Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 87 of 295
Found at i:25631109 original size:29 final size:29
Alignment explanation
Indices: 25631067--25631122 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
25631057 ACATATTTAG
25631067 GTTTATCTACTAATATAAGTTATCTTTTC
1 GTTTATCTACTAATATAAGTTATCTTTTC
25631096 GTTTATCTACTAATATAAGTTATCTTT
1 GTTTATCTACTAATATAAGTTATCTTT
25631123 CCGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (29 bp):
GTTTATCTACTAATATAAGTTATCTTTTC
Found at i:25632273 original size:19 final size:19
Alignment explanation
Indices: 25632249--25632288 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25632239 CGTGGTGTGC
*
25632249 TTAGTTTTCTTGTGGCTTT
1 TTAGTTTACTTGTGGCTTT
* *
25632268 TTAGTTTACTTTTTGCTTT
1 TTAGTTTACTTGTGGCTTT
25632287 TT
1 TT
25632289 CGCCTTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (19 bp):
TTAGTTTACTTGTGGCTTT
Found at i:25632689 original size:28 final size:28
Alignment explanation
Indices: 25632632--25632689 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
25632622 TCATAACTCC
* * *
25632632 TATCATAAAAAATGAAAAAGAATTAAAA
1 TATCATAAAAAATAAAAAAAAAGTAAAA
* *
25632660 TATCATTAAAAATAAAAAAAAAGTATAA
1 TATCATAAAAAATAAAAAAAAAGTAAAA
25632688 TA
1 TA
25632690 AGAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (28 bp):
TATCATAAAAAATAAAAAAAAAGTAAAA
Found at i:25633046 original size:14 final size:14
Alignment explanation
Indices: 25633027--25633056 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25633017 ATACTTAAGT
25633027 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25633041 TATAATTTTGTAAC
1 TATAATTTTGTAAC
25633055 TA
1 TA
25633057 ATGTTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TATAATTTTGTAAC
Found at i:25633174 original size:19 final size:19
Alignment explanation
Indices: 25633137--25633177 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25633127 TTAAAATCTA
*
25633137 ATTAAATAAAAATATTAAT
1 ATTAAATAAAAATAATAAT
25633156 ATTAAATAAAACA-AATAAT
1 ATTAAATAAAA-ATAATAAT
25633175 ATT
1 ATT
25633178 TTCCTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAATAAAAATAATAAT
Found at i:25634650 original size:19 final size:18
Alignment explanation
Indices: 25634611--25634679 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
25634601 TTTAATATTT
*
25634611 TTTTATA-ATTTTTGAGTA
1 TTTTATATATTTTTGA-AA
*
25634629 TTTTATATATTTTTATAAA
1 TTTTATATATTTTT-GAAA
*
25634648 TTTTA-ATACTTTTTGAAT
1 TTTTATATA-TTTTTGAAA
*
25634666 TTTTATGTATTTTT
1 TTTTATATATTTTT
25634680 TCATTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 22 0.52
19 19 0.45
20 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTATATATTTTTGAAA
Found at i:25634893 original size:31 final size:31
Alignment explanation
Indices: 25634828--25634901 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
25634818 TTTAAGGTAT
* * *
25634828 AGTGGCTAAAATTGATAACTTATCTAACAAA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
* * * *
25634859 AGTGATTAAAGTTGACAACTAATCTAAGAGA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
25634890 AGTGACTAAAAT
1 AGTGACTAAAAT
25634902 AACAAATTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (31 bp):
AGTGACTAAAATTGACAACTAATCTAACAAA
Found at i:25639666 original size:26 final size:25
Alignment explanation
Indices: 25639637--25639726 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
25639627 AACTCGAAAT
25639637 CTAAAACCTAAAACTTAATATAAACC
1 CTAAAACC-AAAACTTAATATAAACC
** * *
25639663 CTAATTCCTAAACTCAATCATAAACC
1 CTAAAACCAAAACTTAAT-ATAAACC
* * * *
25639689 TTATAAACCCAAAC-TCATATAAACT
1 CTA-AAACCAAAACTTAATATAAACC
*
25639714 CTAAATCCAAAAC
1 CTAAAACCAAAAC
25639727 CTAAAACGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
