Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 335 of 352
Found at i:107470975 original size:17 final size:17
Alignment explanation
Indices: 107470937--107470975 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
107470927 TAAGTAGTCA
107470937 TAATTTGTCAAATATTT
1 TAATTTGTCAAATATTT
* * *
107470954 AAATTTGTTAAATTTTT
1 TAATTTGTCAAATATTT
107470971 TAATT
1 TAATT
107470976 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (17 bp):
TAATTTGTCAAATATTT
Found at i:107470988 original size:14 final size:14
Alignment explanation
Indices: 107470965--107470999 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
107470955 AATTTGTTAA
107470965 ATTTTT-TAATTAT
1 ATTTTTATAATTAT
107470978 ATTTTTATAATTAT
1 ATTTTTATAATTAT
107470992 ATGTTTTA
1 AT-TTTTA
107471000 GGTTTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
ATTTTTATAATTAT
Found at i:107475375 original size:19 final size:19
Alignment explanation
Indices: 107475334--107475375 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
107475324 AAAAAAACCT
*
107475334 TAAAATTTTGAAAGAAATT
1 TAAAATTTTGAAAGAAATA
*
107475353 TAAAATTTGTTAAA-AAATA
1 TAAAATTT-TGAAAGAAATA
107475372 TAAA
1 TAAA
107475376 TATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAAAATTTTGAAAGAAATA
Found at i:107475501 original size:29 final size:27
Alignment explanation
Indices: 107475452--107475510 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
107475442 TTAAAAATTC
* * *
107475452 AAAAATTCCAAAAAATTAAATATGTTT
1 AAAAAATCCAAAAAAATAAATATGGTT
*
107475479 AAAAAATCCAGAAATAAATAAATTTGGTT
1 AAAAAATCCA-AAA-AAATAAATATGGTT
107475508 AAA
1 AAA
107475511 TTTTTAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 9 0.35
28 3 0.12
29 14 0.54
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAAAATCCAAAAAAATAAATATGGTT
Found at i:107484178 original size:21 final size:21
Alignment explanation
Indices: 107484152--107484192 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107484142 ATCTGCTCAA
* *
107484152 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
107484173 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
107484193 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:107487658 original size:72 final size:72
Alignment explanation
Indices: 107487486--107487650 Score: 240
Period size: 72 Copynumber: 2.3 Consensus size: 72
107487476 GAGGAAAAGT
** * * ** *
107487486 ACCGTTTAATTGATTTTCTGAAACATCAAAGTATTTCAAAGATGATAACTCCCCTATCGATGATG
1 ACCGTTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
107487551 GAATTTG
66 GAATTTG
* *
107487558 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTTCCCTATAGACAACG
1 ACCGTTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
107487623 GAATTTG
66 GAATTTG
*
107487630 ACTGTTTAATTGATTTTCTGA
1 ACCGTTTAATTGATTTTCTGA
107487651 GAGATCAAGG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 82 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (72 bp):
ACCGTTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
GAATTTG
Found at i:107496794 original size:22 final size:21
Alignment explanation
Indices: 107496766--107496812 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
107496756 TCAATAATTA
107496766 TTTTAAGACTGCATTACTCAC
1 TTTTAAGACTGCATTACTCAC
* *
107496787 GTTTTAAGAGTGCATTATTCAC
1 -TTTTAAGACTGCATTACTCAC
107496809 TTTT
1 TTTT
107496813 GGGCCGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (21 bp):
TTTTAAGACTGCATTACTCAC
Found at i:107498396 original size:18 final size:18
Alignment explanation
Indices: 107498373--107498410 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
107498363 ACAAGAAAAC
*
107498373 AAAGAGGGAAAAAACAAA
1 AAAGAGGCAAAAAACAAA
*
107498391 AAAGAGGCAGAAAACAAA
1 AAAGAGGCAAAAAACAAA
107498409 AA
1 AA
107498411 CAAAAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAGGCAAAAAACAAA
Found at i:107498440 original size:15 final size:15
Alignment explanation
Indices: 107498402--107498444 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
107498392 AAGAGGCAGA
* *
107498402 AAACAAA-AACAAAA
1 AAACAAAGAAGAAAC
107498416 AAACAAAGAAGAAAC
1 AAACAAAGAAGAAAC
*
107498431 AAACAGAGAAGAAA
1 AAACAAAGAAGAAA
107498445 ATAGAACGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.77, C:0.12, G:0.12, T:0.00
Consensus pattern (15 bp):
AAACAAAGAAGAAAC
Found at i:107498611 original size:17 final size:16
Alignment explanation
Indices: 107498589--107498622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
107498579 TTCTTCTTTT
107498589 TTTTATATATTTTTATC
1 TTTTAT-TATTTTTATC
*
107498606 TTTTATTTTTTTTATC
1 TTTTATTATTTTTATC
107498622 T
1 T
107498623 CTTCTAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTATTTTTATC
Found at i:107500615 original size:18 final size:16
Alignment explanation
Indices: 107500574--107500619 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
107500564 TCAAGATACA
*
107500574 AGAAAACAAAGAAGGG
1 AGAAAACAAAAAAGGG
*
107500590 AAAAAACAAAAAAGAGG
1 AGAAAACAAAAAAG-GG
107500607 CAGAAAACAAAAA
1 -AGAAAACAAAAA
107500620 CAAAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 11 0.44
ACGTcount: A:0.72, C:0.09, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAACAAAAAAGGG
Found at i:107500763 original size:11 final size:12
Alignment explanation
Indices: 107500732--107500764 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
107500722 AGTAATCAAA
107500732 AAGCAAAAAGAG
1 AAGCAAAAAGAG
107500744 AAGCAAAAAGAG
1 AAGCAAAAAGAG
*
107500756 AAGTAAAAA
1 AAGCAAAAA
107500765 AGGTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.21, T:0.03
Consensus pattern (12 bp):
AAGCAAAAAGAG
Found at i:107501706 original size:25 final size:24
Alignment explanation
Indices: 107501654--107501707 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
107501644 GTTATATATT
* * * *
107501654 TATTTTTAATTATTTTATATTGTT
1 TATTTTTAATTATTGTACATTATA
107501678 TATTTTTAAGTTATTGTACATTATA
1 TATTTTTAA-TTATTGTACATTATA
107501703 TATTT
1 TATTT
107501708 CAAACAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTTTAATTATTGTACATTATA
Found at i:107501817 original size:29 final size:32
Alignment explanation
Indices: 107501751--107501817 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
107501741 TTATTATAAA
*
107501751 ATATATTTATATTGTCTTTTTTTAATTCTTTT
1 ATATATTTATATTGTCTTTTTTTAATACTTTT
*
107501783 ACATATTT-TA-TGT-TTTTTTTAA-ACTTGTT
1 ATATATTTATATTGTCTTTTTTTAATACTT-TT
107501812 ATATAT
1 ATATAT
107501818 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 16 0.52
30 3 0.10
31 2 0.06
32 7 0.23
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.64
Consensus pattern (32 bp):
ATATATTTATATTGTCTTTTTTTAATACTTTT
Found at i:107501865 original size:25 final size:25
Alignment explanation
Indices: 107501832--107501879 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
107501822 TTAAATTAAC
107501832 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
107501857 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
107501880 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:107514046 original size:24 final size:24
Alignment explanation
Indices: 107514019--107514066 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
107514009 AAAGAAAGAA
* *
107514019 CAAAGATTTTATGCTAATAAATAC
1 CAAAGATATTATACTAATAAATAC
* *
107514043 CAAATATATTGTACTAATAAATAC
1 CAAAGATATTATACTAATAAATAC
107514067 TAAATCTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (24 bp):
CAAAGATATTATACTAATAAATAC
Found at i:107522577 original size:29 final size:29
Alignment explanation
Indices: 107522532--107522595 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
107522522 TAAATAAAGG
107522532 AATATT-ATAATAATAATGACATAATTATAAT
1 AATATTAATAATAATAAT--CAT-ATTATAAT
* *
107522563 AATATTAATATTAATAATCATATTATAGT
1 AATATTAATAATAATAATCATATTATAAT
107522592 AATA
1 AATA
107522596 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.37
30 3 0.10
31 6 0.20
32 10 0.33
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AATATTAATAATAATAATCATATTATAAT
Found at i:107522812 original size:15 final size:15
Alignment explanation
Indices: 107522792--107522826 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
107522782 TTAAGGATGT
107522792 ATAAAAAATAAAGAG
1 ATAAAAAATAAAGAG
*
107522807 ATAAAAAATAAATAG
1 ATAAAAAATAAAGAG
107522822 ATAAA
1 ATAAA
107522827 TAGATAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (15 bp):
ATAAAAAATAAAGAG
Found at i:107522839 original size:23 final size:21
Alignment explanation
Indices: 107522798--107522848 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
107522788 ATGTATAAAA
107522798 AATAAAGAGATAAAAAATAAAT
1 AATAAAGAGATAAAAAAT-AAT
* **
107522820 AGATAAATAGATAAGTAATAAT
1 A-ATAAAGAGATAAAAAATAAT
107522842 AATAAAG
1 AATAAAG
107522849 GTACAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (21 bp):
AATAAAGAGATAAAAAATAAT
Found at i:107522941 original size:4 final size:4
Alignment explanation
Indices: 107522932--107523092 Score: 60
Period size: 4 Copynumber: 39.5 Consensus size: 4
107522922 ATGAAGGAAT
* ** * * *
107522932 AATA AATA AATG AATA CAAGG ATTA AAATA AA-A AATA AATA AATA AGTG
1 AATA AATA AATA AATA -AATA AATA AA-TA AATA AATA AATA AATA AATA
* * * * * * *
107522981 AAT- AATA TATA AATA GATA AGTA TATG AGTA AATA AATG AATA ACATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA
* * * * *
107523029 AA-A GGAAT- AATG AATA AATA AATA AGTG AATA AGTA AATA AATG AATAA
1 AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
*
107523078 AATA ATTAA AATA AA
