2 0.02
91 31 0.34
92 6 0.07
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (90 bp):
TGGAGCTATATAGAATGGCGCCACCACTCTATGTAGGGTTATTATTATTTTTTATTTTTTAAATT
TTAAAAAAAATATTACTTTATTTAG
Found at i:104517876 original size:43 final size:43
Alignment explanation
Indices: 104517815--104517901 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
104517805 AATATTATTT
104517815 TATTTAGTGGAGCCATATAGAATGGCGCCACCAGTGTAATCAA
1 TATTTAGTGGAGCCATATAGAATGGCGCCACCAGTGTAATCAA
104517858 TATTTAGTGGAGCCATATAGAATGGCGCCACCAGTGTAATCAA
1 TATTTAGTGGAGCCATATAGAATGGCGCCACCAGTGTAATCAA
104517901 T
1 T
104517902 CACTTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (43 bp):
TATTTAGTGGAGCCATATAGAATGGCGCCACCAGTGTAATCAA
Found at i:104519652 original size:3 final size:3
Alignment explanation
Indices: 104519613--104519733 Score: 70
Period size: 3 Copynumber: 40.3 Consensus size: 3
104519603 AGTTTTATAT
* * *
104519613 TTA TCA TTA TTA TGT- TTA TTA ATA TT- TCTA ATA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA
* * * * *
104519658 TTA TTA CTA TTA CTA TTA TT- TTAA GTA GTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* ** *
104519703 TTA GTA TTA TTA CCA CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104519734 CATACTATTA
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
2 5 0.06
3 82 0.91
4 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:104528917 original size:18 final size:18
Alignment explanation
Indices: 104528894--104528929 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
104528884 CTCTAAAGTA
104528894 CATGATGGAGTCAACTGC
1 CATGATGGAGTCAACTGC
104528912 CATGATGGAGTCAACTGC
1 CATGATGGAGTCAACTGC
104528930 TTTAAGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (18 bp):
CATGATGGAGTCAACTGC
Found at i:104532224 original size:44 final size:44
Alignment explanation
Indices: 104532053--104532353 Score: 146
Period size: 45 Copynumber: 6.8 Consensus size: 44
104532043 GTTAATTCAC
* * * *
104532053 AGATTTTATCTCCCTAAGCAATAGTGGAGCAGATTGAAGACGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGT
* * * * ** * *
104532097 -GAATCTTATCTTCCCGAGGTAGTAG-GGAAGTAGATTTAAGCCAGT
1 AG-ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCGAAGACTGT
* * * * * *
104532142 AG-CCTTATTTCCCTGAGCAGTAGTGGAGAAG-GCTGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACTGT
* *
104532185 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-TGG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGT
* * * * * ** *
104532228 CGAATCTTATCTTCTCGAGGAAGTAG-GGAAGCAGATTTAAGATTGT
1 AG-ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCGAAGACTGT
* * * * *
104532274 AGATCTTATCTCCCTGAAGTAGCAGTGGAGCAAATCGAAGGCGGT
1 AGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACTGT
* * * *
104532319 AAATCTTATCTCCATATAGCGGCAGTGGAGCAGAT
1 AGATCTTATCTCCCTA-AGCAGTAGTGGAGCAGAT
104532354 TTAAGTCACC
Statistics
Matches: 188, Mismatches: 54, Indels: 29
0.69 0.20 0.11
Matches are distributed among these distances:
43 25 0.13
44 60 0.32
45 97 0.52
46 6 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGT
Found at i:104532388 original size:44 final size:45
Alignment explanation
Indices: 104532276--104532447 Score: 114
Period size: 45 Copynumber: 3.8 Consensus size: 45
104532266 AAGATTGTAG
* * * * *** *
104532276 ATCTTATCTCCCTGAAGTAGCAGTGGAGCA-AATCGAAGGCGGTAA
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGTCAACAT
* * ** * * *
104532321 ATCTTATCTCCATATAGCGGCAGTGGAGCAGATTTAAGTCACCA-
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTCAACAT
* * * * *
104532365 GTCTTATTTCCCTAAAGTTGCAGTAGAACAGACTGAAGTTAACAT
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTCAACAT
* * *
104532410 ATCTTATCTCCCTAAATTTGTAGTGGAGCAAACTGAAG
1 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
104532448 ATGTAGAGTG
Statistics
Matches: 95, Mismatches: 30, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
44 32 0.34
45 61 0.64
46 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (45 bp):
ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTCAACAT
