Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 386 of 444
Found at i:111854419 original size:24 final size:25
Alignment explanation
Indices: 111854391--111854437 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
111854381 GAGCCCATTT
111854391 ATTTT-ATTATTATTTT-TCTTTTTA
1 ATTTTAATT-TTATTTTGTCTTTTTA
111854415 ATTTTAATTTTATTTTGTCTTTT
1 ATTTTAATTTTATTTTGTCTTTT
111854438 ATTTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (25 bp):
ATTTTAATTTTATTTTGTCTTTTTA
Found at i:111858641 original size:93 final size:92
Alignment explanation
Indices: 111858406--111858668 Score: 454
Period size: 92 Copynumber: 2.8 Consensus size: 92
111858396 CCCATAAGCG
* * *
111858406 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
111858471 AAGTTCGGATGCCTAGTTACATCTCCG
66 GAGTTCGGATGCCTAGTTACATCTCCA
*
111858498 AACTCGGGCTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
111858563 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTC-CA
*
111858591 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
111858656 GAGTTCGGATGCC
66 GAGTTCGGATGCC
111858669 CAAATATCCA
Statistics
Matches: 162, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
92 85 0.52
93 77 0.48
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCCA
Found at i:111858664 original size:46 final size:46
Alignment explanation
Indices: 111858397--111858664 Score: 269
Period size: 46 Copynumber: 5.8 Consensus size: 46
111858387 TGTAACCCGC
* * *
111858397 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * * *
111858443 CCATAAGTGAACTCGAACTCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* **** *
111858489 ACATCTCCGAACTCGGGCTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
111858535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
*
111858585 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
111858628 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
111858665 TGCCCAAATA
Statistics
Matches: 177, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.03
43 5 0.03
44 1 0.01
45 2 0.01
46 123 0.69
47 30 0.17
49 1 0.01
50 5 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:111863480 original size:2 final size:2
Alignment explanation
Indices: 111863473--111863504 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
111863463 TAGCATTCAA
111863473 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
111863505 CTTATCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111867849 original size:21 final size:21
Alignment explanation
Indices: 111867823--111867869 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
111867813 TTAAGGGATG
111867823 TAACAGAAGTTTCAAGAGAAC
1 TAACAGAAGTTTCAAGAGAAC
111867844 TAACAGAAGTTTCAAGAGAAC
1 TAACAGAAGTTTCAAGAGAAC
111867865 TAACA
1 TAACA
111867870 ATCGATGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (21 bp):
TAACAGAAGTTTCAAGAGAAC
Found at i:111883507 original size:21 final size:21
Alignment explanation
Indices: 111883477--111883565 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
111883467 CTCACAAAGA
* *
111883477 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
111883497 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
111883518 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
111883539 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
111883563 AAA
1 AAA
111883566 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:111883558 original size:24 final size:21
Alignment explanation
Indices: 111883477--111883545 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
111883467 CTCACAAAGA
* * *
111883477 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
111883497 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
111883518 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
111883539 AAAAAGA
1 AAAAAGA
111883546 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:111895142 original size:54 final size:54
Alignment explanation
Indices: 111895078--111895185 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
111895068 AAAAGACATA
111895078 TATGGTAGAATCGTAACCATAGAATACGACCTTAATCGAAATGCATACATTTGT
1 TATGGTAGAATCGTAACCATAGAATACGACCTTAATCGAAATGCATACATTTGT
111895132 TATGGTAGAATCGTAACCATAGAATACGACCTTAATCGAAATGCATACATTTGT
1 TATGGTAGAATCGTAACCATAGAATACGACCTTAATCGAAATGCATACATTTGT
111895186 CTCATACACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (54 bp):
TATGGTAGAATCGTAACCATAGAATACGACCTTAATCGAAATGCATACATTTGT
Found at i:111895875 original size:14 final size:14
Alignment explanation
Indices: 111895856--111895884 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
111895846 TACAATATAT
111895856 ATAAGAATTATACG
1 ATAAGAATTATACG
111895870 ATAAGAATTATACG
1 ATAAGAATTATACG
111895884 A
1 A
111895885 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:111898663 original size:13 final size:15
Alignment explanation
Indices: 111898638--111898677 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
111898628 TATTTTATTA
111898638 AATAAATATTAAATT
1 AATAAATATTAAATT
111898653 AA-AAA-ATTAAATT
1 AATAAATATTAAATT
111898666 AATAAATATTAA
1 AATAAATATTAA
111898678 TAAATTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATATTAAATT
Found at i:111923925 original size:125 final size:125
Alignment explanation
Indices: 111923783--111924029 Score: 359
Period size: 125 Copynumber: 2.0 Consensus size: 125
111923773 GCTTTTTACA
* * * *
111923783 CAATCCCGTCAAGTCGAGCTGGGCTGGTCATTTGATCCGTGGATAAATTTAAATATAAATATATT
1 CAATCCCGTCAAGTCGAGCTGGGCTGGTCACTTAATCCATGGATAAATCTAAATATAAATATATT
* * * *
111923848 TACTACAAAATATTATAAATTTATAATAACATTTTCTTTGGACAGATAAAATTTATTATC
66 TACTACAAAACATTATAAATTTATAATAACATTTTCTCTAGACAGACAAAATTTATTATC
* * * *
111923908 CAATCTCGTCAAGTCGAGCTGGGTTGGTTACTTAATCCATGGATAAGTCTAAATATAAATATATT
1 CAATCCCGTCAAGTCGAGCTGGGCTGGTCACTTAATCCATGGATAAATCTAAATATAAATATATT
* * *
111923973 TGCTACAAAACATTATAAATTTATAATAGCATTTTCTCTAGACAGACGAAATTTATT
66 TACTACAAAACATTATAAATTTATAATAACATTTTCTCTAGACAGACAAAATTTATT
111924030 TTATAATAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 107 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (125 bp):
CAATCCCGTCAAGTCGAGCTGGGCTGGTCACTTAATCCATGGATAAATCTAAATATAAATATATT
TACTACAAAACATTATAAATTTATAATAACATTTTCTCTAGACAGACAAAATTTATTATC
Found at i:111924518 original size:23 final size:23
Alignment explanation
Indices: 111924492--111924536 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
111924482 TAGAAATAAT
*
111924492 TAATATTGAACGTTGTATAAAAA
1 TAATATTGAACGTTATATAAAAA
*
111924515 TAATATTGAGCGTTATATAAAA
1 TAATATTGAACGTTATATAAAA
111924537 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (23 bp):
TAATATTGAACGTTATATAAAAA
Found at i:111929268 original size:34 final size:34
Alignment explanation
Indices: 111929230--111929302 Score: 78
Period size: 34 Copynumber: 2.1 Consensus size: 34
111929220 TTAATTTACG
111929230 TATTTGACAACTTAAATATAAAT-TAT-TCTATTTA
1 TATTTGAC-A-TTAAATATAAATATATGTCTATTTA
* * * *
111929264 TATTTTACATTATATATAAATATGTGTTTATTTA
1 TATTTGACATTAAATATAAATATATGTCTATTTA
111929298 TATTT
1 TATTT
111929303 AATTATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
32 11 0.33
33 3 0.09
34 19 0.58
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.53
Consensus pattern (34 bp):
TATTTGACATTAAATATAAATATATGTCTATTTA
Found at i:111936486 original size:22 final size:19
Alignment explanation
Indices: 111936461--111936511 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 19
111936451 TCTCGTTTCC
111936461 ATAATTTTACGAGTTAAATT
1 ATAATTTTACGAGTT-AATT
111936481 AAATAATATTTACGAGTTAATT
1 --ATAAT-TTTACGAGTTAATT
111936503 ATAATTTTA
1 ATAATTTTA
111936512 TATTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.14
20 5 0.18
22 9 0.32
23 10 0.36
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (19 bp):
ATAATTTTACGAGTTAATT
Found at i:111937731 original size:13 final size:12
Alignment explanation
Indices: 111937713--111937757 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
111937703 TGCATTAAAA
111937713 AATATATATACAT
1 AATATATATA-AT
111937726 AATATATATAA-
1 AATATATATAAT
*
111937737 AATACATATAAT
1 AATATATATAAT
111937749 -ATATATATA
1 AATATATATA
111937758 CGTATTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 10 0.34
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:111937738 original size:24 final size:22
Alignment explanation
Indices: 111937711--111937757 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
111937701 ATTGCATTAA
*
111937711 AAAATATATATACATAATATATAT
1 AAAATACATATA-AT-ATATATAT
111937735 AAAATACATATAATATATATAT
1 AAAATACATATAATATATATAT
111937757 A
1 A
111937758 CGTATTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATACATATAATATATATAT
Found at i:111939726 original size:76 final size:76
Alignment explanation
Indices: 111939389--111939751 Score: 402
Period size: 76 Copynumber: 4.8 Consensus size: 76
111939379 AATGTGTGAT
*
111939389 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAGAAATTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTTGAAA-ACAGAAATTGAAAA
*
111939454 TACCTCAGCATGTGAA
63 TACCTCAGCATGT--C
* * *
111939470 CGGAGGCTCAATTCACCTCTCGCAATATAAGTTGA--TTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
* *
111939533 CTCAACGTGTC
66 CTCAGCATGTC
* ** * *
111939544 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
111939605 CTCAGC--GTC
66 CTCAGCATGTC
* ** * * * *
111939614 TTGAGGCTCAACTCATTTCTAGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
111939679 CTCAGCATGTC
66 CTCAGCATGTC
* * * *
111939690 CTGAGGTTCCACTCACCTCTCGTAATATGAGTTGA-TTTTTTTTGAAAGGCAGAAATTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-ACAGAAATTGAAAA
111939752 ACGGAAATTG
Statistics
Matches: 244, Mismatches: 31, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
70 37 0.15
72 29 0.12
74 58 0.24
75 10 0.04
76 68 0.28
77 11 0.05
81 31 0.13
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (76 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
CTCAGCATGTC
Found at i:111939821 original size:90 final size:88
Alignment explanation
Indices: 111939665--111939840 Score: 219
Period size: 90 Copynumber: 2.0 Consensus size: 88
111939655 TTTTACAACA
* * * * * *
111939665 GAAATTGAAATTACCTCAGCATGTCCTGAGGTTCCACTCACCTCTCGTAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA-TTTT
111939730 TTTGA-AAGGCAGAAATTGAAAAACG
65 TTTGACAA--CAGAAATTGAAAAACG
* * *
111939755 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
111939820 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
111939841 TTACCTCAGC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 33 0.45
91 9 0.12
92 32 0.43
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:111939869 original size:312 final size:306
Alignment explanation
Indices: 111939433--111940919 Score: 1058
Period size: 312 Copynumber: 4.9 Consensus size: 306
111939423 ATTTTTTTTT
* ** * *
111939433 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACGGAGGCTCAATTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* * * * **
111939498 AAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
111939563 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA-GCGTCTTGAGGCTCAACT
129 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCACGCGTCCTGAGGCTCAACT
** * * *
111939627 CATTTCTAGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCT
194 CACCTCTCGCAATATGAGTTGA---TTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCT
* * *
111939692 GAGGTTCCACTCACCTCTCGTAATATGAGTTGATTTTTTTTGA-AAGGCAGAAA
256 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACAA--CAGAAA
* * * * *