1 AATA AAT-A AATA AA
107523093 AAGGACTTAA
Statistics
Matches: 110, Mismatches: 36, Indels: 22
0.65 0.21 0.13
Matches are distributed among these distances:
3 10 0.09
4 82 0.75
5 18 0.16
ACGTcount: A:0.63, C:0.01, G:0.11, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:107523046 original size:53 final size:53
Alignment explanation
Indices: 107522980--107523082 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 53
107522970 ATAAATAAGT
* * *
107522980 GAATAATATATAAATAGATAAGT-ATATGAGTAAATAAATGAATAACATAAAAG
1 GAATAATATATAAATAAATAAGTGA-ATAAGTAAATAAATGAATAAAATAAAAG
107523033 GAATAATGA-ATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAA
1 GAATAAT-ATATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAA
107523083 TTAAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 43 0.96
54 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (53 bp):
GAATAATATATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAAAAG
Found at i:107523058 original size:16 final size:15
Alignment explanation
Indices: 107522965--107523078 Score: 67
Period size: 16 Copynumber: 7.4 Consensus size: 15
107522955 TAAAATAAAA
107522965 AATAAATAAATAAGTG
1 AATAAATAAATAA-TG
*
107522981 AAT-AAT--AT-ATA
1 AATAAATAAATAATG
* *
107522992 AATAGATAAGTATATG
1 AATAAATAAATA-ATG
* *
107523008 AGTAAATAAATGAATA
1 AATAAATAAAT-AATG
107523024 ACATAAA-AGGAATAATG
1 A-ATAAATA--AATAATG
107523041 AATAAATAAATAAGTG
1 AATAAATAAATAA-TG
*
107523057 AATAAGTAAATAAATG
1 AATAAATAAAT-AATG
107523073 AATAAA
1 AATAAA
107523079 ATAATTAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
11 4 0.05
12 3 0.04
13 2 0.03
14 1 0.01
15 8 0.11
16 41 0.55
17 12 0.16
18 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAAATAAATAATG
Found at i:107526684 original size:32 final size:32
Alignment explanation
Indices: 107526615--107526694 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
107526605 AAAAGAAAAT
* * *
107526615 ATAATAATACTGATAACAATAGTAATACAATA
1 ATAATAATAATGATAACAAAAGTAAAACAATA
* *
107526647 GTAATAATAATGATAACAAAAGTAGAAATAA-A
1 ATAATAATAATGATAACAAAAGTA-AAACAATA
*
107526679 ATAATAATAATAATAA
1 ATAATAATAATGATAA
107526695 ATAATAACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 36 0.90
33 4 0.10
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.26
Consensus pattern (32 bp):
ATAATAATAATGATAACAAAAGTAAAACAATA
Found at i:107526687 original size:35 final size:32
Alignment explanation
Indices: 107526610--107526692 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 32
107526600 TGCAGAAAAG
* *
107526610 AAAAT-ATAATAATACTGATAACAATAGTAAT
1 AAAATAATAATAATAATGATAACAATAGAAAT
* *
107526641 ACAATAGTAATAATAATGATAACAAAAGTAGAAAT
1 AAAATAATAATAATAATGATAAC--AA-TAGAAAT
107526676 AAAATAATAATAATAAT
1 AAAATAATAATAATAAT
107526693 AAATAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
31 4 0.10
32 15 0.36
34 2 0.05
35 21 0.50
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (32 bp):
AAAATAATAATAATAATGATAACAATAGAAAT
Found at i:107533723 original size:76 final size:76
Alignment explanation
Indices: 107533597--107533748 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
107533587 TTGTCTTAGT
*
107533597 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATGAAGCAAGATATAATAGTTATC
1 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
107533662 ATTAGATAAAA
66 ATTAGATAAAA
107533673 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
1 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
107533738 ATTAGATAAAA
66 ATTAGATAAAA
107533749 TAAGATCGAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (76 bp):
GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
ATTAGATAAAA
Found at i:107536172 original size:26 final size:24
Alignment explanation
Indices: 107536127--107536174 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
107536117 TATAATTAAT
*
107536127 TATTTAAACACATTTAATATTTTA
1 TATTTAAAAACATTTAATATTTTA
107536151 TATTTAATAAACATCTTAATATTT
1 TATTTAA-AAACAT-TTAATATTT
107536175 AAGATTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 5 0.24
26 9 0.43
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTAAAAACATTTAATATTTTA
Found at i:107536624 original size:141 final size:141
Alignment explanation
Indices: 107536370--107536655 Score: 500
Period size: 141 Copynumber: 2.0 Consensus size: 141
107536360 TTGCTTCGTG
* * *
107536370 TTGGACAGTATGGCTAGCTTGAAACGAGAAGGTGTTTGAAAGGTCGGTGGCTACAATTGATTCTT
1 TTGGACAATATGGCTAGCTTGAAACGAGAAGGTGTTTAAAAGGTCAGTGGCTACAATTGATTCTT
* *
107536435 TAATCTTTCAATAAAAAATCAGATCGTTGATGTGCGCTAGATCGGTACATGATGATTGTATATTT
66 TAATCTTTCAATAAAAAATCAGATCATTGATGTGCGCTAGATCGGTACATGATGATTCTATATTT
107536500 TCGGAGGTTGA
131 TCGGAGGTTGA
*
107536511 TTGGACAATATGGCTAGCTTGAAACGAGAAGGTGTTTAAAAGGTCAGTGGCTGCAATTGATTCTT
1 TTGGACAATATGGCTAGCTTGAAACGAGAAGGTGTTTAAAAGGTCAGTGGCTACAATTGATTCTT
* *
107536576 TAATCTTTCAATAAAAAATGAGATCATTGATGTGGGCTAGATCGGTACATGATGATTCTATATTT
66 TAATCTTTCAATAAAAAATCAGATCATTGATGTGCGCTAGATCGGTACATGATGATTCTATATTT
107536641 TCGGAGGTTGA
131 TCGGAGGTTGA
107536652 TTGG
1 TTGG
107536656 CGGGGATGGC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 137 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (141 bp):
TTGGACAATATGGCTAGCTTGAAACGAGAAGGTGTTTAAAAGGTCAGTGGCTACAATTGATTCTT
TAATCTTTCAATAAAAAATCAGATCATTGATGTGCGCTAGATCGGTACATGATGATTCTATATTT
TCGGAGGTTGA
Found at i:107539064 original size:25 final size:24
Alignment explanation
Indices: 107539021--107539069 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
107539011 TGTCAACAAT
* *
107539021 AATTTTTTATTTTATATATTTTTA
1 AATTTATTATTTTATATATATTTA
107539045 AATTTATTATTTTTATATATATTTA
1 AATTTATTA-TTTTATATATATTTA
107539070 TTGGATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
AATTTATTATTTTATATATATTTA
Found at i:107539067 original size:15 final size:15
Alignment explanation
Indices: 107539024--107539067 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
107539014 CAACAATAAT
107539024 TTTTTAT-TTTATATA
1 TTTTTATATTTAT-TA
*
107539039 TTTTTAAATTTATTA
1 TTTTTATATTTATTA
*
107539054 TTTTTATATATATT
1 TTTTTATATTTATT
107539068 TATTGGATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATATTTATTA
Found at i:107547362 original size:14 final size:14
Alignment explanation
Indices: 107547343--107547370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107547333 AATAATGCAC
107547343 TCATTATTTAATTA
1 TCATTATTTAATTA
107547357 TCATTATTTAATTA
1 TCATTATTTAATTA
107547371 GATCAACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TCATTATTTAATTA
Found at i:107547517 original size:20 final size:21
Alignment explanation
Indices: 107547476--107547513 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 21
107547466 TGTTACTTTA
*
107547476 TTTTACAAAATAAATTCTATT
1 TTTTACAAAATAAATTATATT
107547497 TTTTA-AAAA-AAATTATA
1 TTTTACAAAATAAATTATA
107547514 ATTTAACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 4 0.25
21 5 0.31
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTACAAAATAAATTATATT
Found at i:107550295 original size:72 final size:72
Alignment explanation
Indices: 107550148--107550295 Score: 181
Period size: 72 Copynumber: 2.1 Consensus size: 72
107550138 GAGGAAAAGT
* * *
107550148 ACCATTTAATTGATTTTCTGAAACATCAAATAACTTCAAAGATGACAGCTCCTCTAGAGACCATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTAGAGACCATG
**
107550213 GAATTTG
66 GAATGGG
* * ** **
107550220 ACCATTTAATTGATTTTCTGAAATATCAAAGAATTTCAAAGATGATAAG-TCCCCTATCGATGAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGA-AAGCTCCCCTAGAGACCAT
107550284 GGAATGGG
65 GGAATGGG
107550292 ACCA
1 ACCA
107550296 GAAATTTTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 62 0.97
73 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTAGAGACCATG
GAATGGG
Found at i:107556918 original size:20 final size:20
Alignment explanation
Indices: 107556893--107556931 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
107556883 TCGTCCGTTA
107556893 TATTTCCTATTAGGTGATTC
1 TATTTCCTATTAGGTGATTC
107556913 TATTTCCTATTAGGTGATT
1 TATTTCCTATTAGGTGATT
107556932 TCTTGATTCA
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:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (20 bp):
TATTTCCTATTAGGTGATTC
Found at i:107559241 original size:39 final size:39
Alignment explanation
Indices: 107559179--107559318 Score: 219
Period size: 39 Copynumber: 3.6 Consensus size: 39
107559169 ATCGTGATCT
** * *
107559179 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
107559218 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
107559257 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
107559296 GAAGCCCGGAA-GCTAACTGAAGC
1 GAAGCCC-GAAGGCTAACTGAAGC
107559319 TCATCAGAGC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 92 0.98
40 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:107566663 original size:13 final size:14
Alignment explanation
Indices: 107566623--107566665 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
107566613 ACTAATGACA
107566623 AATTAAACCATTAT
1 AATTAAACCATTAT
107566637 AATTAAACCATTAT
1 AATTAAACCATTAT
107566651 AATTAAA-CATTAT
1 AATTAAACCATTAT
107566664 AA
1 AA
107566666 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:107568502 original size:27 final size:27
Alignment explanation
Indices: 107568472--107568525 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
107568462 GTTTTGTAAG
*
107568472 TTATAAAAGTTATGATATGATATATAT
1 TTATAAAAGTTATGATATAATATATAT
**
107568499 TTATGTAAGTTATGATATAATATATAT