Found at i:104533673 original size:3 final size:3
Alignment explanation
Indices: 104533634--104533751 Score: 73
Period size: 3 Copynumber: 39.3 Consensus size: 3
104533624 AGTTTTATAT
* * *
104533634 TTA TCA TTA TTA TGT- TTA TTA ATA TT- TCTA ATA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA
* * * *
104533679 TTA TTA TTA CTA TTA TT- TTAA TTA GTA TTG TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
104533724 GTA TTA TTA CCA CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104533752 CATACTATTA
Statistics
Matches: 89, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
2 5 0.06
3 80 0.90
4 4 0.04
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:104533702 original size:21 final size:21
Alignment explanation
Indices: 104533668--104533761 Score: 66
Period size: 21 Copynumber: 4.2 Consensus size: 21
104533658 TTTCTAATAT
104533668 TATTATT-TCTATTATTATTAC
1 TATTATTAT-TATTATTATTAC
* **
104533689 TATTATT-TTAATTAGTATTGT
1 TATTATTATT-ATTATTATTAC
104533710 TATTATTATTAGTAGTATTATTAC
1 TATTATTATTA-T--TATTATTAC
* *
104533734 CACTATTATTATTATTATCATAC
1 TATTATTATTATTATTAT--TAC
104533757 TATTA
1 TATTA
104533762 AATTAGCTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.02
21 30 0.54
22 3 0.05
23 7 0.12
24 15 0.27
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTATTATTATTATTATTAC
Found at i:104534636 original size:32 final size:32
Alignment explanation
Indices: 104534600--104534663 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
104534590 AGTATATTCA
104534600 AACATTTTTAAATGGGATCGTATTCTAATATC
1 AACATTTTTAAATGGGATCGTATTCTAATATC
104534632 AACATTTTTAAATGGGATCGTATTCTAATATC
1 AACATTTTTAAATGGGATCGTATTCTAATATC
104534664 TTTTCAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (32 bp):
AACATTTTTAAATGGGATCGTATTCTAATATC
Found at i:104538847 original size:4 final size:4
Alignment explanation
Indices: 104538829--104538873 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
104538819 TTATACTTTC
*
104538829 ATTT ATAT ATATT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
104538874 TCAAACGTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 35 0.92
5 3 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:104543696 original size:13 final size:13
Alignment explanation
Indices: 104543678--104543720 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
104543668 TAGATTTTTC
104543678 CTAAATATTATCA
1 CTAAATATTATCA
104543691 CTAAATA--ATC-
1 CTAAATATTATCA
104543701 CTAAATATTATCA
1 CTAAATATTATCA
104543714 CTAAATA
1 CTAAATA
104543721 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:104543729 original size:23 final size:23
Alignment explanation
Indices: 104543676--104543722 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
104543666 GCTAGATTTT
104543676 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104543699 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
104543722 T
1 T
104543723 TTAAAATTTA
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:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:104548424 original size:31 final size:31
Alignment explanation
Indices: 104548388--104548450 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
104548378 AGCCACAATG
104548388 ACATTTCTAGAGTTGGAACACTTGTTAAAGA
1 ACATTTCTAGAGTTGGAACACTTGTTAAAGA
104548419 ACATTTCTAGAGTTGGAACACTTGTTAAAGA
1 ACATTTCTAGAGTTGGAACACTTGTTAAAGA
104548450 A
1 A
104548451 GCTCAACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (31 bp):
ACATTTCTAGAGTTGGAACACTTGTTAAAGA
Found at i:104550136 original size:48 final size:47
Alignment explanation
Indices: 104550072--104550183 Score: 145
Period size: 48 Copynumber: 2.3 Consensus size: 47
104550062 AGTGATAATT
*
104550072 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATTTTATTAATTTATGC-AATTATAA
* * *
104550120 TTAAATTTGCAATACTATTTGATATTTTATTCATTTTTGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
104550168 TTACAATTTCAATACT
1 TTA-AATTTCAATACT
104550184 GCTTGGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 7 0.12