24 8 0.17
25 16 0.33
26 17 0.35
27 7 0.15
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (25 bp):
CTAAAACCAAAACTTAATATAAACC
Found at i:25655719 original size:28 final size:28
Alignment explanation
Indices: 25655655--25655719 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
25655645 TCGCCAAATT
25655655 CAAAGTAAACTACAATATGATATGGTGA
1 CAAAGTAAACTACAATATGATATGGTGA
**
25655683 -AATTTAAACTCACAATATGATATGGT-A
1 CAAAGTAAACT-ACAATATGATATGGTGA
*
25655710 CAAAGCAAAC
1 CAAAGTAAAC
25655720 CAATTTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
CAAAGTAAACTACAATATGATATGGTGA
Found at i:25656904 original size:40 final size:40
Alignment explanation
Indices: 25656859--25657000 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
25656849 GACAAATCAC
* *
25656859 CTATATATGGCACTTAGTGTGCGATTCGATAAAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
*
25656899 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGA
* * * * *
25656940 CTATAGATGGCACTTAGTGTACAATTTGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
* * *
25656980 CCATGTATGACACTTAGTGTG
1 CTATATATGGCACTTAGTGTG
25657001 TGAGATATCA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 53 0.61
41 34 0.39
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
Found at i:25658471 original size:24 final size:24
Alignment explanation
Indices: 25658427--25658472 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25658417 AATTGATTAA
**
25658427 GATTGAATGATGATGGTAAGTAAT
1 GATTGAATGATGATGAAAAGTAAT
25658451 GATTGAATGTATGA-GAAAAGTA
1 GATTGAATG-ATGATGAAAAGTA
25658473 TGTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (24 bp):
GATTGAATGATGATGAAAAGTAAT
Found at i:25664505 original size:40 final size:39
Alignment explanation
Indices: 25664461--25664568 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 39
25664451 CAACAAATAA
*
25664461 GCTATATGTGGCAGTTAGTGTGCGATTCGACATAGCTTCG
1 GCTATATATGGCAGTTAGTGTGCGATT-GACATAGCTTCG
* * * *
25664501 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCAGTTAGTGTGC--GATTGACATAGCTTCG
*
25664542 GCTATATATGG-TGCTTAGTGTGCGATT
1 GCTATATATGGCAG-TTAGTGTGCGATT
25664569 TGGGATAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.07
40 20 0.35
41 29 0.51
42 4 0.07
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (39 bp):
GCTATATATGGCAGTTAGTGTGCGATTGACATAGCTTCG
Found at i:25664547 original size:41 final size:41
Alignment explanation
Indices: 25664461--25664609 Score: 142
Period size: 40 Copynumber: 3.7 Consensus size: 41
25664451 CAACAAATAA
* * *
25664461 GCTATATGTGGCAGTTAGTGTGC--GATTCGACATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATT-GAGATAGCTTCG
* *
25664501 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
** * * *
25664542 GCTATATATGGTGCTTAGTGTGCGA-TTTGGGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * * *
25664582 ACTATGTACGGCACTTAGTGTGTGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
25664610 ATCGAGTATT
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 50 0.57
41 33 0.38
42 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:25667359 original size:25 final size:25
Alignment explanation
Indices: 25667331--25667381 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25667321 TTGTAAGTAA
25667331 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25667356 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
25667381 T
1 T
25667382 TTAATTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (25 bp):
TGATAGAATGTATGAGAAAATTATG
Found at i:25668028 original size:19 final size:19
Alignment explanation
Indices: 25667989--25668025 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
25667979 TTGTTTGATA
25667989 AAAATAAATATTAATTTTT
1 AAAATAAATATTAATTTTT
*