1 TTATAAAAGTTATGATATAATATATAT
107568526 ATTTATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (27 bp):
TTATAAAAGTTATGATATAATATATAT
Found at i:107568533 original size:29 final size:27
Alignment explanation
Indices: 107568478--107568534 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 27
107568468 TAAGTTATAA
107568478 AAGTTATGATATGATATATATTTATGT
1 AAGTTATGATATGATATATATTTATGT
*
107568505 AAGTTATGATATAATATATATATTTATGT
1 AAGTTATGATAT--GATATATATTTATGT
107568534 A
1 A
107568535 TTATGTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 12 0.44
29 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (27 bp):
AAGTTATGATATGATATATATTTATGT
Found at i:107569038 original size:23 final size:21
Alignment explanation
Indices: 107568976--107569044 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
107568966 AAACCAAAAT
* *
107568976 ATTAAAATAATATTTAAGT-A
1 ATTAAAATAATATTAAATTAA
* **
107568996 ATTAAAATAATAATGCATTAA
1 ATTAAAATAATATTAAATTAA
107569017 ATGTAAAAATAATATTAAATT-A
1 AT-T-AAAATAATATTAAATTAA
107569039 ATTAAA
1 ATTAAA
107569045 TTTAAGTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 18 0.46
21 4 0.10
22 4 0.10
23 13 0.33
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (21 bp):
ATTAAAATAATATTAAATTAA
Found at i:107569258 original size:12 final size:14
Alignment explanation
Indices: 107569223--107569259 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
107569213 GTCTTGACTT
107569223 AATATTTTTAAGTA
1 AATATTTTTAAGTA
107569237 AATTATTTTTAA-TA
1 AA-TATTTTTAAGTA
107569251 AA-ATTTTTA
1 AATATTTTTA
107569260 TTATTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
AATATTTTTAAGTA
Found at i:107572209 original size:40 final size:40
Alignment explanation
Indices: 107572157--107572306 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
107572147 AATTAAACTT
* * * *
107572157 TTTA-CGGTGTTTTTGAAAAAGTGTCGCTAATTCTTGATC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTTGATC
* *
107572196 TTTAGCAGCGTTTTTCAAAAAGCGCCGCTAATACTTGATC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTTGATC
* * * * *
107572236 TTTAGTGGCATTTTTAAAAAAGCGCTGCTAACTT-TCGATC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAA-TTCTTGATC
*
107572276 TTTAGCGGTGTTTTTCAAAAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAA
107572307 GCCACTAGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 4 0.04
40 86 0.95
41 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATTCTTGATC
Found at i:107572683 original size:22 final size:21
Alignment explanation
Indices: 107572656--107572702 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
107572646 TTAACCCTTA
*
107572656 AAACCATAAACACTAAGATCCT
1 AAACCATAAACACTAA-ACCCT
*
107572678 AAACCATAAATACTAAACCCT
1 AAACCATAAACACTAAACCCT
107572699 AAAC
1 AAAC
107572703 AACAAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (21 bp):
AAACCATAAACACTAAACCCT
Found at i:107572788 original size:14 final size:14
Alignment explanation
Indices: 107572771--107572818 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
107572761 ACTTAACATA
107572771 CTAAATATTAAACC
1 CTAAATATTAAACC
* * *
107572785 CTAAACCATAAAACT
1 CTAAA-TATTAAACC
*
107572800 CTAAATCTTAAACC
1 CTAAATATTAAACC
107572814 CTAAA
1 CTAAA
107572819 CCTTAAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
CTAAATATTAAACC
Found at i:107572796 original size:21 final size:21
Alignment explanation
Indices: 107572772--107572848 Score: 57
Period size: 29 Copynumber: 3.3 Consensus size: 21
107572762 CTTAACATAC
107572772 TAAATATTAAACCCTAAACCA
1 TAAATATTAAACCCTAAACCA
*
107572793 TAAAACTCTAAATCTTAAACCCTAAACCT
1 T-AAA---T--AT-T-AAACCCTAAACCA
*
107572822 TAAATATTAAGCCCTAAACCA
1 TAAATATTAAACCCTAAACCA
107572843 -AAATAT
1 TAAATAT
107572849 AAATTTAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 17
0.69 0.05 0.26
Matches are distributed among these distances:
20 6 0.13
21 12 0.27
22 4 0.09
23 2 0.04
25 2 0.04
27 2 0.04
28 4 0.09
29 13 0.29
ACGTcount: A:0.49, C:0.23, G:0.01, T:0.26
Consensus pattern (21 bp):
TAAATATTAAACCCTAAACCA
Found at i:107572823 original size:14 final size:14
Alignment explanation
Indices: 107572778--107572825 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
107572768 ATACTAAATA
107572778 TTAAACCCTAAACC
1 TTAAACCCTAAACC
* * *
107572792 ATAAAACTCTAAATC
1 -TTAAACCCTAAACC
107572807 TTAAACCCTAAACC
1 TTAAACCCTAAACC
107572821 TTAAA
1 TTAAA
107572826 TATTAAGCCC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:107573256 original size:41 final size:40
Alignment explanation
Indices: 107573211--107573328 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 40
107573201 CTTTATGTAC
107573211 CGTTTGGAATAAAAACGCCGCTATTGAT-AGGTTTTTAGTGG
1 CGTTTGGAA-AAAAACGCCGCTATTGATCA-GTTTTTAGTGG
* * * *
107573252 CGTTTGTACCAAAAACGGCGCTATTGCTCAGTTTTTAGTGG
1 CGTTTGGA-AAAAAACGCCGCTATTGATCAGTTTTTAGTGG
* * * *
107573293 TGTTTGGACAAAAAAGGCCGCTATTGCTTAGTTTTT
1 CGTTTGGA-AAAAAACGCCGCTATTGATCAGTTTTT
107573329 TTGTAAATGC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 64 0.98
42 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (40 bp):
CGTTTGGAAAAAAACGCCGCTATTGATCAGTTTTTAGTGG
Found at i:107573758 original size:72 final size:72
Alignment explanation
Indices: 107573641--107573807 Score: 273
Period size: 72 Copynumber: 2.3 Consensus size: 72
107573631 AGGGGAAAGT
* * * * *
107573641 ACCATTCAATTGATTTTCTGAAACATCAAAGAACTTTAAAGATGATAACTCCCTTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAAATTCAAAGATGATAACTCCCCTATAGACAATG
107573706 GAATTTG
66 GAATTTG
107573713 ACCATTTAAATT-ATTTTCTGAAACATCAAACAAATTCAAAGATGATAACTCCCCTATAGACAAT
1 ACCATTT-AATTGATTTTCTGAAACATCAAACAAATTCAAAGATGATAACTCCCCTATAGACAAT
107573777 GGAATTTG
65 GGAATTTG
107573785 ACCATTTAATTGATTTTCTGAAA
1 ACCATTTAATTGATTTTCTGAAA
107573808 GTTCAAGGTG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 4 0.05
72 80 0.91
73 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.33
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAAATTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:107575373 original size:18 final size:17
Alignment explanation
Indices: 107575342--107575390 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
107575332 AAGAGTTTAC
*
107575342 TTTTTTATATTTTCTGGAA
1 TTTTTTATAATTTCT--AA
107575361 TTTTTTA-AATTTCTAA
1 TTTTTTATAATTTCTAA
107575377 TTTTTTATATATTT
1 TTTTTTATA-ATTT
107575391 TCTTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.33
17 1 0.04
18 10 0.37
19 7 0.26
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTTATAATTTCTAA
Found at i:107581763 original size:18 final size:18
Alignment explanation
Indices: 107581676--107581763 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 18
107581666 CCCAACTACT
* *
107581676 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
*
107581694 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
* * *
107581712 GTATACATAAATAGTATC
1 GTATACGTGAATAGTACC
107581730 GTATACGTG--T-GT--C
1 GTATACGTGAATAGTACC
*
107581743 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
107581761 GTA
1 GTA
107581764 AATGGTCGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
13 9 0.16
15 3 0.05
16 3 0.05
18 40 0.73
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:107582808 original size:6 final size:6
Alignment explanation
Indices: 107582793--107582829 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
107582783 AGTTTGAATG
107582793 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
107582830 GGATCAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:107584015 original size:9 final size:9
Alignment explanation
Indices: 107583991--107584025 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
107583981 AAATTGTCAT
107583991 ATTAAAAAA
1 ATTAAAAAA
107584000 ATGTAAAAAA
1 AT-TAAAAAA
*
107584010 ATTAAATAA
1 ATTAAAAAA
107584019 ATTAAAA
1 ATTAAAA
107584026 GACTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:107584097 original size:20 final size:19
Alignment explanation
Indices: 107584074--107584126 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
107584064 AAAATGTAGG
107584074 AATTATTTAAAAATTCAAAA
1 AATT-TTTAAAAATTCAAAA
* *
107584094 AATTTATAAGAAATTTAAAA
1 AATTTTTAA-AAATTCAAAA
*
107584114 AATTTTGAAAAAT
1 AATTTTTAAAAAT
107584127 ATAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AATTTTTAAAAATTCAAAA
Found at i:107584107 original size:11 final size:9
Alignment explanation
Indices: 107584078--107584134 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
107584068 TGTAGGAATT
107584078 ATTT-AAAA
1 ATTTAAAAA
*
107584086 ATTCAAAAA
1 ATTTAAAAA
107584095 ATTTATAAGAA
1 ATTTA-AA-AA
107584106 ATTTAAAAA
1 ATTTAAAAA
*
107584115 ATTTTGAAAA
1 A-TTTAAAAA
*
107584125 ATATAAAAA
1 ATTTAAAAA
107584134 A
1 A
107584135 AAACTATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
8 3 0.08
9 18 0.45
10 12 0.30
11 7 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:107593393 original size:18 final size:18
Alignment explanation
Indices: 107593370--107593406 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
107593360 AGATATTTAT
*
107593370 ATAAAATATAAAAAGAAA
1 ATAAAAAATAAAAAGAAA
*
107593388 ATAAAAAATAAAAATAAA
1 ATAAAAAATAAAAAGAAA
107593406 A
1 A
107593407 AATGTACCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
ATAAAAAATAAAAAGAAA
Found at i:107593408 original size:13 final size:13
Alignment explanation
Indices: 107593372--107593409 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