48 45 0.79
49 5 0.09
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:104550233 original size:23 final size:23
Alignment explanation
Indices: 104550199--104550242 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
104550189 GTTTTTTTCG
*
104550199 TTTATGATATTTGCATTAATTAA
1 TTTATGATATTTGAATTAATTAA
*
104550222 TTTATGCA-ATTTTAATTAATT
1 TTTATG-ATATTTGAATTAATT
104550243 TTTGTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (23 bp):
TTTATGATATTTGAATTAATTAA
Found at i:104551817 original size:18 final size:18
Alignment explanation
Indices: 104551794--104551836 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
104551784 TGTCAGGTGC
*
104551794 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
104551812 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
104551830 GTTTCCT
1 GTATCCT
104551837 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:104555547 original size:126 final size:126
Alignment explanation
Indices: 104555320--104555661 Score: 542
Period size: 126 Copynumber: 2.7 Consensus size: 126
104555310 TTATAGCCTA
* * * * * * * *
104555320 ATTTTTTTACAAACTACTGTAGCAAAAGAGGGTCCACGTCGGAGTTTTTTCCAAAAATTTTACTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* *
104555385 ACAGTGCATCCTGCTTGAAGCGTTTTCGACATTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTCCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
104555446 ATTTTTCTACGAACCACTGTAGCAAAAGTA-CGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAG-AGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCT
104555510 GACAGTGCATCCTGCTTGAAGCGTTTCCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTCCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
104555572 ATTTTTCTACGAACTACTATAGTAAAAGAGCGTCCATGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
104555637 ACAGTGCATCCTGCTTGAAGCGTTT
66 ACAGTGCATCCTGCTTGAAGCGTTT
104555662 TTTCTAATAC
Statistics
Matches: 199, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 1 0.01
126 197 0.99
127 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTCCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:104557148 original size:132 final size:132
Alignment explanation
Indices: 104556987--104557256 Score: 477
Period size: 132 Copynumber: 2.0 Consensus size: 132
104556977 ATTATTTGGA
104556987 ACAACTTGTATTTAGAACAATTGTGTTTTTTTGAAAGAGTCATCATTCAGAACAAGCTTTGTAAA
1 ACAACTTGTATTTAGAACAATTGTGTTTTTTTGAAAGAGTCATCATTCAGAACAAGCTTTGTAAA
*
104557052 TAAAAGTATCACCACTGAACAACTCTTATTCAGAACAACCTTTACATTGAAAACAACTCTATCGA
66 TAAAAGTATCACCACTGAACAACTCTTATTCAGAACAACCTATACATTGAAAACAACTCTATCGA
104557117 GG
131 GG
* * *
104557119 ACAACTTGTATTTAGAACAATTGTGTTTTTTTGAAAGAGTCATTATTTAGAACAAGCTTTGTCAA
1 ACAACTTGTATTTAGAACAATTGTGTTTTTTTGAAAGAGTCATCATTCAGAACAAGCTTTGTAAA
* * *
104557184 TAAAAGTATCACCATTGAACAACTCTTATTCAGAACAACCTATACATTGAAAACAACTCTGTTGA
66 TAAAAGTATCACCACTGAACAACTCTTATTCAGAACAACCTATACATTGAAAACAACTCTATCGA
104557249 GG
131 GG
104557251 ACAACT
1 ACAACT
104557257 CACATTTGGA
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (132 bp):
ACAACTTGTATTTAGAACAATTGTGTTTTTTTGAAAGAGTCATCATTCAGAACAAGCTTTGTAAA
TAAAAGTATCACCACTGAACAACTCTTATTCAGAACAACCTATACATTGAAAACAACTCTATCGA
GG
Found at i:104559873 original size:17 final size:17
Alignment explanation
Indices: 104559851--104559886 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
104559841 TATTTTATGT
104559851 TATAAAGTAAT-ATAATA
1 TATAAA-TAATAATAATA
104559868 TATAAATAATAATAATA
1 TATAAATAATAATAATA
104559885 TA
1 TA
104559887 ATATATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TATAAATAATAATAATA
Found at i:104559878 original size:11 final size:12
Alignment explanation
Indices: 104559858--104559910 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 12
104559848 TGTTATAAAG
104559858 TAATATAATATA
1 TAATATAATATA
104559870 TAA-ATAATA-A
1 TAATATAATATA
104559880 TAATATAATATA
1 TAATATAATATA
* *
104559892 TTATAAAAT-TA
1 TAATATAATATA
*
104559903 GAATATAA
1 TAATATAA
104559911 ACACCTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 4 0.12