111939745 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
*
111939810 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
****
111939875 TCGCAATATGAGTTG-ATTTT--TTTTA-AAA--G--A-TACCTCAGCGCGTCCTGAGGCTCAAC
129 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA-CGCGTCCTGAGGCTCAAC
* *** * *
111939931 TCACCTCTCGCAATATTAGTTGA---ACATACAA-A-AAATTGACAA-TACCTCAGCGTGTCCCG
193 TCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGA-AATTACCTCAGCGTGTCCTG
* *
111939990 AGGCTCAACTCACCTCTCGCAATATGAATTGA-ATTTTT-----------
257 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAA
* * **
111940028 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * **
111940092 GTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCATTTCTC
66 GTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
111940153 GCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCA-GCATGTCCTGAGGCT
131 GCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAATTACCTCACGC--GTCCTGAGGCT
* * *
111940217 CCACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAA
189 CAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAA-ACAGAAATT--------GAAA-T---
* * * *
111940282 AATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAA
240 --TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAA
111940347 CAGAAA
301 CAGAAA
111940353 TT--------GAAA-T-----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
111940404 GTTGATTTTTTT-----TA-AAA--G--A-TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTC
66 GTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* * * *
111940458 GCAATATGAATTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
131 GCAATATGAGTTGAA---TTTTGAAAACAGAAATTGAAATTACCTC-ACGCGTCCTGAGGCTCAA
** * * *
111940523 CTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAATTACCTCAGC--GTCTTG
192 CTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
**
111940586 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT-----------
257 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAA
* * * *
111940625 TTG-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
111940689 GTTAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGCAAATACCTCGGCGTGTGACCTAA
66 GTTGATTTTTTTGAAA-ACAGAAATT--------GAAA-T-----TACCTCAGCGTGT--CCTGA
* * * * *
111940754 GGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGC
114 GGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCA-C
* * *
111940819 GTGTCCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT--------AA---AAA-T
176 GCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATT
*
111940872 ACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
241 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
111940920 ACATACAAAA
Statistics
Matches: 940, Mismatches: 123, Indels: 234
0.72 0.09 0.18
Matches are distributed among these distances:
272 2 0.00
276 34 0.04
278 30 0.03
279 4 0.00
280 31 0.03
282 31 0.03
283 40 0.04
284 1 0.00
285 58 0.06
287 9 0.01
288 2 0.00
289 1 0.00
290 42 0.04
291 1 0.00
292 4 0.00
293 5 0.01
294 2 0.00
295 5 0.01
296 1 0.00
297 55 0.06
298 3 0.00
299 5 0.01
300 9 0.01
301 11 0.01
302 39 0.04
303 80 0.09
304 8 0.01
305 72 0.08
306 2 0.00
308 6 0.01
309 2 0.00
310 3 0.00
311 29 0.03
312 235 0.25
313 62 0.07
314 9 0.01
317 1 0.00
318 4 0.00
325 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (306 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCACGCGTCCTGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAA
Found at i:111939897 original size:76 final size:75
Alignment explanation
Indices: 111939755--111940719 Score: 542
Period size: 75 Copynumber: 13.1 Consensus size: 75
111939745 TTGAAAAACG
* *
111939755 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
111939820 TTTTGACAACA
65 TTTTGACAACA
* * *
111939831 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
*
111939895 TTT-----TA
66 TTTGACAACA
* * ** *
111939900 -AAA--G---ATACCTCAGCGCGT-CCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGA---A
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
**
111939955 CAT-ACAA-A
66 TTTGACAACA
* ** * *
111939963 -AAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTG-ATTT
*
111940026 TTTTGAAAACA
65 TTTTGACAACA
* * * ** * *
111940037 GAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--AT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
*
111940099 TTTGAAAACA
66 TTTGACAACA
* * * ** *
111940109 GAAATTGAAATTACCTCAGC--GT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA---T
111940171 TTTTTTGACAACA
63 TTTTTTGACAACA
* * * * * *
111940184 GAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
111940248 TTTGA-AAGGCA
66 TTTGACAA--CA
** *** * * * **
111940259 GAAATTGAAAA-A-CGGAAATTGAAAATACCT-CGGCGTGTGACCTAAGGCTCAACTCGC-CTCT
1 GAAATTGAAAATACCTCAGCGTG----TACCTAAGGC---T---C-AA--CTCACCTCTCGCAAT
* * *
111940320 -CGCAATACGAGTTGATTTTTTTGACAACA
53 ACG-AGT-TGA-TT-TTTTT---GACAACA
* * *
111940349 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
*
111940413 TTT-----TA
66 TTTGACAACA
* * * *
111940418 -AAA--G---ATACCTCAGCGCGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTG-ATTT
*
111940476 TTTTGAAAACA
65 TTTTGACAACA
* * * ** * *
111940487 GAAATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
*
111940550 TTTGAAAACA
66 TTTGACAACA
* * * ** *
111940560 GAAATTGAAATTACCTCAGC--GT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TT
111940622 TTTTTGACAACA
64 TTTTTGACAACA
* * * * * *
111940634 GAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
111940698 TTTGA-AAGGCA
66 TTTGACAA--CA
111940709 GAAATTGAAAA
1 GAAATTGAAAA
111940720 ACGGAAATTG
Statistics
Matches: 727, Mismatches: 91, Indels: 143
0.76 0.09 0.15
Matches are distributed among these distances:
60 1 0.00
63 97 0.13
64 8 0.01
65 1 0.00
66 2 0.00
68 51 0.07
69 4 0.01
70 41 0.06
71 38 0.05
72 31 0.04
73 41 0.06
74 93 0.13
75 148 0.20
76 55 0.08
77 41 0.06
78 5 0.01
79 10 0.01
80 5 0.01
81 3 0.00
82 1 0.00
83 1 0.00
84 2 0.00
85 5 0.01
86 9 0.01
87 5 0.01
88 8 0.01
90 12 0.02
91 3 0.00
92 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTAAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:111940086 original size:75 final size:75
Alignment explanation
Indices: 111939963--111940719 Score: 605
Period size: 75 Copynumber: 10.1 Consensus size: 75
111939953 AACATACAAA
* * * *
111939963 AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
111940028 TTGAAAACAG
66 TTGAAAACAG
* **
111940038 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---TT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
111940100 TTGAAAACAG
66 TTGAAAACAG
* * * ** *
111940110 AAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTT
*
111940173 TTTTGACAACAG
64 TTTTGAAAACAG
* * * *
111940185 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT-AATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
*
111940249 TTGAAAGGCAG
66 TTGAAA-ACAG
** ** * * * * * * *
111940260 AAATTGAAAA-A-CGGAAATTGAAAATACCTCG-GCGTGTGACCTAAGGCTCAACTCGC-CTCTC
1 AAATTGAAAATACCTCAACGTG----T-CCT-GAG-G-CTCAACTCA--C-C-TCTCGCAATAT-
* * * * *
111940321 GCAATACGAGTTGATTTTTTTGACAACAG
53 G-AGT-TGAATT-TTTTT---GAAAACAG
* *
111940350 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
*
111940414 TT-----TA-
66 TTGAAAACAG
* * *
111940418 AAA--G---ATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
111940478 TTGAAAACAG
66 TTGAAAACAG
* **
111940488 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA--TTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
111940551 TTGAAAACAG
66 TTGAAAACAG
* * * ** *
111940561 AAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTT
*
111940624 TTTGACAACAG
65 TTTGAAAACAG
* * * *
111940635 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT-AATTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
*
111940699 TTGAAAGGCAG
66 TTGAAA-ACAG
111940710 AAATTGAAAA
1 AAATTGAAAA
111940720 ACGGAAATTG
Statistics
Matches: 548, Mismatches: 84, Indels: 100
0.75 0.11 0.14
Matches are distributed among these distances:
63 46 0.08
64 8 0.01
66 1 0.00
68 3 0.01
69 2 0.00
70 42 0.08
71 40 0.07
72 29 0.05
73 32 0.06
74 49 0.09
75 150 0.27
76 33 0.06
77 37 0.07
78 6 0.01
79 3 0.01
80 6 0.01
81 6 0.01
82 4 0.01
83 4 0.01
84 6 0.01
85 7 0.01
86 2 0.00
87 7 0.01
88 5 0.01
90 12 0.02
91 4 0.01
92 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (75 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
TTGAAAACAG
Found at i:111940199 original size:147 final size:145
Alignment explanation
Indices: 111939905--111940996 Score: 830
Period size: 147 Copynumber: 7.4 Consensus size: 145
111939895 TTTTAAAAGA
* * ** *
111939905 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGAA-CAT-ACAA-A-AAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
* *
111939966 TTGACAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTT
66 TTGA-AATTACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTT
* *
111940030 GAAAACAGAAATTGAAAA
128 GACAACAGAAATTGAAAT
* * **
111940048 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
* ** *
111940113 TTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTG
66 TTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTTTTG
111940178 ACAACAGAAATTGAAAT
129 ACAACAGAAATTGAAAT
* * *
111940195 TACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT-AATTTTTTTGAAAGGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTGAAA-ACA
* * *
111940259 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGT-GTGA-CCT-AAGGCTCAACTCGCCTCTC
62 GAAATT--------GAAA-T-----TACCTCAGCGTCCTGAGGCTCAA--CTC-A----CCTCTC
*
111940321 GCAATACGAGTTG-ATTTTTTTGACAACAGAAATTGAAAT
106 GCAATATGAGTTGAATTTTTTTGACAACAGAAATTGAAAT
****
111940360 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT--TTTTA-AAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
*
111940421 --G--A-TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTG
66 TTGAAATTACCTCA--GCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
* *
111940481 AAAACAGAAATTGAAAA
129 ACAACAGAAATTGAAAT
* * **
111940498 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAA
* ** *
111940563 ATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTG
65 ATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTTTTG
111940628 ACAACAGAAATTGAAAT
129 ACAACAGAAATTGAAAT
* * *
111940645 TACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT-AATTTTTTTGAAAGGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA---TTTTGAAA-ACA
* * *
111940709 GAAATTGAAAAACGGAAATTGCAAATACCTCGGCGT-GTGA-CCT-AAGGCTCAACTCGCCTCTC
62 GAAATT--------GAAA-T-----TACCTCAGCGTCCTGAGGCTCAA--CTC-A----CCTCTC
* *
111940771 ACAATACGAGTTG-ATTTTTTTGACAACAGAAATTGAAAT
106 GCAATATGAGTTGAATTTTTTTGACAACAGAAATTGAAAT
* * *
111940810 TACCTCAGCGTGTCCTAAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT----------T
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
* * **
111940864 TTAAAAATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA----CAT-
66 TTGAAATTACCTCA--GCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
111940924 ACAA-A-AAATTGACAA-
129 ACAACAGAAATTGA-AAT
*
111940939 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
111940997 TAAAACATCA
Statistics
Matches: 771, Mismatches: 91, Indels: 183
0.74 0.09 0.18
Matches are distributed among these distances:
129 52 0.07
130 8 0.01
131 4 0.01
132 1 0.00
135 17 0.02
136 1 0.00
137 23 0.03
138 68 0.09
139 12 0.02
140 10 0.01
141 7 0.01
142 9 0.01
143 52 0.07
144 3 0.00
145 37 0.05
146 44 0.06
147 145 0.19
148 17 0.02
149 16 0.02
150 8 0.01