25668008 AAAAT-AATATTGATTTTT
1 AAAATAAATATTAATTTTT
25668026 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAATAAATATTAATTTTT
Found at i:25672509 original size:20 final size:20
Alignment explanation
Indices: 25672486--25672535 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
25672476 ATTACAAAAG
25672486 AATTTCAAAATAAATTT-T-AA
1 AATTTCAAAAT--ATTTATAAA
25672506 AA-TTCAAAATATTTATAAA
1 AATTTCAAAATATTTATAAA
25672525 AATTTCAAAAT
1 AATTTCAAAAT
25672536 TTATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 12 0.44
20 10 0.37
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAAAATATTTATAAA
Found at i:25674336 original size:15 final size:15
Alignment explanation
Indices: 25674302--25674349 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
25674292 ATAAATAAAT
*
25674302 TATATAAATACAACAA
1 TATATAAA-AAAACAA
*
25674318 TATATAAAAAAAGAA
1 TATATAAAAAAACAA
25674333 TATATAAAAATAACAA
1 TATATAAAAA-AACAA
25674349 T
1 T
25674350 TGATATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (15 bp):
TATATAAAAAAACAA
Found at i:25674450 original size:17 final size:17
Alignment explanation
Indices: 25674430--25674469 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
25674420 AATACCCCAA
*
25674430 AATAATTTAAAATAAAT-
1 AATAATATAAAA-AAATG
25674447 AATAATATAAAAAAATG
1 AATAATATAAAAAAATG
25674464 AATAAT
1 AATAAT
25674470 GACTCCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATAATATAAAAAAATG
Found at i:25676290 original size:44 final size:43
Alignment explanation
Indices: 25676221--25676468 Score: 175
Period size: 44 Copynumber: 5.6 Consensus size: 43
25676211 ACATCAGTTG
*
25676221 GCTCCCTTGCTACCTCA-GGATGATAAGACTACAATCATTAGCCT
1 GCTCCCTTGCTACCTCAGGGA-GATAAGACTACAATC-TTAGTCT
* * *
25676265 GCTCCCTTGCTACCTCAGGGAGATAAGGCT--AATGGCTAAAATCT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACTACAAT--CT-TAGTCT
* * * * * * *
25676309 GCTCCCCTGCTACCTTAGGAAGATAAGATTCGCCATCTTTGATCT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACT-ACAATCTTAG-TCT
* * *
25676354 GCTCCAC-TACTA-CTTAGGGAGATAAGATCTACAATCTTCAATCT
1 GCTCC-CTTGCTACCTCAGGGAGATAAGA-CTACAATCTT-AGTCT
* * **
25676398 GCTCCCTTGTTACCTTAGTAAGATAAGACTACAATCATTAG-CTT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACTACAATC-TTAGTC-T
*
25676442 CCTCCCTTGCTACCTCAGGGAGATAAG
1 GCTCCCTTGCTACCTCAGGGAGATAAG
25676469 GCTAGTGGCT
Statistics
Matches: 159, Mismatches: 30, Indels: 30
0.73 0.14 0.14
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 117 0.74
45 33 0.21
46 1 0.01
47 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (43 bp):
GCTCCCTTGCTACCTCAGGGAGATAAGACTACAATCTTAGTCT
Found at i:25676406 original size:177 final size:176
Alignment explanation
Indices: 25676110--25676562 Score: 574
Period size: 177 Copynumber: 2.6 Consensus size: 176
25676100 TATCAGAGAA
* * *
25676110 ATAAGGCTTGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAAATAAGATTCACCGCTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
* ** * * *
25676175 CTG-TCCCATTGTTATCTCAAGGAGACAAAATCTGAAACATCAGTTGGCTCCCTTGCTACCTCAG
66 CTGCT-CCACTACTA-CTTAGGGAGACAAAATCTGAAACATCAATTGGCTCCCTTGCTACCTCAG
* *
25676239 GATGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAG
129 GAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
* *
25676287 ATAAGGCTAATGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCGCCATCTTT-GA
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCA-CTTTCGA
* * * * *
25676351 TCTGCTCCACTACTACTTAGGGAGATAAGATCT-ACAATCTTCAATCT-GCTCCCTTGTTACCTT
65 TCTGCTCCACTACTACTTAGGGAGACAAAATCTGA-AA-CATCAAT-TGGCTCCCTTGCTACCTC
* *
25676414 AGTAAGATAAGACTACAATCATTAGCTTCCTCCCTTGCTACCTCAGGGAG
127 AGGAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