11 19 0.56
12 11 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
TAATATAATATA
Found at i:104565224 original size:21 final size:21
Alignment explanation
Indices: 104565200--104565242 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
104565190 TGATAGGATT
*
104565200 TCTAGTATTATTAATAAACTC
1 TCTAGTAATATTAATAAACTC
104565221 TCTAGTAATATTAATAAACTC
1 TCTAGTAATATTAATAAACTC
104565242 T
1 T
104565243 TTGACTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TCTAGTAATATTAATAAACTC
Found at i:104565896 original size:50 final size:50
Alignment explanation
Indices: 104565836--104565947 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
104565826 TTCCATTTAC
* *
104565836 AATATGATATAATATAGTAAATGCAACATCCAAATTATGGGTGTAGGAAA
1 AATATTATATAATATAGTAAATGCAACATCCAAATTACGGGTGTAGGAAA
* *
104565886 AATATTATATAGTATAGTAAATGCAACATCCAAATTGCGGGTGTAGGAAA
1 AATATTATATAATATAGTAAATGCAACATCCAAATTACGGGTGTAGGAAA
104565936 AATATTATATAA
1 AATATTATATAA
104565948 AAAGAAATCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (50 bp):
AATATTATATAATATAGTAAATGCAACATCCAAATTACGGGTGTAGGAAA
Found at i:104566120 original size:19 final size:20
Alignment explanation
Indices: 104566096--104566141 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
104566086 AAATCATAAA
*
104566096 TATTTTT-ATAATAATTTTT
1 TATTTTTAAAAATAATTTTT
104566115 TATTTTTAAAAATAATTTTT
1 TATTTTTAAAAATAATTTTT
*
104566135 AATTTTT
1 TATTTTT
104566142 GGCTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAAATAATTTTT
Found at i:104566245 original size:13 final size:13
Alignment explanation
Indices: 104566229--104566253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104566219 TAATATAGGT
104566229 ATAGAATAAATAG
1 ATAGAATAAATAG
104566242 ATAGAATAAATA
1 ATAGAATAAATA
104566254 TTATTATAAT
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATAGAATAAATAG
Found at i:104568236 original size:60 final size:60
Alignment explanation
Indices: 104568129--104568241 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
104568119 GCCAAGAAAC
* ** **
104568129 CTAAAAACCAAAAAGTCCTCTTCTTTTTAGTAACCAAATCGAAAACCCAAAACAAAAAAA
1 CTAAAAACCAAAAACTCCTCTTCTAATTAGTAACCAAATAAAAAACCCAAAACAAAAAAA
* *
104568189 CTAAAATACCAAAAACTCCTCTTCTAATT-GTAGCCAAATAAAAAACCCTAAAC
1 CTAAAA-ACCAAAAACTCCTCTTCTAATTAGTAACCAAATAAAAAACCCAAAAC
104568242 CAACTTCTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 26 0.58
61 19 0.42
ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21
Consensus pattern (60 bp):
CTAAAAACCAAAAACTCCTCTTCTAATTAGTAACCAAATAAAAAACCCAAAACAAAAAAA
Found at i:104568336 original size:27 final size:27
Alignment explanation
Indices: 104568224--104568357 Score: 88
Period size: 27 Copynumber: 4.8 Consensus size: 27
104568214 AATTGTAGCC
* *
104568224 AAATAAAAAACCCTAAACCAACTTCTCGCA
1 AAAT-AAAAACCCTAAACCAA-ATC-CCCA
* *
104568254 AATTAAAAACCCTAAACTAAAATCCCCA
1 AAATAAAAACCCTAAAC-CAAATCCCCA
* * * ** **
104568282 AAACGAGAATCCCTAAATAAAAAACCCA
1 AAA-TAAAAACCCTAAACCAAATCCCCA
*
104568310 AAATAAAAACTCTAAACCAAATCCCCA
1 AAATAAAAACCCTAAACCAAATCCCCA
* **
104568337 AACTCTAAACCCTAAACCAAA
1 AAATAAAAACCCTAAACCAAA
104568358 ATTGAAATAA
Statistics
Matches: 79, Mismatches: 23, Indels: 7
0.72 0.21 0.06
Matches are distributed among these distances:
27 33 0.42
28 16 0.20
29 25 0.32
30 5 0.06
ACGTcount: A:0.54, C:0.29, G:0.02, T:0.15
Consensus pattern (27 bp):
AAATAAAAACCCTAAACCAAATCCCCA
Found at i:104573309 original size:46 final size:46
Alignment explanation
Indices: 104573239--104573512 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
104573229 TTTGACATGA
* * * * * *
104573239 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** * *
104573285 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104573331 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
104573377 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
104573423 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104573469 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104573513 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104582877 original size:21 final size:21