151 2 0.00
157 4 0.01
158 8 0.01
159 2 0.00
160 2 0.00
161 4 0.01
162 16 0.02
163 17 0.02
164 11 0.01
165 140 0.18
167 15 0.02
168 16 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (145 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
TTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAC
AACAGAAATTGAAAT
Found at i:111940338 original size:91 final size:88
Alignment explanation
Indices: 111940184--111940358 Score: 235
Period size: 91 Copynumber: 2.0 Consensus size: 88
111940174 TTTGACAACA
* * * *
111940184 GAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTAATTTTT
111940249 TTGA-AAGGCAGAAATTGAAAAACG
66 TTGACAA--CAGAAATTGAAAAACG
* * * *
111940273 GAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCATGT--CCTAAGGCTCAACTCACCTCTCGCAATACGAGTTAATTT
111940338 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
111940359 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 40 0.53
92 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (88 bp):
GAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATACGAGTTAATTTTT
TTGACAACAGAAATTGAAAAACG
Found at i:111940422 original size:518 final size:522
Alignment explanation
Indices: 111939434--111940700 Score: 2070
Period size: 518 Copynumber: 2.4 Consensus size: 522
111939424 TTTTTTTTTT
** * *
111939434 TGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACGGAGGCTCAATTCACCTCTCGCAATAT-
1 TGAAA-ACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
111939498 AAGTTG-ATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
63 AA-TTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
111939562 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACT
127 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACT
*
111939627 CATTTCTAGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCT
192 CATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCT
* * *
111939692 GAGGTTCCACTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAAACGGA
257 GAGGCTCCACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGGCAGAAATTGAAAAACGGA
111939757 AATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTT
322 AATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTT
111939822 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
387 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
111939887 TTGATTTTTTTTAAAAGATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTT
452 TTGATTTTTTTTAAAAGATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
111939952 GAA-CA
517 GAATCA
* *
111939957 T-ACAA-A-AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
1 TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
111940019 TGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
66 TGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
111940084 CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATT
131 CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATT
111940149 TCTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAG
196 TCTCGCAATATGAGTTGATTTTTTTTTT-ACAACAGAAATTGAAATTACCTCAGCATGTCCTGAG
111940214 GCTCCACTCACCTCTCGCAATATGAGTT-AATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAAT
260 GCTCCACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAAT
111940278 TGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTG
325 TGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTG
111940343 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
390 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
111940408 ATTTTTTTTAAAAGATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAA
455 ATTTTTTTTAAAAGATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAA
**
111940473 TTTTTT
520 ---TCA
* ** ** *
111940479 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
* *
111940544 TGAA--TTTTTGAAAACAGAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCATTTCTCG
66 TGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
* * * *
111940605 CAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCA
131 CAATATGAGTTGA----ATTTTGAAAACAGAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAA
** *
111940670 CTCACCTCTCGCAATATGAGTTAATTTTTTT
190 CTCATTTCTCGCAATATGAGTTGATTTTTTT
111940701 GAAAGGCAGA
Statistics
Matches: 697, Mismatches: 31, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
517 32 0.05
518 384 0.55
519 80 0.11
520 1 0.00
521 40 0.06
522 4 0.01
523 32 0.05
524 1 0.00
525 83 0.12
527 40 0.06
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (522 bp):
TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
TGAATTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
CAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATT
TCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGG
CTCCACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
GAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTAAAAGATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAAT
CA
Found at i:111940459 original size:63 final size:64
Alignment explanation
Indices: 111940360--111940484 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 64
111940350 AAATTGAAAT
* * *
111940360 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTTAAAAGA
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAAGA
111940423 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAA
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAA
111940485 CAGAAATTGA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 46 0.79
64 12 0.21
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (64 bp):
TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAAGA
Found at i:111940496 original size:138 final size:140
Alignment explanation
Indices: 111940303--111940700 Score: 509
Period size: 138 Copynumber: 2.8 Consensus size: 140
111940293 GTGTGACCTA
* *
111940303 AGGCTCAACTCGCCTCTCGCAATACGAGTTG-ATTTTTTTGACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGACAACAGAAATTGAAATTACCTCA
*
111940367 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTA-AAA-G-A-TACCT
66 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCAGAAATGAATTACCT
111940428 CAGCGCGTCCTG
131 CA--GCGTCCTG
* * *
111940440 AGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGACAACAGAAATTGAAATTACCTCA
* * ** **
111940505 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAA
66 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT---TTCAGAAA-TG-AA
*
111940570 TTACCTCAGCGTCTTG
125 TTACCTCAGCGTCCTG
** *
111940586 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTTTTTTGACAACAGAAATTGAAATTACCTC
* * *
111940651 AGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATTTTTTT
65 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
111940701 GAAAGGCAGA
Statistics
Matches: 221, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
137 28 0.13
138 68 0.31
139 6 0.03
142 1 0.00
143 3 0.01
145 1 0.00
146 42 0.19
147 65 0.29
148 7 0.03
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (140 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGACAACAGAAATTGAAATTACCTCA
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCAGAAATGAATTACCT
CAGCGTCCTG
Found at i:111940498 original size:450 final size:448
Alignment explanation
Indices: 111939394--111940996 Score: 1866
Period size: 450 Copynumber: 3.6 Consensus size: 448
111939384 GTGATCTGAA
* * *
111939394 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GCTCAACTCACCTCTCGCAATACGAGTTGA----TTTTTTTGACA-ACAGAAATTGAAATTACCT
** * * * *
111939459 CAGCATGTGAACGGAGGCTCAATTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAAT
61 CAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----TA-AAA-
* * * ** *
111939524 TGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
117 TG--AATACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAAA
* * *
111939589 CAGAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCATTTCTAGCAATATGAGTTGATTT
180 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---
* * * * * * ** *
111939652 TTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGTTCCACTCACCTCTCGTAATA
242 -ATTTTGAAAACAGAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCATTTCTCGCAATA
* * * * *
111939717 TGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGAC
304 TGAGTTGATTTTTTTT------------TTG-ACAACAGAAATTGAAATTACCTCAGCATGT--C
* * * * *
111939782 CTAAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAA--CAGAAATT--------
354 CTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATTTTTTTGA-AAGGCAGAAATTGAAAAACG
* *
111939837 GAAA-T----TACCTCAGCGTGT--CCTGAG
418 GAAATTGAAATACCTCGGCGTGTGACCTAAG
* *
111939861 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-----TA-AAA--G--A-TACCTCAGCG
1 GCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
* * *** ****
111939915 CGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGAACATACAAAAAATTGACAATACCTCA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAA-TG--AATACCTCA
* *
111939980 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAACAGAAATTGA
128 GCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAA---TTTTGAAAACAGAAATTGA
111940045 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
190 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
111940110 AAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT
255 AAATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT
111940175 TTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAG
320 TTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAG
111940240 TTAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTAAG
385 TTAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG-AAATACCTCGGCGTGTGACCTAAG
*
111940305 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
111940370 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAA-G-ATACCTCAGCG
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAATGAATACCTCAGCG
111940433 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTGAAAACAGAAATTGAAAA
131 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAA---TTTTGAAAACAGAAATTGAAAA
111940498 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAA
193 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAGAA
111940563 ATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTT
257 ATTGAAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTT
111940627 GACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT
322 GACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTT
111940692 AATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGCAAATACCTCGGCGTGTGACCTAAG
387 AATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG-AAATACCTCGGCGTGTGACCTAAG
* *
111940755 GCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
* *
111940820 TGTCCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT-AAA--AATACCTCAGCG
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAATGAATACCTCAGCG
* ** * *
111940881 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-CAT-ACAA-A-AAATTGACAATAC
131 CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAAACAGAAATTGAAAATAC
* * ** *
111940942 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAA
196 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
111940997 TAAAACATCA
Statistics
Matches: 1027, Mismatches: 73, Indels: 99
0.86 0.06 0.08
Matches are distributed among these distances:
426 2 0.00
427 40 0.04
428 8 0.01
429 25 0.02
430 3 0.00
436 4 0.00
437 1 0.00
440 8 0.01
441 54 0.05
442 53 0.05
443 56 0.05
444 71 0.07
446 27 0.03
447 1 0.00
448 91 0.09
449 43 0.04
450 364 0.35
451 78 0.08
452 2 0.00
453 1 0.00
454 2 0.00
455 52 0.05