107593362 ATATTTATAT
*
107593372 AAAATATAAAAA-G
1 AAAATA-AAAAATA
107593385 AAAATAAAAAATA
1 AAAATAAAAAATA
107593398 AAAATAAAAAAT
1 AAAATAAAAAAT
107593410 GTACCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:107594141 original size:24 final size:24
Alignment explanation
Indices: 107594113--107594228 Score: 67
Period size: 24 Copynumber: 4.7 Consensus size: 24
107594103 TTCTTAACTT
107594113 TATATTATGTATATATTCTTTTAA
1 TATATTATGTATATATTCTTTTAA
* * *** *
107594137 TATATTAGGTATATTTTAAATT-C
1 TATATTATGTATATATTCTTTTAA
* *
107594160 TATATTACGTATATATATATTTTTATA
1 TATATTATGTATATAT-T-CTTTTA-A
* *
107594187 CTATATTATGTATACATTC-TTAAA
1 -TATATTATGTATATATTCTTTTAA
107594211 TATTATTA-GTTATATATT
1 TA-TATTATG-TATATATT
107594229 TTTATGTTAT
Statistics
Matches: 68, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
23 17 0.25
24 31 0.46
25 5 0.07
27 1 0.01
28 14 0.21
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (24 bp):
TATATTATGTATATATTCTTTTAA
Found at i:107594381 original size:17 final size:17
Alignment explanation
Indices: 107594354--107594408 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
107594344 TAAATACTAA
*
107594354 TACTATGTATATATGTT
1 TACTATATATATATGTT
*
107594371 TTCTATATATATATGTT
1 TACTATATATATATGTT
107594388 TACGTATATATA-ATG-T
1 TAC-TATATATATATGTT
107594404 TACTA
1 TACTA
107594409 ATTTTCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.06
16 4 0.12
17 20 0.59
18 8 0.24
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (17 bp):
TACTATATATATATGTT
Found at i:107594575 original size:24 final size:24
Alignment explanation
Indices: 107594543--107594621 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
107594533 CTTATATGTA
*
107594543 TATACTATGTAAATATTTTAATAT
1 TATATTATGTAAATATTTTAATAT
* *
107594567 TATATTATGTATACATTTT--TA-
1 TATATTATGTAAATATTTTAATAT
*
107594588 TATATTACGTATATATATCTTTTAATAT
1 TATATTATGTA-A-ATA--TTTTAATAT
107594616 TATATT
1 TATATT
107594622 TTATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
21 10 0.24
22 2 0.05
23 2 0.05
24 16 0.38
25 4 0.10
27 2 0.05
28 6 0.14
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (24 bp):
TATATTATGTAAATATTTTAATAT
Found at i:107594587 original size:62 final size:56
Alignment explanation
Indices: 107594520--107594659 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 56
107594510 TTAGTATTAT
* *
107594520 TTTTTAATCATTACTTATATGTATATACTATGTAAATATTTTAATATTA-TATTATGTATACA
1 TTTTTAAT-ATTACGTATA--TATAT-CT-T-TAAATATTAT-ATATTATTATTATGTATACA
* * *
107594582 TTTTTATATATTACGTATATATATCTTTTAATATTATATTTTATTATTATGTATATA
1 TTTTTA-ATATTACGTATATATATCTTTAAATATTATATATTATTATTATGTATACA
*
107594639 TTTTTAATACTACGTATATAT
1 TTTTTAATATTACGTATATAT
107594660 TTTAATACAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
56 19 0.27
57 26 0.37
58 1 0.01
59 2 0.03
60 5 0.07
62 15 0.21
63 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (56 bp):
TTTTTAATATTACGTATATATATCTTTAAATATTATATATTATTATTATGTATACA
Found at i:107594677 original size:22 final size:20
Alignment explanation
Indices: 107594616--107594683 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
107594606 CTTTTAATAT
* *
107594616 TATA-TTTTATTATTATGTA
1 TATATTTTTAATACTATGTA
*
107594635 TATATTTTTAATACTACGTA
1 TATATTTTTAATACTATGTA
107594655 TATA-TTTTAATACATATATGTA
1 TATATTTTTAATAC---TATGTA
107594677 TATATTT
1 TATATTT
107594684 ATATATCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 13 0.32
20 16 0.40
22 9 0.22
23 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
TATATTTTTAATACTATGTA
Found at i:107594931 original size:4 final size:4
Alignment explanation
Indices: 107594916--107594967 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
107594906 TTTTCCATGT
* * *
107594916 TTTA TTTA --TA TTTA TTTA TTTA CTTA TGTA TTTA TTTA TTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
107594962 TGTA TT
1 TTTA TT
107594968 CGATCATTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:107594949 original size:20 final size:20
Alignment explanation
Indices: 107594924--107594967 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
107594914 GTTTTATTTA
107594924 TATTTATTTATTTACTTATG
1 TATTTATTTATTTACTTATG
107594944 TATTTATTTATTTACTTATG
1 TATTTATTTATTTACTTATG
107594964 TATT
1 TATT
107594968 CGATCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTATTTATTTACTTATG
Found at i:107594976 original size:20 final size:20
Alignment explanation
Indices: 107594933--107594976 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
107594923 ATATTTATTT
* *
107594933 ATTTACTTATGTATTTATTT
1 ATTTACTTATGTATTGATTC
107594953 ATTTACTTATGTATTCGA-TC
1 ATTTACTTATGTATT-GATTC
107594973 ATTT
1 ATTT
107594977 CATTTTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (20 bp):
ATTTACTTATGTATTGATTC
Found at i:107602084 original size:8 final size:9
Alignment explanation
Indices: 107602050--107602083 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
107602040 CTTCAAAAAA
107602050 AAAAGAAATT
1 AAAA-AAATT
107602060 AAAAAAATT
1 AAAAAAATT
107602069 AAAAAAATT
1 AAAAAAATT
107602078 AAAAAA
1 AAAAAA
107602084 TATGTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAAAAATT
Found at i:107603459 original size:27 final size:27
Alignment explanation
Indices: 107603428--107603481 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
107603418 ACAAATTAGT
107603428 ACTGGTACTCGACCACTGAAACATATA
1 ACTGGTACTCGACCACTGAAACATATA
107603455 ACTGGTACTCGACCACTGAAACATATA
1 ACTGGTACTCGACCACTGAAACATATA
107603482 GCTATTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (27 bp):
ACTGGTACTCGACCACTGAAACATATA
Found at i:107611598 original size:35 final size:35
Alignment explanation
Indices: 107611518--107611598 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
107611508 TACTTTACAC
*
107611518 ATCTATATCTGTATCTGATATGGGCTTAGGCCCGA
1 ATCTATATCTGTATCTGATATGGGCTTAGGCCCAA
* ** *
107611553 ATATGCATCTGTGTCTG-TAATGGGCTTAGGCCCAA
1 ATCTATATCTGTATCTGAT-ATGGGCTTAGGCCCAA
107611588 ATCTATATCTG
1 ATCTATATCTG
107611599 ACTGATTCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.03
35 36 0.97
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (35 bp):
ATCTATATCTGTATCTGATATGGGCTTAGGCCCAA
Found at i:107615384 original size:17 final size:18
Alignment explanation
Indices: 107615355--107615390 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
107615345 TAAATTTAAT
107615355 TTTTATATTTAAATATGA
1 TTTTATATTTAAATATGA
107615373 TTTTAT-TTTAAATATGA
1 TTTTATATTTAAATATGA
107615390 T
1 T
107615391 AATAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTTATATTTAAATATGA
Found at i:107620999 original size:17 final size:17
Alignment explanation
Indices: 107620977--107621009 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
107620967 GAAATACATA
107620977 TAAATAATAATT-TTATT
1 TAAAT-ATAATTATTATT
107620994 TAAATATAATTATTAT
1 TAAATATAATTATTAT
107621010 AAATAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATATAATTATTATT
Found at i:107631309 original size:21 final size:21
Alignment explanation
Indices: 107631277--107631317 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
107631267 GAACAATTGG
107631277 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
107631298 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
107631318 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:107634448 original size:22 final size:21
Alignment explanation
Indices: 107634423--107634479 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
107634413 TTTTTTATGA
107634423 TTTTTATAAAATTTTACAATTT
1 TTTTTAT-AAATTTTACAATTT
***
107634445 TTTTTATGGTTTTTACAATTT
1 TTTTTATAAATTTTACAATTT
*
107634466 TTTTT-TAATTTTTA
1 TTTTTATAAATTTTA
107634480 ATAAATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 7 0.23
21 16 0.53
22 7 0.23
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTATAAATTTTACAATTT
Found at i:107634842 original size:14 final size:14
Alignment explanation
Indices: 107634817--107634857 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
107634807 CTTACCTAAT
107634817 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* * *
107634831 TTTGCAAATTGTAA
1 TGTGCAAGTTGTGA
107634845 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
107634858 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:107637544 original size:14 final size:14
Alignment explanation
Indices: 107637523--107637563 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
107637513 CTTACCTAAT
107637523 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
107637537 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
107637551 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
107637564 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:107638302 original size:281 final size:281
Alignment explanation
Indices: 107637799--107638367 Score: 1075
Period size: 281 Copynumber: 2.0 Consensus size: 281
107637789 ATCCGGATTT
107637799 ATTACGTTGTTGATCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
1 ATTACGTTGTTGATCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
*
107637864 TAACAAGATTTCTAGACTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
66 CAACAAGATTTCTAGACTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
107637929 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
131 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
107637994 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
196 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