Alignment explanation
Indices: 104582853--104582929 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
104582843 GTTATAATGA
104582853 CCACACGGGCGTGTTGCCTTT
1 CCACACGGGCGTGTTGCCTTT
104582874 CCACACGGGCGTGTTGCCTTT
1 CCACACGGGCGTGTTGCCTTT
104582895 CCACACGGGCGTGTTGCCTTT
1 CCACACGGGCGTGTTGCCTTT
104582916 CCACACGGGCGTGT
1 CCACACGGGCGTGT
104582930 GCCCTATTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.10, C:0.34, G:0.30, T:0.26
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCTTT
Found at i:104584227 original size:18 final size:18
Alignment explanation
Indices: 104584206--104584241 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104584196 TTTTAAAAAA
* *
104584206 TTTAGTTTTTAATTATTT
1 TTTAATTTTTAAATATTT
104584224 TTTAATTTTTAAATATTT
1 TTTAATTTTTAAATATTT
104584242 AATAATTGAG
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:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTAATTTTTAAATATTT
Found at i:104584734 original size:156 final size:155
Alignment explanation
Indices: 104584441--104585292 Score: 1141
Period size: 156 Copynumber: 5.5 Consensus size: 155
104584431 GCTAACCTGG
* * *
104584441 AAAAATAAAATGATGCGATGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATACATCTTCA
1 AAAAATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTCA
* *
104584506 GTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTAGAACA-AGCAGAAAAAGAAACTAA
66 GTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTA-AAAAGAGCAAAAAAAGAAACTAA
* *
104584570 ACTGTTCCACCCCAGAAAATGAAGGA
130 CCTGTTCCAGCCCAGAAAATGAAGGA
* * *
104584596 AAAATATAAAATAATGCGCTGAGCGTGGATCGAACACGCGAACTTCAGATTACAGATACATCTTC
1 AAAA-ATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTC
* * *
104584661 AGTCTGACGCTCTCCCAACTGAGCTATCCCCACTTGACTTTAAAAAGAGCAGAAAAAGAAACTAA
65 AGTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTAAAAAGAGCAAAAAAAGAAACTAA
* **
104584726 CCTATTCCAATCCAGAAAATGAAGGA
130 CCTGTTCCAGCCCAGAAAATGAAGGA
* *
104584752 AAAATATAAAATAATGCGGTGAGCGAGGATCGAACACGCGACCTTCAGATTACAGGTATATCTTC
1 AAAA-ATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTC
* * *
104584817 AGTCTGACGCTCTCCCAACTGAGCTATCCCCACTTGTGATTT-AATAGAGCCAAAAAAAG-AACT
65 AGTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAG-TTTAAAAAGAG-CAAAAAAAGAAACT
104584880 AACCTGTTCCAGCCCA-AAATATGAAGGA
128 AACCTGTTCCAGCCCAGAAA-ATGAAGGA
104584908 AAAAATTGAAAAT--TGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTT
1 AAAAA-T-AAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTT
* * ** * *
104584971 CAGTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGTGTTTTAAAATTGCAAAAAAAGGAGCTA
64 CAGTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTAAAAAGAGCAAAAAAAGAAACTA
*
104585036 ACCTGTTGCAGCCCA-AAATATGAAGGA
129 ACCTGTTCCAGCCCAGAAA-ATGAAGGA
* * * *
104585063 AAAATTAAAA-ATTGCGGTGAGCGTGGATCG-ACACGCGACCTTGAGATGACAGATATATCTTCA
1 AAAAATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTCA
** * * *
104585126 GTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTTGAAAGAGCAAAAAACGCAGCTAAC
66 GTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTAAAAAGAGCAAAAAAAGAAACTAAC
* * *
104585191 CTGTGCCGGCCAAGAAAATGAAGG-
131 CTGTTCCAGCCCAGAAAATGAAGGA
* * * *
104585215 AAAAA-AAGATGATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATAACTTAA
1 AAAAATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTCA
*
104585279 GCCTGACGCTCTCC
66 GTCTGACGCTCTCC
104585293 GTTTTAATTT
Statistics
Matches: 631, Mismatches: 52, Indels: 30
0.88 0.07 0.04
Matches are distributed among these distances:
151 3 0.00
152 22 0.03
153 152 0.24
154 34 0.05
155 135 0.21
156 269 0.43
157 16 0.03
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (155 bp):
AAAAATAAAATAATGCGGTGAGCGTGGATCGAACACGCGACCTTCAGATTACAGATATATCTTCA
GTCTGACGCTCTCCCAACTGAGCTATCCCCGCTTGAGTTTAAAAAGAGCAAAAAAAGAAACTAAC
CTGTTCCAGCCCAGAAAATGAAGGA
Found at i:104589374 original size:8 final size:8