456 3 0.00
457 1 0.00
463 7 0.01
467 30 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (448 bp):
GCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAATGAATACCTCAGCG
CGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
AAATTACCTCAGCGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACA
ACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAGTTAATT
TTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAATACCTCGGCGTGTGACCTAAG
Found at i:111940850 original size:74 final size:75
Alignment explanation
Indices: 111940723--111940865 Score: 209
Period size: 74 Copynumber: 1.9 Consensus size: 75
111940713 TTGAAAAACG
* * *
111940723 GAAATTGCAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCACAATACGAGTTGATTT
1 GAAATTGCAAATACCTCAGCGTGT-ACCTAAAGCTCAACTCACCTCTCACAATACGAGTTGATTT
111940788 TTTTGACAACA
65 TTTTGACAACA
* *
111940799 GAAATTG-AAATTACCTCAGCGTGT-CCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGCAAA-TACCTCAGCGTGTACCTAAAGCTCAACTCACCTCTCACAATACGAGTTGATTT
111940862 TTTT
65 TTTT
111940866 AAAAATACCT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 39 0.64
75 3 0.05
76 19 0.31
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (75 bp):
GAAATTGCAAATACCTCAGCGTGTACCTAAAGCTCAACTCACCTCTCACAATACGAGTTGATTTT
TTTGACAACA
Found at i:111940905 original size:61 final size:61
Alignment explanation
Indices: 111940810--111940992 Score: 204
Period size: 68 Copynumber: 2.9 Consensus size: 61
111940800 AAATTGAAAT
* *
111940810 TACCTCAGCGTGTCCTAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA
* **** *
111940871 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATACAAAAAATTGA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG---AT----TTTTTTAA
*
111940936 CAA
59 AAA
* *
111940939 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
111940993 GAAATAAAAC
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
61 45 0.45
64 2 0.02
65 1 0.01
68 51 0.52
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (61 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA
Found at i:111941335 original size:17 final size:18
Alignment explanation
Indices: 111941310--111941343 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
111941300 ATATCACTCT
111941310 TTTGCCCTTG-GTTGAGC
1 TTTGCCCTTGCGTTGAGC
*
111941327 TTTGTCCTTGCGTTGAG
1 TTTGCCCTTGCGTTGAG
111941344 GCTCTTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.21, G:0.29, T:0.44
Consensus pattern (18 bp):
TTTGCCCTTGCGTTGAGC
Found at i:111950990 original size:15 final size:15
Alignment explanation
Indices: 111950957--111950990 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
111950947 TTAGGAAACG
*
111950957 TACATAAAAAATATA
1 TACATAAAAAAAATA
*
111950972 TACATAAAAAAAATT
1 TACATAAAAAAAATA
111950987 TACA
1 TACA
111950991 ACAATAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
TACATAAAAAAAATA
Found at i:111952655 original size:15 final size:15
Alignment explanation
Indices: 111952635--111952673 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
111952625 AACATGTGCA
111952635 TATATATATATAAAT
1 TATATATATATAAAT
*
111952650 TATATATATATAATT
1 TATATATATATAAAT
111952665 TATATATAT
1 TATATATAT
111952674 GCATGGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATATATAAAT
Found at i:111956278 original size:16 final size:17
Alignment explanation
Indices: 111956254--111956287 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
111956244 AAATAAACAA
111956254 ATAAAAGAAA-TGAAAC
1 ATAAAAGAAATTGAAAC
*
111956270 ATAATAGAAATTGAAAC
1 ATAAAAGAAATTGAAAC
111956287 A
1 A
111956288 GAGAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
ATAAAAGAAATTGAAAC
Found at i:111957290 original size:41 final size:43
Alignment explanation
Indices: 111957220--111957312 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
111957210 GACCTCGAGT
*
111957220 CGATGAGGCACTATATGTGTCATAATATTGC-TTCGAATAATTC
1 CGATGAGGCAC-ATATGTGTCATAATATTGCTTTCGAATAAATC
* * * *
111957263 CGATGAGGCAC-TATGTGTCGTATTATTGCTTTGGATTAAATC
1 CGATGAGGCACATATGTGTCATAATATTGCTTTCGAATAAATC
111957305 CGATGAGG
1 CGATGAGG
111957313 TATTAGGTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
41 16 0.36
42 17 0.39
43 11 0.25
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
CGATGAGGCACATATGTGTCATAATATTGCTTTCGAATAAATC
Found at i:111959693 original size:22 final size:21
Alignment explanation
Indices: 111959668--111959733 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
111959658 TATCCAGATA
111959668 ATAATAACAAAATAGTAGCAAT
1 ATAATAA-AAAATAGTAGCAAT
** *
111959690 ATAATAGTGAAAT-GATAGCAAA
1 ATAATA-AAAAATAG-TAGCAAT
*
111959712 ATAAT-AAAAATAGCAGCAAT
1 ATAATAAAAAATAGTAGCAAT
111959732 AT
1 AT
111959734 TTATTTTCTG
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
20 11 0.32
21 2 0.06
22 21 0.62
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (21 bp):
ATAATAAAAAATAGTAGCAAT
Found at i:111964376 original size:23 final size:25
Alignment explanation
Indices: 111964335--111964381 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
111964325 AGTAGAAATT
111964335 GAATTAGAATCTGAGTGAG-ATATG
1 GAATTAGAATCTGAGTGAGTATATG
* *
111964359 GAATTA-AATCTTATTGAGTATAT
1 GAATTAGAATCTGAGTGAGTATAT
111964382 TTTCATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.36
Consensus pattern (25 bp):
GAATTAGAATCTGAGTGAGTATATG
Found at i:111967568 original size:24 final size:24
Alignment explanation
Indices: 111967527--111967575 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
111967517 GGGTCATTCT
**
111967527 CCAACACATTAAAGGGGCCCTTTG
1 CCAACACACCAAAGGGGCCCTTTG
* *
111967551 CCAACACACCAAATGGGCCTTTTG
1 CCAACACACCAAAGGGGCCCTTTG
111967575 C
1 C
111967576 TTGTACACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (24 bp):
CCAACACACCAAAGGGGCCCTTTG
Found at i:111968219 original size:4 final size:4
Alignment explanation
Indices: 111968210--111968251 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
111968200 GGTTAAGGAA
111968210 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
111968252 TTATCTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:111985018 original size:29 final size:28
Alignment explanation
Indices: 111984952--111985025 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
111984942 AAGTCTACAT
* *
111984952 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
111984980 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
111985009 ACATTTATATGACCCAT
1 ACATTCATATGGCCCAT
111985026 CTTGCCCGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:111985909 original size:18 final size:18
Alignment explanation
Indices: 111985888--111985931 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
111985878 GATCGGTTAA
111985888 TCAGTAACAATCATTTAT
1 TCAGTAACAATCATTTAT
* * *
111985906 TCAGTATCAGTCGTTTAT
1 TCAGTAACAATCATTTAT
*
111985924 TCAATAAC
1 TCAGTAAC
111985932 GGTGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (18 bp):
TCAGTAACAATCATTTAT
Found at i:111986237 original size:20 final size:20
Alignment explanation
Indices: 111986212--111986261 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
111986202 GTAACAGTAG
111986212 TCGACACAAATAGTGTCTCA
1 TCGACACAAATAGTGTCTCA
111986232 TCGACACAAATAGTGTCTCA
1 TCGACACAAATAGTGTCTCA
111986252 TCGACACAAA
1 TCGACACAAA
111986262 GTCAGAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (20 bp):
TCGACACAAATAGTGTCTCA
Found at i:111987169 original size:16 final size:17
Alignment explanation
Indices: 111987135--111987169 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
111987125 ATATAATAAC
111987135 AATAATCAATATCTATTT
1 AATAATCAATA-CTATTT
111987153 AATAATCAATA-TATTT
1 AATAATCAATACTATTT
111987169 A
1 A
111987170 TTACAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (17 bp):
AATAATCAATACTATTT
Found at i:111995212 original size:3 final size:3
Alignment explanation
Indices: 111995204--111995252 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
111995194 GCTTCCTTAC
111995204 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111995252 T
1 T
111995253 TTTCTTTGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:112007035 original size:6 final size:7
Alignment explanation
Indices: 112007023--112007059 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
112007013 TATCACATTA
112007023 ATATTTT
1 ATATTTT
112007030 -TATTTT
1 ATATTTT
112007036 ATAGTTTT
1 ATA-TTTT
112007044 ATATTTT
1 ATATTTT
112007051 -TATTTT
1 ATATTTT
112007057 ATA
1 ATA
112007060 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 12 0.44
7 8 0.30
8 7 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (7 bp):
ATATTTT
Found at i:112013182 original size:2 final size:2
Alignment explanation
Indices: 112013177--112013214 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
112013167 TAAATGATAC
112013177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112013215 GTTTTATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112013834 original size:18 final size:18
Alignment explanation
Indices: 112013813--112013866 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
112013803 AAATTAAATA
112013813 ATTATTTTAAATATTATT
1 ATTATTTTAAATATTATT
* **
112013831 ATTATTTT-TATATGTAAA
1 ATTATTTTAAATAT-TATT
*
112013849 AATATTTTAAATATTATT
1 ATTATTTTAAATATTATT
112013867 GTTTTTCATC
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTATTTTAAATATTATT
Found at i:112017381 original size:2 final size:2
Alignment explanation
Indices: 112017336--112017367 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112017326 TTAATTGATT
112017336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112017368 ATTAATCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112045235 original size:49 final size:48
Alignment explanation
Indices: 112045181--112045535 Score: 306
Period size: 49 Copynumber: 7.5 Consensus size: 48
112045171 TTGCTGGTGC
*
112045181 CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCTGATG
1 CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATG
112045229 CCATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATG
1 -CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * * * * ** *
112045278 CCATGTCCCATACGTGGTCTTATACTAGCTCTCAT-ATATAGTGCTGATG
1 -CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAG-GCCGATG
* * *
112045327 CATGTTCCAGACAT-GTCTTACACTAGC-A-CAAC-TCTTA-GCCGATG
1 CATGTCCCAGACATCGTCTTACACTAGCTATCATCATC-GAGGCCGATG
** * * * *
112045371 TGTGTCCCAGACA-CGTATTACACTGGCTATCATCGTCAAGGCCGATG
1 CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
112045418 CATGTCCCAGAC-TTGTCTTACACTGGC-ACTCATC-TCTG-TGCCGATG
1 CATGTCCCAGACATCGTCTTACACTAGCTA-TCATCATC-GAGGCCGATG
* * * * *
112045464 CCATGTCCCAGACATGGTCTTATACTGGC-ACTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATCGTCTTACACTAGCTA-TCATCATCGAGGCCGATG
112045512 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATCGTCTTACACT
112045536 GGCACATAAG
Statistics
Matches: 256, Mismatches: 35, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
44 27 0.11
45 4 0.02
46 25 0.10
47 75 0.29
48 41 0.16
49 84 0.33
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:112045540 original size:94 final size:94
Alignment explanation
Indices: 112045178--112045535 Score: 347
Period size: 94 Copynumber: 3.8 Consensus size: 94
112045168 AAGTTGCTGG
* *
112045178 TGCCATGTCCCAGACATCGTCTTACACTAGCTATCATCATCGAGGCTGATGCCATGTCCCAGACA
1 TGCCATGTCCCAGACATCGTCTTACACTAGCTATCATAATCGAGGCCGATG-CATGTCCCAGACA
*
112045243 TCGTCTTACACTAGCTATCATCATC-GAGGCCGA
65 T-GTCTTACACTAGC-ATCATC-TCTG-TGCCGA
* * * * * * *