**
25676464 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCGGGAAGATAAGATTCACCACTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
* * * * *
25676528 TTACTCCACTTCTGCTTAGGGAGACAAACTCTGAA
66 CTGCTCCACTACTACTTAGGGAGACAAAATCTGAA
25676563 TTCACCAATA
Statistics
Matches: 238, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
175 5 0.02
176 74 0.31
177 153 0.64
178 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (176 bp):
ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
CTGCTCCACTACTACTTAGGGAGACAAAATCTGAAACATCAATTGGCTCCCTTGCTACCTCAGGA
AGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
Found at i:25688784 original size:21 final size:21
Alignment explanation
Indices: 25688758--25688807 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25688748 AAATTAACAC
** * *
25688758 AAATGAAATGTAACAAGTTTA
1 AAATGAAATAAAAAAAGGTTA
25688779 AAATGATAATAAAAAAAGGTTA
1 AAATGA-AATAAAAAAAGGTTA
25688801 AAATGAA
1 AAATGAA
25688808 TAATATGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAAATAAAAAAAGGTTA
Found at i:25690491 original size:598 final size:598
Alignment explanation
Indices: 25689356--25690529 Score: 2312
Period size: 598 Copynumber: 2.0 Consensus size: 598
25689346 AAAATCAAAA
*
25689356 GGATAGTTTACAAACAAATAAAACTGTTACACAACATTGAGGACTAAAATACAATGCGCGCAAAC
1 GGATAGTTTACAAACAAATAAAACTATTACACAACATTGAGGACTAAAATACAATGCGCGCAAAC
25689421 AAATAGGGATTAAAAAATGCAATTATTCCAAACCCCTGAACGCAACGTTCAACTATAGACCAAAT
66 AAATAGGGATTAAAAAATGCAATTATTCCAAACCCCTGAACGCAACGTTCAACTATAGACCAAAT
25689486 TAAAACTGCGCATAAATATCGGAAAAAAATTAAAAAATAAAAGAAATAGAAATAGGACCCCATCG
131 TAAAACTGCGCATAAATATCGGAAAAAAATTAAAAAATAAAAGAAATAGAAATAGGACCCCATCG
*
25689551 AATAACAGCACAAAAGGGATGGACTAATCGTGCAAATATCACTTCACCGCAGAAACACGCGGATC
196 AATAACAGCACAAAAGGGATGGACTAATCGCGCAAATATCACTTCACCGCAGAAACACGCGGATC
25689616 CTGAGGGCAATCGGGTCGGGTCAGGGGTCAGCGGCTCAAAACGGTGTCGTTTTGGCCTCTGAGAA
261 CTGAGGGCAATCGGGTCGGGTCAGGGGTCAGCGGCTCAAAACGGTGTCGTTTTGGCCTCTGAGAA
25689681 TACCCTTCGGAACGACGTCGTTTTCCCTTTACTATTTAAATCAAAATTTTTGTTTTAAAATCATT
326 TACCCTTCGGAACGACGTCGTTTTCCCTTTACTATTTAAATCAAAATTTTTGTTTTAAAATCATT
25689746 TTAACCATTGATTTAAAAAAAACCTAAAAACTTTAGAACTCTCTCATTTCCTCCCCTTCTCTTCC
391 TTAACCATTGATTTAAAAAAAACCTAAAAACTTTAGAACTCTCTCATTTCCTCCCCTTCTCTTCC
25689811 AATTTGTGGGCTTCATCAATGCCTAATGGGTCTCCATCTCCGACGGGGCTTTAATCGGATCCTCA
456 AATTTGTGGGCTTCATCAATGCCTAATGGGTCTCCATCTCCGACGGGGCTTTAATCGGATCCTCA
25689876 GGGATCCATCTGCCTTTGGACTGGAGGAGCAAACGTCAACTAGGTCGACACTGAACGCAAATATC
521 GGGATCCATCTGCCTTTGGACTGGAGGAGCAAACGTCAACTAGGTCGACACTGAACGCAAATATC
25689941 GGGAATAAAATAG
586 GGGAATAAAATAG
25689954 GGATAGTTTACAAACAAATAAAACTATTACACAACATTGAGGACTAAAATACAATGCGCGCAAAC
1 GGATAGTTTACAAACAAATAAAACTATTACACAACATTGAGGACTAAAATACAATGCGCGCAAAC
25690019 AAATAGGGATTAAAAAATGCAATTATTCCAAACCCCTGAACGCAACGTTCAACTATAGACCAAAT
66 AAATAGGGATTAAAAAATGCAATTATTCCAAACCCCTGAACGCAACGTTCAACTATAGACCAAAT
*
25690084 TAAAACTGCGCATAAATATCGGGAAAAAATTAAAAAATAAAAGAAATAGAAATAGGACCCCATCG
131 TAAAACTGCGCATAAATATCGGAAAAAAATTAAAAAATAAAAGAAATAGAAATAGGACCCCATCG
25690149 AATAACAGCACAAAAGGGATGGACTAATCGCGCAAATATCACTTCACCGCAGAAACACGCGGATC
196 AATAACAGCACAAAAGGGATGGACTAATCGCGCAAATATCACTTCACCGCAGAAACACGCGGATC
*
25690214 TTGAGGGCAATCGGGTCGGGTCAGGGGTCAGCGGCTCAAAACGGTGTCGTTTTGGCCTCTGAGAA
261 CTGAGGGCAATCGGGTCGGGTCAGGGGTCAGCGGCTCAAAACGGTGTCGTTTTGGCCTCTGAGAA
25690279 TACCCTTCGGAACGACGTCGTTTTCCCTTTACTATTTAAATCAAAATTTTTGTTTTAAAATCATT
326 TACCCTTCGGAACGACGTCGTTTTCCCTTTACTATTTAAATCAAAATTTTTGTTTTAAAATCATT
25690344 TTAACCATTGATTTAAAAAAAACCTAAAAACTTTAGAACTCTCTCATTTCCTCCCCTTCTCTTCC
391 TTAACCATTGATTTAAAAAAAACCTAAAAACTTTAGAACTCTCTCATTTCCTCCCCTTCTCTTCC
25690409 AATTTGTGGGCTTCATCAATGCCTAATGGGTCTCCATCTCCGACGGGGCTTTAATCGGATCCTCA