107638059 TTCTAGGAACCAATTATCTTC
261 TTCTAGGAACCAATTATCTTC
* *
107638080 ATTACGTTGTTGCTCAGGTTTTACATTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
1 ATTACGTTGTTGATCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
*
107638145 CAACAAGATTTCTAGATTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
66 CAACAAGATTTCTAGACTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
* *
107638210 TAATGGACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
131 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
*
107638275 AGTTTGGAAGATGATCCATCCCCTGTCAGTGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
196 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
107638340 TTCTAGGAACCAATTATCTTC
261 TTCTAGGAACCAATTATCTTC
107638361 ATTACGT
1 ATTACGT
107638368 AAGTCGATAT
Statistics
Matches: 281, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
281 281 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (281 bp):
ATTACGTTGTTGATCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
CAACAAGATTTCTAGACTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
TTCTAGGAACCAATTATCTTC
Found at i:107642412 original size:132 final size:132
Alignment explanation
Indices: 107642181--107642442 Score: 400
Period size: 132 Copynumber: 2.0 Consensus size: 132
107642171 CATTTAAAAA
* * *
107642181 TTCTTTGAAACGAAGGCGAGATTTGATATTTGGCAATTCGCGGAAACGTGCCCTAATGTGCTAGG
1 TTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAACGTGCCCTAACGTGCTAGG
* * * *
107642246 TTGCAATTTCGTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTCTTTTAAA
66 TTGCAATTTCGTGTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAA
107642311 GT
131 GT
* * * *
107642313 TTCTTTAAAACGAAGATGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGG
1 TTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAACGTGCCCTAACGTGCTAGG
*
107642378 TTGCAATTTC-TCGTTTACTCAAAATAATCAAATATCCCTTCGAAATTTCACTCAGGTCTTCTAA
66 TTGCAATTTCGT-GTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAA
107642442 A
130 A
107642443 AATCCTTCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
131 1 0.01
132 116 0.99
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
TTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAACGTGCCCTAACGTGCTAGG
TTGCAATTTCGTGTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAA
GT
Found at i:107642482 original size:132 final size:131
Alignment explanation
Indices: 107642188--107642498 Score: 358
Period size: 132 Copynumber: 2.4 Consensus size: 131
107642178 AAATTCTTTG
* * * * *
107642188 AAACGAAGGCGAGATTTGATATTTGGCAATTCGCGGAAACGTGCCCTAATGTGCTAGGTTGCAAT
1 AAACGAA-GAGAGATCTCATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAAT
* * * * ** *
107642253 TTCGTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTCTTTTAAAGTTTCTT
65 TTCGTGTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTT
*
107642318 TA
130 CA
* * * *
107642320 AAACGAAGATGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGA-GAGATCTCATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAAT
*
107642385 TTC-TCGTTTACTCAAAATAATCAAATATCCCTTCGAAATTTCACTCAGGTCTTCTAAAAATCCT
65 TTCGT-GTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCT
107642449 TCA
129 TCA
* * * *
107642452 AAACGAAG-GCGATACTCAGTGTTTGACAATTCG-GGAATCATGCCCTA
1 AAACGAAGAGAGAT-CTCA-TATTTGGCAATTCGCGGAATCGTGCCCTA
107642499 TTGTGCTGGG
Statistics
Matches: 155, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
130 4 0.03
131 17 0.11
132 134 0.86
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AAACGAAGAGAGATCTCATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTAGGTTGCAATT
TCGTGTTTACTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTC
A
Found at i:107644455 original size:36 final size:36
Alignment explanation
Indices: 107644415--107644525 Score: 105
Period size: 36 Copynumber: 3.3 Consensus size: 36
107644405 GGGTTACGAG
107644415 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
* * *
107644451 TTTGGTGTTT-AGG-------GTTTG-GGATTATATA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGG-TTCTAGA
* *
107644479 TTTAGGGTTTAAGGTTCAATTGTTTGATGTTCTAGA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
107644515 TTTGGGGTTTA
1 TTTGGGGTTTA
107644526 GAGTTTGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
27 2 0.04
28 18 0.32
29 3 0.05
35 3 0.05
36 29 0.52
37 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.48
Consensus pattern (36 bp):
TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
Found at i:107644525 original size:64 final size:64
Alignment explanation
Indices: 107644419--107644558 Score: 217
Period size: 64 Copynumber: 2.2 Consensus size: 64
107644409 TACGAGTTTG
* * ** * *
107644419 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGTGTTTAGGGTTTGGGATTATATATTTA
1 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTCA
*
107644483 GGGTTTAAGGTTCAATTGTTTGATGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTCA
1 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTCA
107644547 GGGTTTAAGGTT
1 GGGTTTAAGGTT
107644559 TTGAGTTTGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (64 bp):
GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTCA
Found at i:107646670 original size:13 final size:13
Alignment explanation
Indices: 107646652--107646681 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
107646642 CCTAATGGGA
107646652 TATTATAGGATAT
1 TATTATAGGATAT
*
107646665 TATTATGGGATAT
1 TATTATAGGATAT
107646678 TATT
1 TATT
107646682 TTTTAGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTATAGGATAT
Found at i:107649139 original size:13 final size:13
Alignment explanation
Indices: 107649121--107649145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107649111 TATTGATGTG
107649121 ATTATTAATTTAC
1 ATTATTAATTTAC
107649134 ATTATTAATTTA
1 ATTATTAATTTA
107649146 TTTAATTGAA
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTAATTTAC
Found at i:107653157 original size:18 final size:18
Alignment explanation
Indices: 107653134--107653190 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
107653124 TACGACAATT
107653134 TACGACACTATTTACGTA
1 TACGACACTATTTACGTA
*
107653152 TACGACACTATTCACGTA
1 TACGACACTATTTACGTA
* ** *
107653170 TATGGTACTATTTAGGTA
1 TACGACACTATTTACGTA
107653188 TAC
1 TAC
107653191 AGTACTGTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (18 bp):
TACGACACTATTTACGTA
Found at i:107653195 original size:18 final size:18
Alignment explanation
Indices: 107653140--107653212 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
107653130 AATTTACGAC
* *
107653140 ACTATTTACGTATAC-GAC
1 ACTATTCACGTATACAG-T
**
107653158 ACTATTCACGTATATGGT
1 ACTATTCACGTATACAGT
* *
107653176 ACTATTTAGGTATACAGT
1 ACTATTCACGTATACAGT
*
107653194 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
107653212 A
1 A
107653213 GTTGGGATTG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
18 43 0.98
19 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:107657061 original size:12 final size:12
Alignment explanation
Indices: 107657044--107657072 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
107657034 TCAAGACTGT
107657044 AGATAATCCCGC
1 AGATAATCCCGC
107657056 AGATAATCCCGC
1 AGATAATCCCGC
107657068 AGATA
1 AGATA
107657073 TGATGACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (12 bp):
AGATAATCCCGC
Found at i:107659672 original size:23 final size:23
Alignment explanation
Indices: 107659645--107659688 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
107659635 TTGGTAGCTA
* *
107659645 CATTAATGGAGCTAATTCAAAGG
1 CATTAAAGGAGCTAAATCAAAGG
*
107659668 CATTAAAGGTGCTAAATCAAA
1 CATTAAAGGAGCTAAATCAAA
107659689 AGGAAGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (23 bp):
CATTAAAGGAGCTAAATCAAAGG
Found at i:107660662 original size:20 final size:20
Alignment explanation
Indices: 107660624--107660673 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
107660614 AAATAGTCAT
107660624 TTTTGTTTATTTTAGGTTA-TA
1 TTTTG-TTA-TTTAGGTTATTA
*
107660645 TTTTAGTTATTTATGTTATTA
1 TTTT-GTTATTTAGGTTATTA
107660666 TTTTGTTA
1 TTTTGTTA
107660674 CGAAGTGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 12 0.46
21 13 0.50
22 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTGTTATTTAGGTTATTA
Found at i:107681109 original size:20 final size:20
Alignment explanation
Indices: 107681071--107681118 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
107681061 TAAATTCTAA
* **
107681071 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
107681091 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
107681111 AAA-ATAAA
1 AAAGATAAA
107681119 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:107681162 original size:15 final size:15
Alignment explanation
Indices: 107681142--107681171 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
107681132 ATAATCCTAA
*
107681142 TAATTATCTTAATAT
1 TAATTATCCTAATAT
107681157 TAATTATCCTAATAT
1 TAATTATCCTAATAT
107681172 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:107683304 original size:18 final size:17
Alignment explanation
Indices: 107683273--107683320 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
107683263 GCAACCCAAT
107683273 TTTTATTT-TTATTTTA
1 TTTTATTTATTATTTTA
107683289 TTTTATCTTATTATTTTA
1 TTTTAT-TTATTATTTTA
107683307 --TTATTTATTATTTT
1 TTTTATTTATTATTTT
107683321 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.33
16 10 0.33
17 2 0.07
18 8 0.27
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTATTATTTTA
Found at i:107687597 original size:47 final size:47
Alignment explanation
Indices: 107687540--107687633 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
107687530 TGTTAATAAA
107687540 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
1 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
107687587 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
1 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
107687634 AGGAATTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (47 bp):
TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
Found at i:107698068 original size:4 final size:4
Alignment explanation
Indices: 107698059--107698103 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
107698049 GTAAAGAGAT
* *
107698059 AATA AATA AATA AATA AATA AATA GAATA ATATA TATA TATA AAT
1 AATA AATA AATA AATA AATA AATA -AATA A-ATA AATA AATA AAT
107698104 CTATAAAGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 30 0.81
5 7 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (4 bp):
AATA
Found at i:107705434 original size:20 final size:20
Alignment explanation
Indices: 107705384--107705425 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
107705374 AAATAAATAG
*
107705384 TTATGTTCACATTACAATTT
1 TTATATTCACATTACAATTT
107705404 TTATATTCACATTACAATTT
1 TTATATTCACATTACAATTT
107705424 TT
1 TT
107705426 TTTGACACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATATTCACATTACAATTT
Found at i:107724051 original size:21 final size:21
Alignment explanation
Indices: 107724025--107724065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107724015 ACCTACTCAA
* *
107724025 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
107724046 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
107724066 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:107726949 original size:43 final size:41
Alignment explanation
Indices: 107726874--107726970 Score: 155
Period size: 43 Copynumber: 2.4 Consensus size: 41
107726864 CATTTTAGTC
107726874 AAAATTTGATG--GC-TGCCATAAATGGTAATAATCTGCCA
1 AAAATTTGATGCTGCATGCCATAAATGGTAATAATCTGCCA
107726912 AAAATTTGATGCTGCATGACCATACAATGGTAATAATCTGCCA
1 AAAATTTGATGCTGCATG-CCATA-AATGGTAATAATCTGCCA
107726955 AAAATTTGATGCTGCA
1 AAAATTTGATGCTGCA
107726971 AAACCATGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
38 11 0.20
40 2 0.04
41 2 0.04
42 5 0.09
43 34 0.63
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (41 bp):
AAAATTTGATGCTGCATGCCATAAATGGTAATAATCTGCCA
Found at i:107726977 original size:43 final size:43
Alignment explanation
Indices: 107726889--107726982 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
107726879 TTGATGGCTG
**
107726889 CCATA-AATGGTAATAATCTGCCAAAAATTTGATGCTGCATGA
1 CCATACAATGGTAATAATCTGCCAAAAATTTGATGCTGCAAAA
107726931 CCATACAATGGTAATAATCTGCCAAAAATTTGATGCTGCAAAA
1 CCATACAATGGTAATAATCTGCCAAAAATTTGATGCTGCAAAA
*
107726974 CCATGCAAT
1 CCATACAAT
107726983 TTTCAACTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 5 0.10
43 43 0.90
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (43 bp):
CCATACAATGGTAATAATCTGCCAAAAATTTGATGCTGCAAAA
Found at i:107730133 original size:54 final size:54
Alignment explanation
Indices: 107730039--107730141 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
107730029 GGACCATGTC
* * *
107730039 AACAAGTGATAAGCGATATCCATATAATACCTTAATTGGGCTATGGCATCGAAA
1 AACAAGTGATAAGCGATATCCATATAAGACCATAACTGGGCTATGGCATCGAAA
* * *
107730093 AACAAGTGATAAGTGAT-TCCCGTATAAGACCATAGCTGGGCTATGGCAT
1 AACAAGTGATAAGCGATAT-CCATATAAGACCATAACTGGGCTATGGCAT
107730142 TGGAGAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (54 bp):
AACAAGTGATAAGCGATATCCATATAAGACCATAACTGGGCTATGGCATCGAAA
Found at i:107735500 original size:19 final size:19
Alignment explanation
Indices: 107735476--107735561 Score: 158
Period size: 19 Copynumber: 4.6 Consensus size: 19
107735466 ATCTTTAAGA
107735476 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107735495 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107735514 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107735531 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107735550 ATATGCAATCTT
1 ATATGCAATCTT
107735562 GGAGATTTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.26
19 48 0.74
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:107735521 original size:36 final size:37
Alignment explanation
Indices: 107735480--107735561 Score: 148
Period size: 36 Copynumber: 2.2 Consensus size: 37
107735470 TTAAGAATAT
107735480 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
107735517 -CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
107735553 TGCAATCTT
1 -GCAATCTT
107735562 GGAGATTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 36 0.84
38 7 0.16
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:107740603 original size:7 final size:7
Alignment explanation
Indices: 107740591--107740647 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
107740581 AAAAAAAAGG
107740591 GAAAAAA
1 GAAAAAA
*
107740598 -AGAAAA
1 GAAAAAA
107740604 GAAAAAGA
1 GAAAAA-A
107740612 GAAAAAA
1 GAAAAAA
107740619 GAAAAATA
1 GAAAAA-A
107740627 -AAAAATA
1 GAAAAA-A
107740634 GAAAAAA
1 GAAAAAA
107740641 GAAAAAA
1 GAAAAAA
107740648 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 5 0.11
7 26 0.59
8 13 0.30
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
GAAAAAA
Found at i:107740608 original size:20 final size:20
Alignment explanation
Indices: 107740580--107740647 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
107740570 CTTCTATTTC
*
107740580 AAAAAAAAAGGGAAAAAAAGA
1 AAAAAAAAAGAG-AAAAAAGA
*
107740601 AAAGAAAAAGAGAAAAAAGAA
1 AAAAAAAAAGAGAAAAAAG-A
*
107740622 AAATAAAAAATAGAAAAAAGA
1 AAA-AAAAAAGAGAAAAAAGA
107740643 AAAAA
1 AAAAA
107740648 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.22
21 18 0.44
22 14 0.34
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAAAAGA
Found at i:107740610 original size:21 final size:19
Alignment explanation
Indices: 107740580--107740647 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 19
107740570 CTTCTATTTC
*
107740580 AAAAAAAAAGGGAAAAAAAG
1 AAAAAAAAAGAG-AAAAAAG
107740600 AAAAGAAAAAGAGAAAAAAG
1 AAAA-AAAAAGAGAAAAAAG
*
107740620 AAAAATAAAAAATAGAAAAAAG
1 --AAA-AAAAAAGAGAAAAAAG
107740642 AAAAAA
1 AAAAAA
107740648 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 7 0.17
22 17 0.40
23 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAAAAG
Found at i:107740618 original size:15 final size:14
Alignment explanation
Indices: 107740591--107740647 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
107740581 AAAAAAAAGG
*
107740591 GAAAAAA-AGAAAA
1 GAAAAAAGAAAAAA
107740604 GAAAAAGAGAAAAAA
1 GAAAAA-AGAAAAAA
107740619 GAAAAATA-AAAAATA
1 GAAAAA-AGAAAAA-A
107740634 GAAAAAAGAAAAAA
1 GAAAAAAGAAAAAA
107740648 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.16
14 8 0.21
15 24 0.63
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (14 bp):
GAAAAAAGAAAAAA
Found at i:107740619 original size:9 final size:8
Alignment explanation
Indices: 107740582--107740647 Score: 50
Period size: 7 Copynumber: 8.8 Consensus size: 8
107740572 TCTATTTCAA
107740582 AAAAAAAG
1 AAAAAAAG
**
107740590 GGAAAAA-
1 AAAAAAAG
*
107740597 AAGAAAAG
1 AAAAAAAG
*
107740605 AAAAAGAG
1 AAAAAAAG
107740613 -AAAAAAG
1 AAAAAAAG
*
107740620 AAAAATA-
1 AAAAAAAG
*
107740627 AAAAATAG
1 AAAAAAAG
107740635 -AAAAAAG
1 AAAAAAAG
107740642 AAAAAA
1 AAAAAA
107740648 TGGAGAGGCC
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
7 23 0.52
8 21 0.48
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:107741705 original size:84 final size:84
Alignment explanation
Indices: 107741597--107741990 Score: 511
Period size: 84 Copynumber: 4.6 Consensus size: 84
107741587 CAAAATTCAG
* * * * * *
107741597 CGCCTTAATCCCCTAAGCAATAGGGTAACAGG-TTAAATGTGCAGATCTTATCTCCCTAAGCAAT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TACAGATCTTATCTCCCTAAACAGT
*
107741661 AGTGGAGTAGATCGAAGACT
65 AGTGGAGCAGATCGAAGACT
*
107741681 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGTA
* *
107741746 GTGGAGCAAATCGAAGACC
66 GTGGAGCAGATCGAAGACT
107741765 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGTA
* *
107741830 GAGGAGCAGATCGAAGATGAT
66 GTGGAGCAGATCGAAGA--CT
* *
107741851 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCTTATCTCCCTAAGCAGT
1 -CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGT
* ** *
107741916 AGTGAAGTGGATTGAAGACT
65 AGTGGAGCAGATCGAAGACT
* * * * * *
107741936 CGCCTTAACTCTCTAAGTAGTAGGGTAATAGGCTAAGATATAGCAGATCTGATCT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TA-CAGATCTTATCT
107741991 TCACGTGTTT
Statistics
Matches: 276, Mismatches: 28, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
84 183 0.66
85 8 0.03
86 10 0.04
87 75 0.27
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (84 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAACAGTA
GTGGAGCAGATCGAAGACT
Found at i:107741918 original size:171 final size:169
Alignment explanation
Indices: 107741597--107741990 Score: 513
Period size: 171 Copynumber: 2.3 Consensus size: 169
107741587 CAAAATTCAG
* * * * * *
107741597 CGCCTTAATCCCCTAAGCAATAGGGTAACAGG-TTAAATGTGCAGATCTTATCTCCCTAAGCAAT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATATACAGATCTTATCTCCCTAAACAAT
* * * * *
107741661 AGTGGAGTAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGA
66 AGAGGAGCAGATCGAAGAATCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAA
*
107741726 TCTTATCTCCCTAAACAGTAGTGGAGCAAATCGAAGACC
131 TCTTATCTCCCTAAACAGTAGTGAAGCAAATCGAAGACC
*
107741765 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAT-TACAGATCTTATCTCCCTAAACAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATATACAGATCTTATCTCCCTAAACAAT
107741829 AGAGGAGCAGATCGAAGATGATGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTAC
66 AGAGGAGCAGATCGAAGA--AT-CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTAC
* *** * *
107741894 AAATCTTATCTCCCTAAGCAGTAGTGAAGTGGATTGAAGACT
128 AAATCTTATCTCCCTAAACAGTAGTGAAGCAAATCGAAGACC
* * * * * *
107741936 CGCCTTAACTCTCTAAGTAGTAGGGTAATAGGCTAAGATATAGCAGATCTGATCT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATATA-CAGATCTTATCT
107741991 TCACGTGTTT
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
168 68 0.35
169 5 0.03
170 1 0.01
171 109 0.56
172 2 0.01
173 11 0.06
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (169 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATATACAGATCTTATCTCCCTAAACAAT
AGAGGAGCAGATCGAAGAATCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAAA
TCTTATCTCCCTAAACAGTAGTGAAGCAAATCGAAGACC
Found at i:107742091 original size:44 final size:44
Alignment explanation
Indices: 107742031--107742544 Score: 380
Period size: 44 Copynumber: 11.7 Consensus size: 44
107742021 AGATTTGGTG
* * * *
107742031 TCTCTGTATTGTCAGAGAGCAGATTGAAGACAACATATTTGGCG
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
* *
107742075 TTTCTGTATTGGCAGAGAGCAGATCGAAGATGAC-TGATTTGGCA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAT-ATTTGGCA
** *
107742119 TCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAGC-TGATTTGGC-
1 TCTCTGTATT-GGCAGAGAGCAGATCGAAG--ATAACAT-ATTTGGCA
* * ** * * * *
107742165 TTTCATGTGTTTAC-GTTGAAGCAAATCTAAGAT----GATTTGGCA
1 TCTC-TGTATTGGCAG-AG-AGCAGATCGAAGATAACATATTTGGCA
*
107742207 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
* * *
107742251 TCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
* * * *
107742295 TCTCTGTATTTGGCGGAGAGTAGATCGAAGACATAGC-TGATTTGGCT
1 TCTCTGTA-TTGGCAGAGAGCAGATCGAAG--ATAACAT-ATTTGGCA
* * * * *
107742342 TCCACGTGT-TT-AC-GTTAAAGCA-AGTCTAAGAT---A-ATTTAGCA
1 T-CTC-TGTATTGGCAG--AGAGCAGA-TCGAAGATAACATATTTGGCA
* **
107742383 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGATA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
* *
107742427 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
* *
107742471 TCTCTGTATTGGCAGAGAGCAGATCGAAGATAGA-AGATTTGGCG
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGATA-ACATATTTGGCA
* * *
107742515 TCTCTGTATTGTCAAAGAGCATATCGAAGA
1 TCTCTGTATTGGCAGAGAGCAGATCGAAGA
107742545 GAAGAACAAC
Statistics
Matches: 379, Mismatches: 59, Indels: 64
0.75 0.12 0.13
Matches are distributed among these distances:
39 3 0.01
40 28 0.07
41 23 0.06
42 5 0.01
43 2 0.01
44 216 0.57
45 42 0.11
46 6 0.02
47 49 0.13
48 2 0.01
49 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (44 bp):
TCTCTGTATTGGCAGAGAGCAGATCGAAGATAACATATTTGGCA
Found at i:107742292 original size:176 final size:175
Alignment explanation
Indices: 107741990--107742500 Score: 736
Period size: 176 Copynumber: 2.9 Consensus size: 175
107741980 AGATCTGATC
* *** ** *
107741990 TTCACGTGTTTACGCTGAAGTGGATCTAAGCA-GATTTGGTGTCTCTGTATTGTCAGAGAGCAGA
1 TTCACGTGTTTACGTTGAAGCAAATCTAAG-ATGATTTGGCATCTCTGTATTGGCAGAGAGCAGA
* * * * * *
107742054 TTGAAGACAACATATTTGGCGTTTCTGTATTGGCAGAGAGCAGATCGAAGATGACTGATTTGGCA
65 TCGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATGACAGATTTGGCA
*
107742119 TCTCTGTATTCGGTGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
130 TCTCTGTATT-GGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
*
107742166 TTCATGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
1 TTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
*
107742231 CGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATGACAGATTTGGCAT
66 CGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATGACAGATTTGGCAT
*
107742296 CTCTGTATTTGGCGGAGAGTAGATCGAAGACATAGCTGATTTGGCT
131 CTCTGTA-TTGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
* * * * *
107742342 TCCACGTGTTTACGTTAAAGCAAGTCTAAGATAATTTAGCATCTCTGTATTGGCAGAGAGCAGAT
1 TTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
* ** * *
107742407 CGAAGATAACAGATTTGATATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCAT
66 CGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATGACAGATTTGGCAT
*
107742472 CTCTGTATTGGCAGAGAGCAGATCGAAGA
131 CTCTGTATTGGCGGAGAGCAGATCGAAGA
107742501 TAGAAGATTT
Statistics
Matches: 302, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
175 21 0.07
176 279 0.92
177 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (175 bp):
TTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
CGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATGACAGATTTGGCAT
CTCTGTATTGGCGGAGAGCAGATCGAAGACATAGCTGATTTGGCT
Found at i:107742519 original size:132 final size:130
Alignment explanation
Indices: 107742020--107742544 Score: 444
Period size: 132 Copynumber: 4.0 Consensus size: 130
107742010 TGGATCTAAG
* * * * * * *
107742020 CAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATTGAAGACAACATATTTGGCGTTTCTGTATT
1 CAGATTTGGTATCTCTGTATTGGCAGAGAGCAGATCGAAGA-AATAGATTTGGCATCTCTGTATT
* **
107742085 GGCAGAGAGCAGATCGAAGATGACTGATTTGGCATCTCTGTATTCGGTGGAGAGCAGATCGAAGA
65 GGCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAAG-
*
107742150 CATAG
127 -ATAA
* * * * ** * *
107742155 CTGATTTGGCTTTCATGTGT-TTACGTTGA-AGCAAATCTAAG--AT-GATTTGGCATCTCTGTA
1 CAGATTTGG-TATC-TCTGTATT-GGCAGAGAGCAGATCGAAGAAATAGATTTGGCATCTCTGTA
* *
107742215 TTGGCAGAGAGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAG
63 TTGGCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG
*
107742280 ATGA
127 ATAA
* * * * * *
107742284 CAGATTTGGCATCTCTGTATTTGGCGGAGAGTAGATCGAAGACATAGCTGATTTGGCTTCCACGT
1 CAGATTTGGTATCTCTGTA-TTGGCAGAGAGCAGATCGAAGAAATA---GATTTGGCAT-CTC-T
* * * *
107742349 GT-TT-AC-GTTAAAGCA-AGTCTAAGAT--A-ATTTAGCATCTCTGTATTGGCAGAGAGCAGAT
60 GTATTGGCAG--AGAGCAGA-TCGAAGATACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
107742407 CGAAGATAA
122 CGAAGATAA
*
107742416 CAGATTTGATATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTATT
1 CAGATTTGGTATCTCTGTATTGGCAGAGAGCAGATCGAAGA-AATAGATTTGGCATCTCTGTATT
* * * * *
107742481 GGCAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGTCAAAGAGCATATCGAAGA
65 GGCAGAGAGCAGATCGAAGATA-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
107742545 GAAGAACAAC
Statistics
Matches: 309, Mismatches: 55, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
127 7 0.02
128 21 0.07
129 32 0.10
130 1 0.00
131 39 0.13
132 148 0.48
133 2 0.01
134 1 0.00
135 19 0.06
136 30 0.10
137 9 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (130 bp):
CAGATTTGGTATCTCTGTATTGGCAGAGAGCAGATCGAAGAAATAGATTTGGCATCTCTGTATTG
GCAGAGAGCAGATCGAAGATACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAA
Found at i:107742740 original size:44 final size:45
Alignment explanation
Indices: 107742691--107742875 Score: 182
Period size: 44 Copynumber: 4.2 Consensus size: 45
107742681 TATTTTAACA
**
107742691 TGGCATCCCTGTGTTTATTGGGAACAAG-TTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCAGATT
* *
107742735 TGGCATCCCTGTGTTTACAGGGAAC-AGATCGAAGACATAGCAGATC
1 TGGCATCCCTGTGTTTACAGGGAACAAGATTGAAG--ATAGCAGATT
* * * * * * **
107742781 TGACATTCCTATGCTTACAGCGAAGAAGATTGAAGATTTCAGCA--
1 TGGCATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCAG-ATT
* *
107742825 TGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGTAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCAGATT
107742869 TGGCATC
1 TGGCATC
107742876 TCCATATTCG
Statistics
Matches: 111, Mismatches: 23, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.01
43 12 0.11
44 56 0.50
45 5 0.05
46 29 0.26
47 8 0.07
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (45 bp):
TGGCATCCCTGTGTTTACAGGGAACAAGATTGAAGATAGCAGATT
Found at i:107742752 original size:134 final size:134
Alignment explanation
Indices: 107742597--107742875 Score: 423
Period size: 134 Copynumber: 2.1 Consensus size: 134
107742587 GATCCAAGAT
* * *
107742597 GATTTGGCATTCCTGTATTTACAGGAAATAGATCGAAGACATAGCAGATCTAACATTCCTGTGCT
1 GATTTGGCATCCCTGTATTTACAGGAAACAGATCGAAGACATAGCAGATCTAACATTCCTATGCT
* * * * *
107742662 TATAGCGAAGCAGATCAAATATTTTAACATGGCATCCCTGTGTTTATTGGGAACAAGTTGAAGAT
66 TACAGCGAAGAAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
107742727 AGCA
131 AGCA
* * *
107742731 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTATGCT
1 GATTTGGCATCCCTGTATTTACAGGAAACAGATCGAAGACATAGCAGATCTAACATTCCTATGCT
** *
107742796 TACAGCGAAGAAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGCGAAGAAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
*
107742861 AGTA
131 AGCA
107742865 GATTTGGCATC
1 GATTTGGCATC
107742876 TCCATATTCG
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (134 bp):
GATTTGGCATCCCTGTATTTACAGGAAACAGATCGAAGACATAGCAGATCTAACATTCCTATGCT
TACAGCGAAGAAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AGCA
Found at i:107742963 original size:134 final size:132
Alignment explanation
Indices: 107742637--107743043 Score: 329
Period size: 134 Copynumber: 3.0 Consensus size: 132
107742627 GATCGAAGAC
* * * * * * * *** *
107742637 ATAGCAGATCTAACATTCCTGTGCTTATAGCGAAGCAGATCAAATATTTTAACATGGCATCCCTG
1 ATAGCAGATCTGACATTCATATGCTTACAGCGAAGAAGATCCAAGATGACAGCATGGCATCCCTG