112045276 TGCCATGTCCCATACGTGGTCTTATACTAGCTCTCATATAT--AGTGCTGATGCATGTTCCAGAC
1 TGCCATGTCCCAGACATCGTCTTACACTAGCTATCATA-ATCGAG-GCCGATGCATGTCCCAGAC
*
112045339 ATGTCTTACACTAGCA-CAACTCT-TAGCCGA
64 ATGTCTTACACTAGCATCATCTCTGT-GCCGA
** * * ** * *
112045369 TG-TGTGTCCCAGACA-CGTATTACACTGGCTATCATCGTCAAGGCCGATGCATGTCCCAGACTT
1 TGCCATGTCCCAGACATCGTCTTACACTAGCTATCATAATCGAGGCCGATGCATGTCCCAGACAT
*
112045432 GTCTTACACTGGCACTCATCTCTGTGCCGA
66 GTCTTACACTAGCA-TCATCTCTGTGCCGA
* * * *
112045462 TGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCATAAT-GTGGCCGATGCATGTCCCAGACA
1 TGCCATGTCCCAGACATCGTCTTACACTAGCTA-TCATAATCGAGGCCGATGCATGTCCCAGACA
112045525 TGTCTTACACT
65 TGTCTTACACT
112045536 GGCACATAAG
Statistics
Matches: 213, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
90 1 0.00
91 46 0.22
92 11 0.05
93 22 0.10
94 47 0.22
95 17 0.08
96 13 0.06
97 15 0.07
98 39 0.18
99 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
TGCCATGTCCCAGACATCGTCTTACACTAGCTATCATAATCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCATCATCTCTGTGCCGA
Found at i:112052656 original size:17 final size:17
Alignment explanation
Indices: 112052628--112052661 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
112052618 CAAATGAATT
112052628 AATTATTAATTAGATTGA
1 AATTATTAATTA-ATTGA
112052646 AATTA-TAATTAATTGA
1 AATTATTAATTAATTGA
112052662 CACAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTATTAATTAATTGA
Found at i:112055464 original size:28 final size:28
Alignment explanation
Indices: 112055168--112055466 Score: 429
Period size: 28 Copynumber: 10.7 Consensus size: 28
112055158 ACTCGATATT
*
112055168 TCGCACACTAAGTGCCATAC-CAAATGTC
1 TCGCACACTAAGTGCCGTACTC-AATGTC
* **
112055196 TCGCACACTAAGTGCCATTTTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055224 TCACACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055252 TCGCACACTAAGTTCCATACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
*
112055280 TTGCACACTAAGTGCCGTACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055308 TTGCACACTAAGTGCCGTACTAAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055336 TTGCACACTAAGTGCCGTACTAAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055364 TCGTACACTAAGTCCCGTACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
* *
112055392 TCGTACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
112055420 TCGCACACTAAGTGCCGTACTCAATGTC
1 TCGCACACTAAGTGCCGTACTCAATGTC
112055448 TCGCACACTAAGTGCCGTA
1 TCGCACACTAAGTGCCGTA
112055467 TATAGCTGAA
Statistics
Matches: 251, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
28 250 1.00
29 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
TCGCACACTAAGTGCCGTACTCAATGTC
Found at i:112055500 original size:68 final size:69
Alignment explanation
Indices: 112055420--112055570 Score: 252
Period size: 68 Copynumber: 2.2 Consensus size: 69
112055410 ACTCAATGTC
* *
112055420 TCGCACACTAAGTGCCG-TACTCAATGTCTCGCACACTAAGTGCCGTATATAGCTGAAGCTATCT
1 TCGCACACTAAGTGCCGATACTCAATATCTCACACACTAAGTGCCGTATATAGCTGAAGCTATCT
112055484 TAAA
66 TAAA
*
112055488 TCGCACACTAAGTG-CGATACTCAATATCTCACACACTAAGTGCCGTATATAGCTGAAGCTATTT
1 TCGCACACTAAGTGCCGATACTCAATATCTCACACACTAAGTGCCGTATATAGCTGAAGCTATCT
112055552 TAAA
66 TAAA
*
112055556 TCACACACTAAGTGC
1 TCGCACACTAAGTGC
112055571 TAAACATAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
67 2 0.03
68 75 0.97
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (69 bp):
TCGCACACTAAGTGCCGATACTCAATATCTCACACACTAAGTGCCGTATATAGCTGAAGCTATCT
TAAA
Found at i:112059548 original size:17 final size:19
Alignment explanation
Indices: 112059512--112059557 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
112059502 TGATTTTATT
*
112059512 AATCATAATATAATATATA
1 AATCATAATATAAAATATA
112059531 AATCAT-AT-TAAAATATA
1 AATCATAATATAAAATATA
112059548 AATCAATAAT
1 AATC-ATAAT
112059558 GAACCTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 12 0.50
18 4 0.17
19 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATCATAATATAAAATATA
Found at i:112060166 original size:4 final size:4
Alignment explanation
Indices: 112060148--112060186 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
112060138 TCATCCACAA
* * *
112060148 ATAT ATGT ATGT ATAT ATAT ATAT ATAT ATAT ATCT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
112060187 ATCATCAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:112060170 original size:6 final size:6
Alignment explanation
Indices: 112060148--112060186 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
112060138 TCATCCACAA
* * *
112060148 ATATAT GTATGT ATATAT ATATAT ATATAT ATATCT ATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATA
112060187 ATCATCAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:112065165 original size:6 final size:6
Alignment explanation
Indices: 112065154--112065178 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112065144 AAATAAAAGT
112065154 TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA T
112065179 AAATAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:112074098 original size:52 final size:51
Alignment explanation
Indices: 112073980--112074157 Score: 211
Period size: 51 Copynumber: 3.5 Consensus size: 51
112073970 CGGATACCCG
* * * * *
112073980 GTGGCCTGCACATAGTACAACCCTTGT-ATTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACAACACTTGTGA-CCAAAGCTATCTTCTTTACAAA
* *
112074031 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTTAAAAA
1 GTGGCCTTCACATAGTACAACACTTGTGACCAAAGCTATC-TTCTTTACAAA
* * *
112074083 GTGGCTTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCT-CAAT
1 GTGGCCTTCACATAGTACAACACTTGTGACCAAAGCTATCTTCTT-TACAAA
112074132 GTGGCCTTCACATAGTACAACACTTG
1 GTGGCCTTCACATAGTACAACACTTG
112074158 AATCACTAGT
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 30 0.27
50 1 0.01
51 41 0.37
52 40 0.36
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACAACACTTGTGACCAAAGCTATCTTCTTTACAAA
Found at i:112087644 original size:23 final size:23
Alignment explanation
Indices: 112087617--112087664 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
112087607 ACAAATTATT
112087617 AACATGCTTTTATAAATCCCCAA
1 AACATGCTTTTATAAATCCCCAA
112087640 AACATGCTTTTATAAATCCCCAA
1 AACATGCTTTTATAAATCCCCAA
112087663 AA
1 AA
112087665 TATATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.29
Consensus pattern (23 bp):
AACATGCTTTTATAAATCCCCAA
Found at i:112087678 original size:22 final size:23
Alignment explanation
Indices: 112087617--112087672 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
112087607 ACAAATTATT
*
112087617 AACATGCTTTTATAAATCCCCAA
1 AACATGATTTTATAAATCCCCAA
*
112087640 AACATGCTTTTATAAATCCCCAA
1 AACATGATTTTATAAATCCCCAA
*
112087663 AATAT-ATTTT
1 AACATGATTTT
112087673 CAAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
AACATGATTTTATAAATCCCCAA
Found at i:112091347 original size:16 final size:15
Alignment explanation
Indices: 112091309--112091348 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
112091299 TAGTTTTCAA
*
112091309 TTTTCTTTAGTTTAT
1 TTTTATTTAGTTTAT
112091324 TTTGTATTTAGGTTTAT
1 TTT-TATTTA-GTTTAT
112091341 TTTTATTT
1 TTTTATTT
112091349 GTAATTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 9 0.41
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (15 bp):
TTTTATTTAGTTTAT
Found at i:112092900 original size:39 final size:39
Alignment explanation
Indices: 112092857--112092938 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
112092847 ATGAAAATAG
112092857 ATTCATCATGGTTCAATTTCATAATTTATTCACTATTTA
1 ATTCATCATGGTTCAATTTCATAATTTATTCACTATTTA
112092896 ATTCATCATGGTTCAATTTCATAATTTATTCACTATTTA
1 ATTCATCATGGTTCAATTTCATAATTTATTCACTATTTA
112092935 ATTC
1 ATTC
112092939 TACTTCTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (39 bp):
ATTCATCATGGTTCAATTTCATAATTTATTCACTATTTA
Found at i:112093848 original size:29 final size:29
Alignment explanation
Indices: 112093758--112093917 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
112093748 CCTCCATTTC
* * **
112093758 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
112093787 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
112093815 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
112093845 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
112093874 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
112093903 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
112093918 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:112104063 original size:29 final size:29
Alignment explanation
Indices: 112103973--112104132 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
112103963 ACTCGATTTC
* * **
112103973 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
112104002 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
112104030 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
112104060 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
112104089 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
112104118 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
112104133 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:112114848 original size:41 final size:41
Alignment explanation
Indices: 112114710--112114853 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 41
112114700 TTGTAAAACG
* * * * *
112114710 CAGAGCAATAGCGGCGTTTTTTCATAAAACGACGCTAAAAATA
1 CAGAGCAATAGTGGCG-TTTTACAGAAAACGCCGCCAAAAA-A
*
112114753 TAGA--AATAGTGGCGTTTTACAGAAAACGCCGCCAAAAAA
1 CAGAGCAATAGTGGCGTTTTACAGAAAACGCCGCCAAAAAA
* * * **
112114792 CATAGCAATAATGGCGTTTTACCA-AAAACGCCGCTAAAAGC
1 CAGAGCAATAGTGGCGTTTTA-CAGAAAACGCCGCCAAAAAA
*
112114833 CAGAGCATTAGTGGCGCTTTT
1 CAGAGCAATAGTGGCG-TTTT
112114854 GGTAAAACGC
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
39 3 0.04
40 20 0.24
41 50 0.61
42 6 0.07
43 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (41 bp):
CAGAGCAATAGTGGCGTTTTACAGAAAACGCCGCCAAAAAA
Found at i:112114861 original size:41 final size:41
Alignment explanation
Indices: 112114816--112114953 Score: 170
Period size: 41 Copynumber: 3.4 Consensus size: 41
112114806 CGTTTTACCA
* * * *
112114816 AAAACGCCGCTAAAAGCCAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
* *
112114857 AAAACGCCACTAAAAACCAAAGAATTAGCGGCGC-TTTGTAT
1 AAAACGCCACTAAAAACCAAAGCATTAGCGGCGCTTTTG-GT
* * *
112114898 AAAATGCCACTAAAAACCAAAGCATTAGCAGCGCTTTCGGT
1 AAAACGCCACTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
*
112114939 AAAACGACACTAAAA
1 AAAACGCCACTAAAA
112114954 GTTATTTAAC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.91
42 3 0.04
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (41 bp):
AAAACGCCACTAAAAACCAAAGCATTAGCGGCGCTTTTGGT
Found at i:112115014 original size:47 final size:45
Alignment explanation
Indices: 112114960--112115069 Score: 121
Period size: 47 Copynumber: 2.4 Consensus size: 45
112114950 AAAAGTTATT
*
112114960 TAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACACTAATCTA
1 TAACCCCTAAAACCCTAAACCCCAAAAAACAT-AA-ACACTAAACTA
** ** * *
112115007 TAACCCCTAAAATACTAAACCCCCTAAACCCTAAACACTAAACTA
1 TAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAAACTA
**
112115052 TAACCTTTAAAACCCTAA
1 TAACCCCTAAAACCCTAA
112115070 TTAAACCCCA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 24 0.46
46 2 0.04
47 26 0.50
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (45 bp):
TAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAAACTA
Found at i:112116068 original size:114 final size:115
Alignment explanation
Indices: 112115855--112116340 Score: 479
Period size: 114 Copynumber: 4.2 Consensus size: 115