456 AATTTGTGGGCTTCATCAATGCCTAATGGGTCTCCATCTCCGACGGGGCTTTAATCGGATCCTCA
25690474 GGGATCCATCTGCCTTTGGACTGGAGGAGCAAACGTCAACTAGGTCGACACTGAAC
521 GGGATCCATCTGCCTTTGGACTGGAGGAGCAAACGTCAACTAGGTCGACACTGAAC
25690530 AACAAGTAAG
Statistics
Matches: 572, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
598 572 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (598 bp):
GGATAGTTTACAAACAAATAAAACTATTACACAACATTGAGGACTAAAATACAATGCGCGCAAAC
AAATAGGGATTAAAAAATGCAATTATTCCAAACCCCTGAACGCAACGTTCAACTATAGACCAAAT
TAAAACTGCGCATAAATATCGGAAAAAAATTAAAAAATAAAAGAAATAGAAATAGGACCCCATCG
AATAACAGCACAAAAGGGATGGACTAATCGCGCAAATATCACTTCACCGCAGAAACACGCGGATC
CTGAGGGCAATCGGGTCGGGTCAGGGGTCAGCGGCTCAAAACGGTGTCGTTTTGGCCTCTGAGAA
TACCCTTCGGAACGACGTCGTTTTCCCTTTACTATTTAAATCAAAATTTTTGTTTTAAAATCATT
TTAACCATTGATTTAAAAAAAACCTAAAAACTTTAGAACTCTCTCATTTCCTCCCCTTCTCTTCC
AATTTGTGGGCTTCATCAATGCCTAATGGGTCTCCATCTCCGACGGGGCTTTAATCGGATCCTCA
GGGATCCATCTGCCTTTGGACTGGAGGAGCAAACGTCAACTAGGTCGACACTGAACGCAAATATC
GGGAATAAAATAG
Found at i:25707703 original size:39 final size:39
Alignment explanation
Indices: 25707659--25707853 Score: 318
Period size: 39 Copynumber: 5.0 Consensus size: 39
25707649 ATTATATTAT
* *
25707659 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25707698 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
25707737 CAGCACGAAGCCTGCGGGACTTTGGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25707776 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
25707815 CAGCACGAAGCCTGCGGGACTTTAGCCCGAAATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCG-GATACATTT
25707854 TCAGTGTCTT
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 139 0.95
40 7 0.05
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:25711198 original size:22 final size:22
Alignment explanation
Indices: 25711144--25711186 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25711134 ATCAAAAGAA
*
25711144 TGAAAT-AAT-ATAAAACAATT
1 TGAAATAAATAATGAAACAATT
25711164 TGAAATAAATAATGAAACAATT
1 TGAAATAAATAATGAAACAATT
25711186 T
1 T
25711187 TGACTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (22 bp):
TGAAATAAATAATGAAACAATT
Found at i:25711443 original size:19 final size:18
Alignment explanation
Indices: 25711379--25711453 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 18
25711369 ATAGAAAAAA
*
25711379 ATAT-TAAAGTAAATAAT
1 ATATATAAAATAAATAAT
*
25711396 ATACATAAAATAAA-AAT
1 ATATATAAAATAAATAAT
* *
25711413 AT-TTTAATATAAATAAT
1 ATATATAAAATAAATAAT
25711430 ATATATGAAAATAAATAAT
1 ATATAT-AAAATAAATAAT
*
25711449 GTATA
1 ATATA
25711454 AAGAGTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 10 0.22
19 15 0.33
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
ATATATAAAATAAATAAT
Found at i:25713370 original size:15 final size:15
Alignment explanation
Indices: 25713319--25713373 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
25713309 AGATTGGAAA
* *
25713319 GAAAATTAGAATGAT
1 GAAAAATAGAAGGAT
*
25713334 GAAAAATTGAAGAGAT
1 GAAAAATAGAAG-GAT
25713350 GAAAAACTAGAAGGAT
1 GAAAAA-TAGAAGGAT
25713366 GAAAAATA
1 GAAAAATA
25713374 CATAAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.32
16 18 0.53
17 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (15 bp):
GAAAAATAGAAGGAT
Found at i:25717340 original size:49 final size:47
Alignment explanation
Indices: 25717232--25717360 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
25717222 GTGGTTGCCA
*
25717232 ACCTAGTTAACAACTAACATGTCCTACCAGTGGCCCAACATACACGCC
1 ACCTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* * * * *
25717280 ACTCTGGTTAGCAACCAACATGCCCTACTAGTGGCCCATCATACACTCC
1 AC-CTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* *
25717329 TACCTATTTAGCAACTAGCATGCCTACCAGTG
1 -ACCTAGTTAGCAACTAACATGCCTACCAGTG