* * ** * * *
107742702 TGTTTATTGGGAACAAGTTGAAGATAGCAGATTTGGCATC-CCTGTGTTTACAGGGAACAGATCG
66 TGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCTCCTAT-TAGACGGGGAGCAGAT-T
*
107742766 AAGAC
129 AA-AG
* ** **
107742771 ATAGCAGATCTGACATTCCTATGCTTACAGCGAAGAAGATTGAAGATTTCAGCATGGCATCCCTG
1 ATAGCAGATCTGACATTCATATGCTTACAGCGAAGAAGATCCAAGATGACAGCATGGCATCCCTG
* *
107742836 TGTTTATAGGGAACAAGTTGAAGATAGTAGATTTGGCATCTCCATATTCGACGGGGAGCAGATTA
66 TGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCTCC-TATTAGACGGGGAGCAGATTA
107742901 AAG
130 AAG
* * * * * *
107742904 ATAGTAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCCAAGATGACAG-ATTTGGCAT--C
1 ATAGCAGATCTGACATTCATATGCTTACAGCGAAGAAGATCCAAGATGACAGCA--TGGCATCCC
* * * * * * **
107742966 TTTGTATTAGACGGGGAGCAAATTGGAGATAACAGATTTGGCATCTTTGTATTAGACGGGGAGCA
64 TGTGT-TTATA--GGGAACAAGTTGAAGATAGCAGATTTGGCATC-TCCTATTAGACGGGGAGCA
107743031 GATTAAAG
125 GATTAAAG
107743039 A-AGCA
1 ATAGCA
107743044 AATTTGGCGT
Statistics
Matches: 225, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
132 6 0.03
133 46 0.20
134 105 0.47
135 65 0.29
136 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
ATAGCAGATCTGACATTCATATGCTTACAGCGAAGAAGATCCAAGATGACAGCATGGCATCCCTG
TGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCTCCTATTAGACGGGGAGCAGATTAA
AG
Found at i:107743064 original size:44 final size:45
Alignment explanation
Indices: 107742956--107743088 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
107742946 AAGATGACAG
* ** * *
107742956 ATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGGAGATAACAG
1 ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTAAAGATAGCAA
107743001 ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTAAAGA-AGCAA
1 ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTAAAGATAGCAA
* * *
107743045 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTAAAGATAGCA
107743089 GATATCGCCT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 39 0.49
45 40 0.51
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.27
Consensus pattern (45 bp):
ATTTGGCATCTTTGTATTAGACGGGGAGCAGATTAAAGATAGCAA
Found at i:107743463 original size:19 final size:19
Alignment explanation
Indices: 107743439--107743535 Score: 162
Period size: 19 Copynumber: 5.1 Consensus size: 19
107743429 ATCTTTAAGA
107743439 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107743458 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107743477 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107743494 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
107743513 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
107743534 AT
1 AT
107743536 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:107743484 original size:36 final size:37
Alignment explanation
Indices: 107743443--107743535 Score: 152
Period size: 36 Copynumber: 2.5 Consensus size: 37
107743433 TTAAGAATAT
107743443 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
107743480 -CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATATGCAATCTTAGATATGATA
107743516 TGCAATCTTGAAGATATGAT
1 -GCAATCTT--AGATATGAT
107743536 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
36 36 0.69
38 7 0.13
40 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (37 bp):
GCAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:107745333 original size:43 final size:43
Alignment explanation
Indices: 107745225--107745424 Score: 249
Period size: 43 Copynumber: 4.6 Consensus size: 43
107745215 AAAAAGTGCT
* ** *
107745225 GCTAAAAGTGCTACCTTTTTAGCAACGTTTCCTAAAAAATCGCC
1 GCTAAAAGTGCTGCC-TTTTAGCGGCGTTTCCTAAAAAACCGCC
* *
107745269 GCTAAAAGTGCTACCTTTTTAGCGGCATTTCCTAAAAAACCGCC
1 GCTAAAAGTGCTGCC-TTTTAGCGGCGTTTCCTAAAAAACCGCC
* **
107745313 GCTAAAAGTGCTGCCTTTTAGCGGCGTTTTCTAAAAAACCATC
1 GCTAAAAGTGCTGCCTTTTAGCGGCGTTTCCTAAAAAACCGCC
* * *
107745356 GCGAAAAGTGCTGCCTTTTAGCGGCGTTTGCTAAAAAAGCGCC
1 GCTAAAAGTGCTGCCTTTTAGCGGCGTTTCCTAAAAAACCGCC
*
107745399 GCTAAAAGT-CATGACTTTTAGCGGCG
1 GCTAAAAGTGC-TGCCTTTTAGCGGCG
107745425 CTTTTTTAGC
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 84 0.60
44 54 0.39
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GCTAAAAGTGCTGCCTTTTAGCGGCGTTTCCTAAAAAACCGCC
Found at i:107751464 original size:9 final size:9
Alignment explanation
Indices: 107751452--107751510 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
107751442 TCCGTAAGTT
*
107751452 GTTATGTAC
1 GTTATGTAA
*
107751461 GTTATGTGA
1 GTTATGTAA
107751470 GTTATGTAA
1 GTTATGTAA
*
107751479 ATTATGTAA
1 GTTATGTAA
*
107751488 GTTATGTGA
1 GTTATGTAA
107751497 GTTATGTAA
1 GTTATGTAA
107751506 GTTAT
1 GTTAT
107751511 TTTTTAAGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:107751484 original size:27 final size:27
Alignment explanation
Indices: 107751453--107751510 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
107751443 CCGTAAGTTG
*
107751453 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
*
107751480 TTATGTAAGTTATGTGAGTTATGTAAG
1 TTATGTAAGTTATGTGAGTTATGTAAA
107751507 TTAT
1 TTAT
107751511 TTTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:107751932 original size:241 final size:241
Alignment explanation
Indices: 107751509--107752183 Score: 1226
Period size: 241 Copynumber: 2.8 Consensus size: 241
107751499 TATGTAAGTT
*
107751509 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
107751574 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTACATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
107751639 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
*
107751704 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTGA
* * *
107751750 ATTTTTTAAGATTCATCATATGCGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
107751815 CGATATAAGGCAACCCGTCAGGTTTCCAGCTTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
* *
107751880 GGTTGGAAAGAAGGTCAACTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
107751945 TTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTGA
196 TTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTGA
*
107751991 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAACT
1 ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
*
107752056 CGATATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
66 CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
*
107752121 GGTTTGAGAGAAGGTCAGCTATTGTTGTAATTTTAAAT-GACAAGCAAGCTACATGGTAATAAA
131 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT-AATGGACAAGCAAGCTACATGGTAATAAA
107752184 ATTAATTCAT
Statistics
Matches: 415, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
241 412 0.99
242 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCT
CGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAA
GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTCTTTCAAGTCTTTTTGA
Found at i:107752250 original size:33 final size:33
Alignment explanation
Indices: 107752208--107752274 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
107752198 ATTCATACTT
*
107752208 AAGAACATACGCATTGGAACCAGTAGCAATGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
*
107752241 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAGTAGCAAAGAG
107752274 A
1 A
107752275 TCCAAAGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAGTAGCAAAGAG
Found at i:107754896 original size:25 final size:25
Alignment explanation
Indices: 107754868--107754923 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
107754858 GAGAAGCAGC
107754868 AGAGGGATGCCAACGAAGATGTAGA
1 AGAGGGATGCCAACGAAGATGTAGA
* * * * *
107754893 AGAGAGATGCCGATGGAGATGTAGC
1 AGAGGGATGCCAACGAAGATGTAGA
107754918 AGAGGG
1 AGAGGG
107754924 CTACCGACGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.41, T:0.12
Consensus pattern (25 bp):
AGAGGGATGCCAACGAAGATGTAGA
Found at i:107756973 original size:20 final size:18
Alignment explanation
Indices: 107756928--107756965 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
107756918 GAAAGGTTGA
*
107756928 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
107756946 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
107756965 G
1 G
107756966 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:107757199 original size:22 final size:20
Alignment explanation
Indices: 107757171--107757227 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
107757161 GTTTGACTTT
107757171 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
107757192 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
107757213 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
107757228 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:107757600 original size:7 final size:7
Alignment explanation
Indices: 107757579--107757697 Score: 67
Period size: 7 Copynumber: 16.7 Consensus size: 7
107757569 AATCATACAA
107757579 CATAACC
1 CATAACC
*
107757586 CTTAAACC
1 CAT-AACC
107757594 CATAACC
1 CATAACC
*
107757601 CATAATC
1 CATAACC
*
107757608 TATAACC
1 CATAACC
* *
107757615 CCTAAAC
1 CATAACC
* *
107757622 CTTAAAC
1 CATAACC
*
107757629 CACAACC
1 CATAACC
* *
107757636 CTTAAAC
1 CATAACC
*
107757643 CATAAAC
1 CATAACC
* *
107757650 TATAAAC
1 CATAACC
*
107757657 CATAATC
1 CATAACC
107757664 CATAAACC
1 CAT-AACC
*
107757672 CATAATC
1 CATAACC
*
107757679 CATAATC
1 CATAACC
*
107757686 CATAATC
1 CATAACC
107757693 CATAA
1 CATAA
107757698 ACCTTAAAAT
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
7 77 0.87
8 12 0.13
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (7 bp):
CATAACC
Done.