112115845 AAAAATTGGA
* * * * *
112115855 TTTAGCGGCGCTAGGGAATAAACGCCGCTAAAGGGTTATTTTGTTTAGATCAAAACGGTGTAGTT
1 TTTAGCGGCGCTAGGGTATAAACGCCACT-AATGGTTATTCTGTTTATATCAAAACGGTGTAGTT
* * * ** * * *
112115920 TTTATGGATTTTTAGTGGCATTTTTGTTTCAAACGCCACAATAGGTTTG-A
65 TTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGCC
* * *
112115970 TTTAGCGGCGCTAGGGTATAAACGCCACTAATGGTTATTTTGTTTATATCAACACGATGTAGTTT
1 TTTAGCGGCGCTAGGGTATAAACGCCACTAATGGTTATTCTGTTTATATCAAAACGGTGTAGTTT
*
112116035 TATTTGG-TTATTAGTGGCGTTTTAGGGTAAAACGCCGCAATA-GTTTCGCC
66 T-TTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTT-GCC
* * * * * *
112116085 TTTAGCGACGCT-TGGTGATAAAACGCCACAAAAT-GTTATTCTGTTCATATGAAAAC-GTCGTC
1 TTTAGCGGCGCTAGGGT-AT-AAACGCCAC-TAATGGTTATTCTGTTTATATCAAAACGGT-GTA
* * *
112116147 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTGAAACGCCGCAATTGATTTGCC
62 G-TTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGCC
* * * *
112116202 TTTAGCGGCGCTATGGG-AAAAACGCCACTAAAGTTTATTCTGTTTATATCAAAACGGTGTTGTT
1 TTTAGCGGCGCTA-GGGTATAAACGCCACTAATGGTTATTCTGTTTATATCAAAACGGTGTAGTT
* * * * * *
112116266 TTGTTT-GTTTTTTAGTAGCG-GTTATGTTAAAACGCCGCAATTGGTTTGCC
65 TT-TTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGCC
*
112116316 TTTAGCGGCGCTAGGGGA-AAACGCC
1 TTTAGCGGCGCTAGGGTATAAACGCC
112116341 GCAAATGTTA
Statistics
Matches: 311, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
113 14 0.05
114 104 0.33
115 63 0.20
116 69 0.22
117 56 0.18
118 3 0.01
119 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (115 bp):
TTTAGCGGCGCTAGGGTATAAACGCCACTAATGGTTATTCTGTTTATATCAAAACGGTGTAGTTT
TTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCGCAATAGGTTTGCC
Found at i:112116526 original size:59 final size:59
Alignment explanation
Indices: 112116418--112116547 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 59
112116408 TATTCATTTT
** * * ** *
112116418 CCCCCTTCTCATTGGTTTATTTCCCCCATTTTCCCTTCTTCGAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTCCCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
*
112116477 CCCCCTTCTCCCTAGTTTATCTCCCCCCATTTTCCCTAATT-GAAACCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTAT-TCCCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
*
112116536 CCCCTTTCTCCC
1 CCCCCTTCTCCC
112116548 CAATTTGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 44 0.72
60 17 0.28
ACGTcount: A:0.21, C:0.39, G:0.04, T:0.36
Consensus pattern (59 bp):
CCCCCTTCTCCCTAGTTTATTCCCCCCATTTTCCCTAATTCGAAACCCTAAAATAATCA
Found at i:112118937 original size:9 final size:9
Alignment explanation
Indices: 112118925--112118955 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
112118915 ATATCATATA
112118925 ATAACTTAC
1 ATAACTTAC
112118934 ATAACTTAC
1 ATAACTTAC
*
112118943 AAAACTTAC
1 ATAACTTAC
112118952 ATAA
1 ATAA
112118956 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:112118976 original size:13 final size:13
Alignment explanation
Indices: 112118958--112118987 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
112118948 TTACATAATA
112118958 CATAAATATATAT
1 CATAAATATATAT
112118971 CATAAATATATAT
1 CATAAATATATAT
112118984 CATA
1 CATA
112118988 TCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:112118994 original size:56 final size:56
Alignment explanation
Indices: 112118933--112119143 Score: 352
Period size: 56 Copynumber: 3.8 Consensus size: 56
112118923 TAATAACTTA
*
112118933 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* * *
112118989 CATAACTTACACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
112119045 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCATAAATATATATCATAT
112119102 CATAACTTACACAACTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
112119144 TCATAACTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
55 1 0.01
56 91 0.63
57 51 0.35
58 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:112119105 original size:113 final size:112
Alignment explanation
Indices: 112118933--112119143 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
112118923 TAATAACTTA
112118933 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
*
112118998 CACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
66 CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
* *
112119045 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTATCATAACT
1 CATAACTTACAAAACTTACATAATACAT--AAATATATATCATAAATATATATCATATCATAACT
*
112119109 TACACAACTTACATAATACATAAATATATATCATA
64 TACACAACTAACATAATACATAAATATATATCATA
112119144 TCATAACTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (112 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
Found at i:112119180 original size:113 final size:107
Alignment explanation
Indices: 112118912--112119156 Score: 348
Period size: 113 Copynumber: 2.2 Consensus size: 107
112118902 TAATGTTTAT
112118912 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
1 TATATATCATAT-ATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
112118977 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
65 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
112119020 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAAATATATAT
1 TATATATCAT--ATA--TAACTTA-CATAACTTACAAAACTTACATAATACAT--AAATATATAT
* *
112119084 CATAAATATATATCTTATCATAACTTACACAACTTACATAATACATAAA
59 CATAAATATATATCATATCATAACTTACACAACTAACATAATACATAAA
112119133 TATATATCATATCATAACTTACAT
1 TATATATCATAT-ATAACTTACAT
112119157 GCCTTACATA
Statistics
Matches: 120, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
108 9 0.08
109 4 0.03
110 7 0.06
111 8 0.07
112 26 0.22
113 66 0.55
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:112119194 original size:9 final size:9
Alignment explanation
Indices: 112119097--112119217 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
112119087 AAATATATAT
112119097 CTTATCATAA
1 CTTA-CATAA
*
112119107 CTTACACAA
1 CTTACATAA
112119116 CTTACATAA
1 CTTACATAA
112119125 --TACATAA
1 CTTACATAA
* * *
112119132 -ATATATAT
1 CTTACATAA
*
112119140 CATATCATAA
1 CTTA-CATAA
**
112119150 CTTACATGC
1 CTTACATAA
112119159 CTTACATAA
1 CTTACATAA
* * *
112119168 ATGTATATCA
1 CT-TACATAA
*
112119178 -TAACATAA
1 CTTACATAA
112119186 CTTACATAA
1 CTTACATAA
112119195 CTTACA-AA
1 CTTACATAA
*
112119203 GCTTACTTAA
1 -CTTACATAA
112119213 CTTAC
1 CTTAC
112119218 GTAATATATA
Statistics
Matches: 85, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.08
8 11 0.13
9 50 0.59
10 17 0.20
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (9 bp):
CTTACATAA
Found at i:112119199 original size:36 final size:36
Alignment explanation
Indices: 112119114--112119200 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 36
112119104 TAACTTACAC
*
112119114 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
** *
112119148 AACTTACATGCCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
112119184 AACTTACATAACTTACA
1 AACTTACATAACTTACA
112119201 AAGCTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 9 0.20
36 36 0.80
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:112119792 original size:40 final size:40
Alignment explanation
Indices: 112119719--112119822 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
112119709 CGTTTGAACC
* *
112119719 AAAATGCCACTATAAGTCGAGAAATAGCGGCGTTTTCAGA
1 AAAATGCCACTAAAAGTCGAGAAATAGCAGCGTTTTCAGA
* *
112119759 AAAATGCCTCTAAAAGTCCGAGAATTAG-AGCGTTTTTCA-A
1 AAAATGCCACTAAAAGT-CGAGAAATAGCAGCG-TTTTCAGA
* * *
112119799 GAAACGCCACAAAAAGTCTGAGAA
1 AAAATGCCACTAAAAGTC-GAGAA
112119823 TTCGCGGCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 37 0.70
41 15 0.28
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAATGCCACTAAAAGTCGAGAAATAGCAGCGTTTTCAGA
Found at i:112119926 original size:41 final size:41
Alignment explanation
Indices: 112119743--112119997 Score: 255
Period size: 41 Copynumber: 6.2 Consensus size: 41
112119733 AGTCGAGAAA
* * * * *
112119743 TAGCGGCGTTTTCAGAAAAATGCCTCTAAAAGTCCGAGAAT
1 TAGCGGCGTTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * * *
112119784 TAG-AGCGTTTTTCA-AGAAACGCCACAAAAAGTCTGAGAAT
1 TAGCGGCG-TTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
112119824 TCGCGGCATTTTTC-CAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGC-GTTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
112119865 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
112119906 TAGCGGCGTTTTCATAAAAACGCCGCCAAAGGTCTGAGCGT
1 TAGCGGCGTTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
* ** *
112119947 TAGCGGCGTTTTTTACCAAAACGCCGCCAAAGGTCTGAGCAT
1 TAGCGGCG-TTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
*
112119989 TAGCAGCGT
1 TAGCGGCGT
112119998 CGCCAAAAGT
Statistics
Matches: 181, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
40 30 0.17
41 115 0.64
42 36 0.20
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTTCAGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:112120009 original size:27 final size:27
Alignment explanation
Indices: 112119971--112120024 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
112119961 ACCAAAACGC
*
112119971 CGCCAAAGGTCTGAGCATTAGCAGCGT
1 CGCCAAAAGTCTGAGCATTAGCAGCGT
* *
112119998 CGCCAAAAGTCTGAGTATTAGCGGCGT
1 CGCCAAAAGTCTGAGCATTAGCAGCGT
112120025 TTTTGGTAAA
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:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (27 bp):
CGCCAAAAGTCTGAGCATTAGCAGCGT
Found at i:112120041 original size:41 final size:41
Alignment explanation
Indices: 112119995--112120101 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
112119985 GCATTAGCAG
****
112119995 CGTCGCCAAAAGTCTGAGTATTAGCGGCGTTTTTGGTAAAA
1 CGTCGCCAAAAGTCTGAGTATTAGCGGCGTTTTCCCAAAAA
112120036 CGTCGCCAAAAGTCTGAGTATTAGCGGCGTTTTCCCAAAAA
1 CGTCGCCAAAAGTCTGAGTATTAGCGGCGTTTTCCCAAAAA
*
112120077 CGCCGCCAAAAGTCTGAGTATTAGC
1 CGTCGCCAAAAGTCTGAGTATTAGC
112120102 CGCAAAAAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
CGTCGCCAAAAGTCTGAGTATTAGCGGCGTTTTCCCAAAAA
Found at i:112120059 original size:68 final size:69
Alignment explanation
Indices: 112119929--112120065 Score: 177
Period size: 68 Copynumber: 2.0 Consensus size: 69
112119919 ATAAAAACGC
* * *
112119929 CGCCAAAGGTCTGAGCGTTAGCGGCGTTTTTTACCAAAACGCCGCCAAAGGTCTGAGCATTAGCA
1 CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTTACCAAAACGCCGCCAAAAGTCTGAGCATTAGCA
112119994 GCGT
66 GCGT
* *** * * *
112119998 CGCCAAAAGTCTGAGTATTAGCGGCG-TTTTTGGTAAAACGTCGCCAAAAGTCTGAGTATTAGCG
1 CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTTACCAAAACGCCGCCAAAAGTCTGAGCATTAGCA
112120062 GCGT
66 GCGT
112120066 TTTCCCAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
68 35 0.60
69 23 0.40
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (69 bp):
CGCCAAAAGTCTGAGCATTAGCGGCGTTTTTTACCAAAACGCCGCCAAAAGTCTGAGCATTAGCA
GCGT
Found at i:112120109 original size:22 final size:22
Alignment explanation
Indices: 112120078--112120123 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
112120068 TCCCAAAAAC
* * *
112120078 GCCGCCAAAAGTCTGAGTATTA
1 GCCGCAAAAAGTCTAAGCATTA
112120100 GCCGCAAAAAGTCTAAGCATTA
1 GCCGCAAAAAGTCTAAGCATTA
112120122 GC
1 GC
112120124 GGCGTTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (22 bp):
GCCGCAAAAAGTCTAAGCATTA
Found at i:112120318 original size:7 final size:7
Alignment explanation
Indices: 112120308--112120358 Score: 68
Period size: 7 Copynumber: 7.1 Consensus size: 7
112120298 TGGGTTTGAG
112120308 GTTTAGT
1 GTTTAGT
112120315 GTTTAGT
1 GTTTAGT
112120322 GTTTAGT
1 GTTTAGT
112120329 GTTTAGT
1 GTTTAGT
112120336 GTTTA-T
1 GTTTAGT
*
112120342 GATCTTAAT