25717361 ATCCGTCGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 11 0.16
49 54 0.81
50 2 0.03
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.22
Consensus pattern (47 bp):
ACCTAGTTAGCAACTAACATGCCTACCAGTGGCCCAACATACACGCC
Found at i:25745929 original size:22 final size:21
Alignment explanation
Indices: 25745888--25745941 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
25745878 ATATTATCAT
*
25745888 AACAGTTCAGATAAAATATAG
1 AACAGATCAGATAAAATATAG
*
25745909 AGCAGATCAGATACAAATATAG
1 AACAGATCAGATA-AAATATAG
25745931 AACAGATCAGA
1 AACAGATCAGA
25745942 ATCAGATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.19
Consensus pattern (21 bp):
AACAGATCAGATAAAATATAG
Found at i:25749615 original size:26 final size:26
Alignment explanation
Indices: 25749586--25749636 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
25749576 ATTCAGAAAC
25749586 TTCCAAGAGATTTCAGAAATTCCTAA
1 TTCCAAGAGATTTCAGAAATTCCTAA
25749612 TTCCAAGAGATTTCAGAAATTCCTA
1 TTCCAAGAGATTTCAGAAATTCCTA
25749637 CTCCCCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (26 bp):
TTCCAAGAGATTTCAGAAATTCCTAA
Found at i:25750337 original size:25 final size:25
Alignment explanation
Indices: 25750308--25750358 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25750298 ATTCCAAATT
* *
25750308 GGATGAGATTGAAAAGTAATATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
*
25750333 GGATGAGACTGAAGAGTAAAATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
25750358 G
1 G
25750359 AGTTCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (25 bp):
GGATGAGACTGAAAAGTAAAATTAG
Found at i:25751536 original size:8 final size:8
Alignment explanation
Indices: 25751525--25751560 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
25751515 AATTTTTTAG
25751525 ATTTTAAA
1 ATTTTAAA
25751533 ATTTTAAA
1 ATTTTAAA
*
25751541 AATTTAAA
1 ATTTTAAA
25751549 ATTATTAAA
1 ATT-TTAAA
25751558 ATT
1 ATT
25751561 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:25776634 original size:31 final size:31
Alignment explanation
Indices: 25776599--25776661 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
25776589 TTCTTCCGTG
25776599 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
1 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
25776630 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
1 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
25776661 T
1 T
25776662 TTTTCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.06, G:0.22, T:0.59
Consensus pattern (31 bp):
TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
Found at i:25779242 original size:82 final size:81
Alignment explanation
Indices: 25779151--25779400 Score: 177
Period size: 82 Copynumber: 3.1 Consensus size: 81
25779141 CATATAAGAA
*
25779151 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
25779216 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
25779233 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
25779289 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
25779305 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
25779369 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
*
25779390 TATTCATTATT
1 TATTTATTATT
25779401 GATAATAATA
Statistics
Matches: 120, Mismatches: 25, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.08
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 4 0.03
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:25779320 original size:157 final size:157
Alignment explanation
Indices: 25779154--25779463 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
25779144 ATAAGAATAT
*
25779154 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
25779219 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