Alignment explanation
Indices: 104589353--104589382 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
104589343 ATTGTCTTTT
104589353 TTTTTTAC
1 TTTTTTAC
104589361 TATTTTTAC
1 T-TTTTTAC
104589370 TTTTTTAC
1 TTTTTTAC
104589378 TTTTT
1 TTTTT
104589383 CTTTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAC
Found at i:104589751 original size:23 final size:24
Alignment explanation
Indices: 104589721--104589768 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
104589711 GAGTTATTTA
104589721 AGTTTAAATTATAAAATTTA-TTG
1 AGTTTAAATTATAAAATTTACTTG
104589744 AGTTTAAATTATAAAATTTACTTG
1 AGTTTAAATTATAAAATTTACTTG
104589768 A
1 A
104589769 TATATTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (24 bp):
AGTTTAAATTATAAAATTTACTTG
Found at i:104591866 original size:2 final size:2
Alignment explanation
Indices: 104591861--104591885 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104591851 CCACACAAAC
104591861 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 A
104591886 AACTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104593515 original size:24 final size:24
Alignment explanation
Indices: 104593494--104593545 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
104593484 AATCAATGTC
*
104593494 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
104593518 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATGCT
104593542 AAAT
1 AAAT
104593546 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:104598911 original size:18 final size:18
Alignment explanation
Indices: 104598885--104598919 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104598875 TTAGTAGATG
104598885 TTAAAAAAAACAAAAAAA
1 TTAAAAAAAACAAAAAAA
*
104598903 TTAATAAAAACAAAAAA
1 TTAAAAAAAACAAAAAA
104598920 GGTTAAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (18 bp):
TTAAAAAAAACAAAAAAA
Found at i:104598925 original size:19 final size:18
Alignment explanation
Indices: 104598884--104598926 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
104598874 ATTAGTAGAT
104598884 GTTAAAAAAAACAAAAAA
1 GTTAAAAAAAACAAAAAA
* *
104598902 ATTAATAAAAACAAAAAA
1 GTTAAAAAAAACAAAAAA
104598920 GGTTAAA
1 -GTTAAA
104598927 GGGTACAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.16
Consensus pattern (18 bp):
GTTAAAAAAAACAAAAAA
Found at i:104600524 original size:46 final size:46
Alignment explanation
Indices: 104600459--104600686 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
104600449 TTATCTTCGA
* * * *
104600459 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
**
104600505 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
104600551 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
104600597 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
104600643 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
104600687 TTCAGAGAGC
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 166 0.98
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:104602840 original size:11 final size:11
Alignment explanation
Indices: 104602824--104602876 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
104602814 TATACTAAAT
104602824 AAATAATAATA
1 AAATAATAATA
104602835 AAATAATAAT-
1 AAATAATAATA
* *
104602845 AAATATCTCATTA
1 AAATA-AT-AATA
*
104602858 AAATATTAATA
1 AAATAATAATA
104602869 AAATAATA
1 AAATAATA
104602877 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 3 0.09
13 5 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATAATAATA
Found at i:104602883 original size:31 final size:33
Alignment explanation
Indices: 104602824--104602889 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
104602814 TATACTAAAT
*
104602824 AAATAATAATAAAATAATAATAAATATCTCATTA
1 AAATAATAATAAAATAATAAT-AATATCTAATTA
* *
104602858 AAATATTAATAAAATAAT-AT-TTATCTAATTA
1 AAATAATAATAAAATAATAATAATATCTAATTA
104602889 A
1 A
104602890 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
33 2 0.07
34 17 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (33 bp):
AAATAATAATAAAATAATAATAATATCTAATTA
Done.