1 G-T-TTAGT
112120351 GTTTAGT
1 GTTTAGT
112120358 G
1 G
112120359 GTATTAGAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 2 0.05
7 32 0.80
8 4 0.10
9 2 0.05
ACGTcount: A:0.18, C:0.02, G:0.25, T:0.55
Consensus pattern (7 bp):
GTTTAGT
Found at i:112121444 original size:23 final size:22
Alignment explanation
Indices: 112121413--112121467 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
112121403 GTATCTAAAT
112121413 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTAT-AGG
*
112121435 TTAGGGGTTT-ATGGTTTATAGT
1 TTA-GGGTTTAATGGTTTATAGG
112121457 TTAGGGTTTAA
1 TTAGGGTTTAA
112121468 GATTTAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.38
23 12 0.41
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTATAGG
Found at i:112121458 original size:14 final size:13
Alignment explanation
Indices: 112121441--112121480 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
112121431 AAGGTTAGGG
*
112121441 GTTTATGGTTTATA
1 GTTTAGGGTTTA-A
112121455 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
112121468 GATTTAGGGTTTA
1 G-TTTAGGGTTTA
112121481 GGGTCTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:112121465 original size:21 final size:21
Alignment explanation
Indices: 112121412--112121484 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
112121402 AGTATCTAAA
112121412 TTTAGGGTTTAAT-GTTTATAAG
1 TTTAGGGTTT-ATGGTTTAT-AG
*
112121434 GTTAGGGGTTTATGGTTTATAG
1 TTTA-GGGTTTATGGTTTATAG
* * **
112121456 TTTAGGGTTTAAGATTTAGGG
1 TTTAGGGTTTATGGTTTATAG
112121477 TTTAGGGT
1 TTTAGGGT
112121485 CTGATTTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 21 0.49
22 10 0.23
23 12 0.28
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTATAG
Found at i:112122912 original size:25 final size:26
Alignment explanation
Indices: 112122884--112122939 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
112122874 AATTTTTTTA
* *
112122884 ATTAAT-CGAAATTTTTTTATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
112122909 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
112122934 ATTAAT
1 ATTAAT
112122940 TTAATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 21 0.84
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:112124906 original size:9 final size:9
Alignment explanation
Indices: 112124843--112124979 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
112124833 ATTGATCATT
*
112124843 ACTTAAATA
1 ACTTACATA
*
112124852 AGTTACATA
1 ACTTACATA
* **
112124861 ACTCATGTA
1 ACTTACATA
112124870 ACTTACATA
1 ACTTACATA
*
112124879 ATTTACATAACA
1 ACTTACAT---A
*
112124891 ACCTACATA
1 ACTTACATA
112124900 ACTTACATA
1 ACTTACATA
112124909 ACTTACATA
1 ACTTACATA
* *
112124918 ATTTATATA
1 ACTTACATA
*
112124927 ACTCACATA
1 ACTTACATA
* *
112124936 ACGTATATAACA
1 AC-T-TA-CATA
112124948 ACTTACATA
1 ACTTACATA
*
112124957 ACTCACATA
1 ACTTACATA
112124966 ACTTACATA
1 ACTTACATA
112124975 ACTTA
1 ACTTA
112124980 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:112124917 original size:57 final size:57
Alignment explanation
Indices: 112124843--112124977 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
112124833 ATTGATCATT
* * * * **
112124843 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
* * * *
112124900 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
*
112124957 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
112124978 TAACTAATAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
Found at i:112130573 original size:21 final size:21
Alignment explanation
Indices: 112130548--112130603 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
112130538 TCTAGCCGAT
*
112130548 GCAGCAGAGAGGGAGGCAGCG
1 GCAGCAGAGAGAGAGGCAGCG
*
112130569 GCAGCAGTGAGAGAGGCAGCG
1 GCAGCAGAGAGAGAGGCAGCG
* *
112130590 ACAGCAGCGAGAGA
1 GCAGCAGAGAGAGA
112130604 AGCGGAGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.46, T:0.02
Consensus pattern (21 bp):
GCAGCAGAGAGAGAGGCAGCG
Found at i:112131000 original size:43 final size:44
Alignment explanation
Indices: 112130938--112131051 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
112130928 TGTAAATTTA
* * *
112130938 GCGGCGTTTGTGGGGAAAGCGCCGCT-AAATGACTCTACTTTTG
1 GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* * *
112130981 GCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* * * *
112131025 GCGGCATTTTTAGTGTAAGCGCCGCTA
1 GCGGCATTTGTGGAGAAAGCGCCGCTA
112131052 TAGGTCTGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
43 23 0.39
44 36 0.61
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (44 bp):
GCGGCATTTGTGGAGAAAGCGCCGCTAAAAGGACTCTACTTTTG
Found at i:112131045 original size:44 final size:43
Alignment explanation
Indices: 112130934--112131549 Score: 286
Period size: 43 Copynumber: 14.3 Consensus size: 43
112130924 AATCTGTAAA
* * ** * * *
112130934 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAATGACTCTACT
1 TTTAGCGGCATTTTTGGATAAAGCGCCGCTAAAGGTCTGTACT
* *
112130977 TTTGGCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCATTTTTGGATAAAGCGCCGCT-AAAGGTCTGTACT
* * **
112131021 TTTGGCGGCATTTTTAGTG-T-AAGCGCCGCTATAGGTCTGTAAA
1 TTTAGCGGCATTTTT-G-GATAAAGCGCCGCTAAAGGTCTGTACT
* * *
112131064 TTTAGCGG-TTTTTTGGGCTAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCATTTTT-GGATAAAGCGCCGCTAAAGGTCTGTACT
** * * * * * *
112131107 TTTAGCGGC-GCTTCGCAAACAAACGCCGCTAAAGGTCCGCACT
1 TTTAGCGGCATTTTTGGATA-AAGCGCCGCTAAAGGTCTGTACT
* ** *
112131150 TTTAGCGGC-TCTTTCCCCGG--AAA-CGCCGCTAAAGGTCTACACC
1 TTTAGCGGCAT-TTT---TGGATAAAGCGCCGCTAAAGGTCTGTACT
* * * * * * *
112131193 TTTAGTGGCGTTTGTCGATAAAACGCCGCTAAAGGTCTGCACC
1 TTTAGCGGCATTTTTGGATAAAGCGCCGCTAAAGGTCTGTACT
* * *
112131236 TTTAGCGGCATTTGTTGGGT-AAGCGCCACTAAAGGTATGTGA-T
1 TTTAGCGGCATTT-TTGGATAAAGCGCCGCTAAAGGTCTGT-ACT
* *
112131279 TTTAGCGGCGTTTGTTTGG-T-AAGCGCCGCTAAAGGTCTGCAC-
1 TTTAGCGGC-ATT-TTTGGATAAAGCGCCGCTAAAGGTCTGTACT
* * * * *
112131321 TTTAGCAGCGTTTTTTGGGT-AAGCGCTGCTAAAGGTATGTGA-T
1 TTTAGCGGC-ATTTTTGGATAAAGCGCCGCTAAAGGTCTGT-ACT
* * * * *
112131364 TTTAGCGGCGTTTGTTTGCT-AAGCGTCGCTAAAGGTCTATACT
1 TTTAGCGGCATTT-TTGGATAAAGCGCCGCTAAAGGTCTGTACT
* * * * * *
112131407 ATTAGCGGCGTTTATGG-TAAAGCGCCACTAAAGGTATCTACT
1 TTTAGCGGCATTTTTGGATAAAGCGCCGCTAAAGGTCTGTACT
* * * *
112131449 TTTAGCGGCGTTTTCT-GTTCAAA-CGCCGCTAAAAGTGATG-ACT
1 TTTAGCGGCATTTT-TGGAT-AAAGCGCCGCTAAAGGT-CTGTACT
* ** * * *
112131492 TTTAGCGGCGTTTTCCGTTCAAA-CGCCGCTAAAAGTGATG-ACT
1 TTTAGCGGCATTTTTGGAT-AAAGCGCCGCTAAAGGT-CTGTACT
*
112131535 TTTAGTGGCATTTTT
1 TTTAGCGGCATTTTT
112131550 TTCATATAAA
Statistics
Matches: 461, Mismatches: 81, Indels: 62
0.76 0.13 0.10
Matches are distributed among these distances:
40 1 0.00
41 7 0.02
42 81 0.18
43 311 0.67
44 54 0.12
45 4 0.01
46 1 0.00
47 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTTTGGATAAAGCGCCGCTAAAGGTCTGTACT
Found at i:112131268 original size:86 final size:86
Alignment explanation
Indices: 112131127--112131461 Score: 247
Period size: 85 Copynumber: 3.9 Consensus size: 86
112131117 CTTCGCAAAC
* * * *** * *
112131127 AAACGCCGCTAAAGGTCCGCACTTTTAGCGGCTCTTTCCCCGG-AAACGCCGCTAAAGGTCT-AC
1 AAACGCCGCTAAAGGTCTGCACCTTTAGCGGC-ATTTCTTGGGTAAGCGCCGCTAAAGGTATGAC
*
112131190 ACCTTTAGTGGCGTTTG-TCGAT
65 A-CTTTAGCGGCGTTTGTTCGAT
* * **
112131212 AAAACGCCGCTAAAGGTCTGCACCTTTAGCGGCATTTGTTGGGTAAGCGCCACTAAAGGTATGTG
1 -AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCATTTCTTGGGTAAGCGCCGCTAAAGGTATGAC
* * *
112131277 ATTTTAGCGGCGTTTGTTTGGT
65 ACTTTAGCGGCGTTTGTTCGAT
* * * * * **
112131299 AAGCGCCGCTAAAGGTCTGCA-CTTTAGCAGCGTTTTTTGGGTAAGCGCTGCTAAAGGTATGTGA
1 AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCATTTCTTGGGTAAGCGCCGCTAAAGGTATGACA
* * *
112131363 TTTTAGCGGCGTTTGTTTGCT
66 CTTTAGCGGCGTTTGTTCGAT
* * ** * * *
112131384 AAGCGTCGCTAAAGGTCTATA-CTATTAGCGGCGTTT-AT-GGTAAAGCGCCACTAAAGGTAT--
1 AAACGCCGCTAAAGGTCTGCACCT-TTAGCGGCATTTCTTGGGT-AAGCGCCGCTAAAGGTATGA
112131444 CTACTTTTAGCGGCGTTT
64 C-AC-TTTAGCGGCGTTT
112131462 TCTGTTCAAA
Statistics
Matches: 210, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
84 4 0.02
85 113 0.54
86 89 0.42
87 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCATTTCTTGGGTAAGCGCCGCTAAAGGTATGACA
CTTTAGCGGCGTTTGTTCGAT
Found at i:112131362 original size:85 final size:85
Alignment explanation
Indices: 112131216--112131505 Score: 338
Period size: 85 Copynumber: 3.4 Consensus size: 85
112131206 GTCGATAAAA
* *
112131216 CGCCGCTAAAGGTCTGCACCTTTAGCGGCATTTGTTGGGTAAGCGCCACTAAAGGTATGTGATTT
1 CGCCGCTAAAGGTCTGCA-CTTTAGCGGCGTTTTTTGGGTAAGCGCCACTAAAGGTATGTGATTT
*
112131281 TAGCGGCGTTTGTTTGGTAAG
65 TAGCGGCGTTTGTTTGCTAAG
* **
112131302 CGCCGCTAAAGGTCTGCACTTTAGCAGCGTTTTTTGGGTAAGCGCTGCTAAAGGTATGTGATTTT
1 CGCCGCTAAAGGTCTGCACTTTAGCGGCGTTTTTTGGGTAAGCGCCACTAAAGGTATGTGATTTT
112131367 AGCGGCGTTTGTTTGCTAAG
66 AGCGGCGTTTGTTTGCTAAG
* ** * *
112131387 CGTCGCTAAAGGTCTATACTATTAGCGGCG-TTTAT-GGTAAAGCGCCACTAAAGGTATCT-ACT
1 CGCCGCTAAAGGTCTGCACT-TTAGCGGCGTTTTTTGGGT-AAGCGCCACTAAAGGTATGTGA-T
* * *
112131449 TTTAGCGGCGTTT-TCTGTTCAAA
63 TTTAGCGGCGTTTGTTTGCT-AAG
* *
112131472 CGCCGCTAAAAGTGATG-ACTTTTAGCGGCGTTTT
1 CGCCGCTAAAGGT-CTGCAC-TTTAGCGGCGTTTT
112131506 CCGTTCAAAC
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
84 8 0.05
85 137 0.78
86 31 0.18
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (85 bp):
CGCCGCTAAAGGTCTGCACTTTAGCGGCGTTTTTTGGGTAAGCGCCACTAAAGGTATGTGATTTT
AGCGGCGTTTGTTTGCTAAG
Found at i:112131480 original size:128 final size:128
Alignment explanation
Indices: 112131213--112131504 Score: 285
Period size: 128 Copynumber: 2.3 Consensus size: 128
112131203 TTTGTCGATA
* * * * *
112131213 AAACGCCGCTAAAGGTCTG-CACCTTTAGCGGCATTTGTTGGGTAAGCGCCACTAAAGGTATGTG
1 AAACGCCGCTAAAGGT-TGTGACTTTTAGCGGCGTTTGTTGGCTAAGCGCCACTAAAGGTATATG
* * * * *
112131277 ATTTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGGTCTGCACTTTAGCAGCGTTTTTTGGGT
65 ATATTAGCGGCGTTTGTATGGTAAGCGCCACTAAAGGTATGCACTTTAGCAGCGTTTTCTGGGT
* * * * * *
112131341 AAGCGCTGCTAAAGGTATGTGA-TTTTAGCGGCGTTTGTTTGCTAAGCGTCGCTAAAGGTCTAT-
1 AAACGCCGCTAAAGGT-TGTGACTTTTAGCGGCGTTTGTTGGCTAAGCGCCACTAAAGGTATATG
*
112131404 ACTATTAGCGGCG-TT-TATGGTAAAGCGCCACTAAAGGTAT-CTACTTTTAGCGGCGTTTTCT-
65 A-TATTAGCGGCGTTTGTATGGT-AAGCGCCACTAAAGGTATGC-AC-TTTAGCAGCGTTTTCTG
*
112131465 GTT
126 GGT
*
112131468 CAAACGCCGCTAAAAG-TGATGACTTTTAGCGGCGTTT
1 -AAACGCCGCTAAAGGTTG-TGACTTTTAGCGGCGTTT
112131505 TCCGTTCAAA
Statistics
Matches: 134, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
126 8 0.06
127 26 0.19
128 99 0.74
129 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (128 bp):
AAACGCCGCTAAAGGTTGTGACTTTTAGCGGCGTTTGTTGGCTAAGCGCCACTAAAGGTATATGA
TATTAGCGGCGTTTGTATGGTAAGCGCCACTAAAGGTATGCACTTTAGCAGCGTTTTCTGGGT
Found at i:112136887 original size:21 final size:20
Alignment explanation
Indices: 112136824--112136905 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 20
112136814 AGGCAACAGA
112136824 GAGGGAGGCAGCA-GCAGCAGC
1 GAGGGAGGCAG-AGGCAG-AGC
112136845 GAGGGAGGCAGAGGCACGAGC
1 GAGGGAGGCAGAGGCA-GAGC
112136866 GAGGGAGGCAGAGGCAGTAGC
1 GAGGGAGGCAGAGGCAG-AGC
*
112136887 GATGGCA-GCAGA-GCAGAGC
1 GA-GGGAGGCAGAGGCAGAGC
112136906 AAAAAGTACG
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 43 0.77
22 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (20 bp):
GAGGGAGGCAGAGGCAGAGC
Found at i:112137182 original size:31 final size:32
Alignment explanation
Indices: 112137120--112137202 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
112137110 TTAGAATTAA
* *
112137120 TATTTTTGGTTGTATTTTTTATGCTAAATTTGT
1 TATTTTTGGTTGCATTTTATAT-CTAAATTTGT
* *
112137153 TATTTTTGGCTGCATTTTATAT-TATATTTGT
1 TATTTTTGGTTGCATTTTATATCTAAATTTGT
* * *
112137184 TGTATTTGGTTGGATTTTA
1 TATTTTTGGTTGCATTTTA
112137203 ATGCAGGAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 23 0.55
33 19 0.45
ACGTcount: A:0.18, C:0.04, G:0.17, T:0.61
Consensus pattern (32 bp):
TATTTTTGGTTGCATTTTATATCTAAATTTGT
Found at i:112137303 original size:43 final size:42
Alignment explanation
Indices: 112137256--112137353 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
112137246 TCTGTCAAAA
* *
112137256 TTAGCGGCGTTTGCCATAAAAA-CGCCGCTAGAAGCCGTGACTT
1 TTAGCGGCGTTTGCCA-AAAAAGC-CCGCTAAAAGCCATGACTT
* * *
112137299 TTAGCGGCGCTTTTCCAAAAAAGCCCGTTAAAATCCATGACTT
1 TTAGCGGCG-TTTGCCAAAAAAGCCCGCTAAAAGCCATGACTT
112137342 TTAGCGGCGTTT
1 TTAGCGGCGTTT
112137354 TTTTTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.06
43 38 0.79
44 7 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGTTTGCCAAAAAAGCCCGCTAAAAGCCATGACTT
Found at i:112139314 original size:22 final size:22
Alignment explanation
Indices: 112139289--112139337 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
112139279 TATTTTCTCC
112139289 TTATTTTGCTACCATTTTATTA
1 TTATTTTGCTACCATTTTATTA
* * * *
112139311 TTATATTGCTACTATTTTGTTG
1 TTATTTTGCTACCATTTTATTA
112139333 TTATT
1 TTATT
112139338 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (22 bp):
TTATTTTGCTACCATTTTATTA
Found at i:112139400 original size:30 final size:30
Alignment explanation
Indices: 112139366--112139428 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
112139356 ACTTATTTTA
112139366 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
112139396 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
112139426 TTG
1 TTG
112139429 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:112139531 original size:18 final size:20
Alignment explanation
Indices: 112139510--112139550 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
112139500 GAAATATTTA
*
112139510 TTTTGATGT-TTTTAT-TAT
1 TTTTGATGTATTATATATAT
*
112139528 TTTTTATGTATTATATATAT
1 TTTTGATGTATTATATATAT
112139548 TTT
1 TTT
112139551 AAAATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:112144299 original size:11 final size:11
Alignment explanation
Indices: 112144283--112144308 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
112144273 CCTTTTGATG
112144283 TTTATCTCCTC
1 TTTATCTCCTC
112144294 TTTATCTCCTC
1 TTTATCTCCTC
112144305 TTTA
1 TTTA
112144309 ATGTTCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.31, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTATCTCCTC
Found at i:112144459 original size:22 final size:22
Alignment explanation
Indices: 112144411--112144459 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
112144401 TATACATTTA
112144411 TATTTTTTTTGTGATATTAAAT
1 TATTTTTTTTGTGATATTAAAT
* *
112144433 AATTTTTTTTGT-ATATTTTAAT
1 TATTTTTTTTGTGATA-TTAAAT
112144455 TATTT
1 TATTT
112144460 AATTAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TATTTTTTTTGTGATATTAAAT
Found at i:112144879 original size:2 final size:2
Alignment explanation
Indices: 112144833--112144867 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
112144823 ACTATTTAAA
112144833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112144868 AAATGTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112148553 original size:14 final size:14
Alignment explanation
Indices: 112148534--112148568 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
112148524 CCCCCTAAAA
*
112148534 GAAATTTCGGCCTC
1 GAAATTTCAGCCTC
112148548 GAAATTTCAGCCTC
1 GAAATTTCAGCCTC
*
112148562 AAAATTT
1 GAAATTT
112148569 ACCTGACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (14 bp):
GAAATTTCAGCCTC
Found at i:112150424 original size:117 final size:117
Alignment explanation
Indices: 112150185--112150409 Score: 319
Period size: 117 Copynumber: 1.9 Consensus size: 117
112150175 TTTTGTGGCT
* * * * * *
112150185 AAAGATGAATTGACGAATAAGACTATAATTGGGTTATGGCACTATAAACGTAATACCATGGTTGG
1 AAAGACGAATTGACGAATAAGACCATAACTGGGTTATGACACTATAAACGTAAGACCATGGCTGG
*
112150250 ACCATGGCAGTATTTATATGTAAGACCATAGTTGGGCTATGGCATTAATGTA
66 ACCATGGCAGTATTTATATATAAGACCATAGTTGGGCTATGGCATTAATGTA
* *
112150302 AAAGACGAATTGACGGATAAGACCATAACTGGGTTATGACACTATGAACGTAAGACCATGGCTGG
1 AAAGACGAATTGACGAATAAGACCATAACTGGGTTATGACACTATAAACGTAAGACCATGGCTGG
* * *
112150367 ACCATGGTAGTATTTA-ATATAAGACTATA-TATTGGCTATGGCA
66 ACCATGGCAGTATTTATATATAAGACCATAGT-TGGGCTATGGCA
112150410 CTCTAATGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
115 1 0.01
116 22 0.23
117 72 0.76
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (117 bp):
AAAGACGAATTGACGAATAAGACCATAACTGGGTTATGACACTATAAACGTAAGACCATGGCTGG
ACCATGGCAGTATTTATATATAAGACCATAGTTGGGCTATGGCATTAATGTA
Found at i:112157577 original size:6 final size:6
Alignment explanation
Indices: 112157538--112157591 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
112157528 GACAACTTAT
*
112157538 AAAAGA AAATA-A AAGAGA AACAAGA AAAACGA AAAAG- AAAAGA AAAAGA
1 AAAAGA AAA-AGA AAAAGA AA-AAGA AAAA-GA AAAAGA AAAAGA AAAAGA
112157587 AAAAG
1 AAAAG
112157592 GAATTTAGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 6 0.15
6 23 0.56
7 12 0.29
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:112158458 original size:33 final size:33
Alignment explanation
Indices: 112158419--112158483 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
112158409 AAAAAAAAAA
*
112158419 TGTTGTTTTAC-TACTATTTTTCCATTGTTTTGT
1 TGTTGTTTT-CTTACTATTTTCCCATTGTTTTGT
112158452 TGTTGTTTTCTTACTATTTTCCCATTGTTTTG
1 TGTTGTTTTCTTACTATTTTCCCATTGTTTTG
112158484 CTGTCATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.63
Consensus pattern (33 bp):
TGTTGTTTTCTTACTATTTTCCCATTGTTTTGT
Found at i:112159334 original size:13 final size:13
Alignment explanation
Indices: 112159316--112159359 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
112159306 TTTTTAGCAA
112159316 AAAATTATAATTT
1 AAAATTATAATTT
* * *
112159329 AAAATTTTTA-TA
1 AAAATTATAATTT
112159341 AAAATTATAATTT
1 AAAATTATAATTT
112159354 AAAATT
1 AAAATT
112159360 TTTATAACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AAAATTATAATTT
Found at i:112159344 original size:27 final size:26
Alignment explanation
Indices: 112159305--112159366 Score: 99
Period size: 25 Copynumber: 2.4 Consensus size: 26
112159295 CAATATTGTT
*
112159305 ATTTTTAGCAAAAAATTATAATTTAAA
1 ATTTTTA-TAAAAAATTATAATTTAAA
112159332 ATTTTTAT-AAAAATTATAATTTAAA
1 ATTTTTATAAAAAATTATAATTTAAA
112159357 ATTTTTATAA
1 ATTTTTATAA
112159367 CTTTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 25 0.76
26 1 0.03
27 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTTTTATAAAAAATTATAATTTAAA
Found at i:112159349 original size:25 final size:25
Alignment explanation
Indices: 112159315--112159366 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
112159305 ATTTTTAGCA
112159315 AAAAATTATAATTTAAAATTTTTAT
1 AAAAATTATAATTTAAAATTTTTAT
112159340 AAAAATTATAATTTAAAATTTTTAT
1 AAAAATTATAATTTAAAATTTTTAT
112159365 AA
1 AA
112159367 CTTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAAATTATAATTTAAAATTTTTAT
Found at i:112159409 original size:17 final size:18
Alignment explanation
Indices: 112159379--112159414 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
112159369 TTTTTTTATA
*
112159379 ATTTTTGTTTATAATTTT
1 ATTTTTGTTAATAATTTT
112159397 ATTTTT-TTAATAATTTT
1 ATTTTTGTTAATAATTTT
112159414 A
1 A
112159415 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTGTTAATAATTTT
Found at i:112159413 original size:12 final size:12
Alignment explanation
Indices: 112159358--112159401 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
112159348 TAATTTAAAA
112159358 TTTTTATAACTTT
1 TTTTTATAA-TTT
112159371 TTTTTATAATTT
1 TTTTTATAATTT
112159383 TTGTTTATAATTT
1 TT-TTTATAATTT
112159396 TATTTT
1 T-TTTT
112159402 TTTAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.17
13 23 0.79
14 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:112162037 original size:17 final size:17
Alignment explanation
Indices: 112161998--112162034 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
112161988 ACAATTAAGA
112161998 TAAATATTAAATTTAAT
1 TAAATATTAAATTTAAT
*
112162015 TTAATATTAAATTT-AT
1 TAAATATTAAATTTAAT
112162031 TAAA
1 TAAA
112162035 ATAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATTAAATTTAAT
Found at i:112170164 original size:27 final size:28
Alignment explanation
Indices: 112170117--112170173 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
112170107 AACAATCTTC
*
112170117 CTAAAATTATCAAAATGTAAAATAATTT
1 CTAAAATTATCAAAATGTAAAATAACTT
112170145 CTAAAATTAT-AAAATGTAAAATAACTT
1 CTAAAATTATCAAAATGTAAAATAACTT
112170172 CT
1 CT
112170174 CCCGTTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.35
Consensus pattern (28 bp):
CTAAAATTATCAAAATGTAAAATAACTT
Found at i:112171030 original size:39 final size:39
Alignment explanation
Indices: 112170974--112171052 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
112170964 AGCAATCGAG
* *
112170974 TTAGAATCTCTCCAGTGATTTCTCTCTTTGGGCTGAGCT
1 TTAGAATCTCTCCAGTGATTTCTCGCTTCGGGCTGAGCT
*
112171013 TTAGAATCTCTCTAGTGATTTCTCGCTTCGGGCTGAGCT
1 TTAGAATCTCTCCAGTGATTTCTCGCTTCGGGCTGAGCT
112171052 T
1 T
112171053 CAGGTGGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.41
Consensus pattern (39 bp):
TTAGAATCTCTCCAGTGATTTCTCGCTTCGGGCTGAGCT
Found at i:112172032 original size:33 final size:33
Alignment explanation
Indices: 112171985--112172051 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
112171975 TGAAGACGAG
* *
112171985 TCAAATTTGGCCACTTAAAAACCAAATCTTTCC
1 TCAAATTTGACCACTTAAAAACCAAACCTTTCC
* *
112172018 TCAAATTTGACCACTTGAAAACCAAGCCTTTCC
1 TCAAATTTGACCACTTAAAAACCAAACCTTTCC
112172051 T
1 T
112172052 TGCCAAAGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.30
Consensus pattern (33 bp):
TCAAATTTGACCACTTAAAAACCAAACCTTTCC
Found at i:112180316 original size:21 final size:22
Alignment explanation
Indices: 112180290--112180330 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
112180280 CTCTTAACAC
*
112180290 AGGGGC-ACACGCTCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
112180311 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
112180331 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:112193269 original size:28 final size:28
Alignment explanation
Indices: 112193217--112193270 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
112193207 GATTCTGTAT
* *
112193217 TGGGCTTAGGCCCACCTAATTCTGTTAA
1 TGGGCTAAGGCCCACCTAATACTGTTAA
* *
112193245 TGGGCTAAGGCCCACTTGATACTGTT
1 TGGGCTAAGGCCCACCTAATACTGTT
112193271 TTTGTGATGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (28 bp):
TGGGCTAAGGCCCACCTAATACTGTTAA
Found at i:112209897 original size:17 final size:18
Alignment explanation
Indices: 112209867--112209900 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
112209857 AAGACTTTTT
*
112209867 ATTTATTATTTTTATTTC
1 ATTTATTATCTTTATTTC
112209885 ATTT-TTATCTTTATTT
1 ATTTATTATCTTTATTT
112209901 ATCTTCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTATTATCTTTATTTC
Found at i:112212119 original size:29 final size:29
Alignment explanation
Indices: 112212080--112212158 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
112212070 CTTAATAATC
*
112212080 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
112212110 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
112212139 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
112212159 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Done.