25779284 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
25779311 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
25779376 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
25779441 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
25779464 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:25779614 original size:16 final size:16
Alignment explanation
Indices: 25779593--25779660 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
25779583 GATTTGCTAT
25779593 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25779609 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
25779625 TACACTTCTAACCCAA
1 TACACCTCTAATCCAA
*
25779641 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
25779657 TACA
1 TACA
25779661 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25788746 original size:15 final size:15
Alignment explanation
Indices: 25788726--25788755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25788716 TAACATTTGG
*
25788726 CTATTATTATTATTA
1 CTATTATAATTATTA
25788741 CTATTATAATTATTA
1 CTATTATAATTATTA
25788756 TTAACTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
CTATTATAATTATTA
Found at i:25792182 original size:40 final size:40
Alignment explanation
Indices: 25792138--25792347 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
25792128 GGACTAAGAT
* * * * *
25792138 CCGAAGGCCTTTGTGCGAGATACTAAATCCTGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25792178 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25792218 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
25792258 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
25792298 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
25792337 CCGAAGGCATT
1 CCGAAGGCATT
25792348 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 124 0.78
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:25792367 original size:79 final size:80
Alignment explanation
Indices: 25792138--25792382 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
25792128 GGACTAAGAT
* * * * * * ** * *
25792138 CCGAAGGCCTTTGTGCGAGATACTAAATCCTGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
25792202 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
25792218 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
25792283 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
25792298 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
25792362 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
25792376 CCGAAGG
1 CCGAAGG
25792383 TACGTGATTT
Statistics
Matches: 143, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 82 0.57
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:25803832 original size:45 final size:44
Alignment explanation
Indices: 25803723--25804149 Score: 233
Period size: 44 Copynumber: 9.5 Consensus size: 44
25803713 CCCTCTAAAA
* * * *
25803723 TTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTTCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * *
25803767 TTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAG
* * * * *
25803812 TTGCTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAAT
1 TTGC-AGTAGAGCAGATTG-A---A-G-ATACA-A-ATCTTATCTCCCTGAAG
* * * * * *
25803864 TTGCAATAGAGTAGA-TCAA-A-ACAAACCTTATCTCTCTGAAA
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * * *
25803905 TTACAATAGAGCAGGTTGAAGACACAAATCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * *
25803949 TTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAG
* * * * * *
25803994 TTGCAGTGGAACAGATTGAAGCTATAATTACAGACCTTATCTCTCTAAAG
1 TTGCAGTAGAGCAGATTGAAG-----A-TACAAATCTTATCTCCCTGAAG
* * * * *
25804044 TTGCAGTAGAGCAGA-TCAA-A-ACAAACCTTATCTCTCTAAAT
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * *
25804085 TTGCAGTAGAGCAGGTT-AAAATTACAAGTCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAG
*
25804129 TTGCAGT-GCAACAGATTGAAG
1 TTGCAGTAG-AGCAGATTGAAG
25804150 CTATAAATAA
Statistics
Matches: 294, Mismatches: 62, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
41 61 0.21
42 6 0.02
43 5 0.02
44 86 0.29
45 66 0.22
46 2 0.01
47 1 0.00
49 4 0.01
50 31 0.11
51 8 0.03
52 24 0.08
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
Found at i:25803876 original size:182 final size:182
Alignment explanation
Indices: 25803557--25804136 Score: 812
Period size: 182 Copynumber: 3.2 Consensus size: 182
25803547 GCAAGATTGG
* * * * * * *
25803557 TGAAGACACAAGTCTTATCTACTTGAAGTTGCAGCGGAGAAAAGTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * *
25803622 CCCTAAAGTTACAGTGGAATAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTGAAATTAT-
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCT-AAATT-TG
*
25803686 -AGTAGAGTAGATCAAAACAAACCTTATCCCTCTAAAATTGCAGTAGAGCAGGT
129 CAGTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * *
25803739 TGAAGACACAAGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* *
25803804 CCCTGAAGTTGCTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAATTTGC
66 CCCTGAAGTTGC-AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGC
* * * *
25803868 AATAGAGTAGATCAAAACAAACCTTATCTCTCTGAAATTACAATAGAGCAGGT
130 AGTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * *
25803921 TGAAGACACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * *
25803986 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AAT-TACAGACCTTATCTCTCTAAAGTTGCA
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGCA
* *
25804049 GTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTTGCAGTAGAGCAGGT
131 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* *
25804101 T-AAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTG
1 TGAAGA-CACAAGTCTTATCTCCCTAAAGTTGCAGTG
25804137 CAACAGATTG
Statistics
Matches: 355, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
179 3 0.01
180 98 0.28
181 9 0.03
182 244 0.69
183 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (182 bp):
TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGCA
GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
Found at i:25804128 original size:85 final size:85
Alignment explanation
Indices: 25803848--25804135 Score: 258
Period size: 85 Copynumber: 3.3 Consensus size: 85
25803838 AATAAATAGA
* * * * * *
25803848 TCTTATCTCTCTAAATTTGCAATAGAGTAGATCAAAACAAACCTTATCTCTCTGAAATTACAATA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCT-AAATTGCAGTA
* * *
25803913 GAGCAGGTTGAAGA-CACAAA
65 GAGCAGGTTGAAAATTACAAG
* * * * * *
25803933 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAACCTTATCTCTCT-AAATTGC
* * *
25803998 AGTGGAACAGATTGAAGCTATAATTAC-AG
61 AGTAGAGCAGGTTG-A---A-AATTACAAG
* *
25804027 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTTGCAGT
1 -TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAA-TTGCAGT
25804092 AGAGCAGGTT-AAAATTACAAG
64 AGAGCAGGTTGAAAATTACAAG
25804113 TCTTATCTCCCTAAAGTTGCAGT
1 TCTTATCTCCCTAAAGTTGCAGT
25804136 GCAACAGATT
Statistics
Matches: 159, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
85 54 0.34
86 6 0.04
87 1 0.01
88 1 0.01
89 29 0.18
90 3 0.02
91 26 0.16
92 1 0.01
93 2 0.01
94 5 0.03
95 31 0.19
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTGCAGTAG
AGCAGGTTGAAAATTACAAG
Found at i:25804147 original size:135 final size:138
Alignment explanation
Indices: 25803882--25804233 Score: 367
Period size: 137 Copynumber: 2.6 Consensus size: 138
25803872 GAGTAGATCA
* * * * * *
25803882 AAACAAACCTTATCTCTCTGAAA-TTACAATAGAGCAGGTTGAAGACACAAATCTTATCTCCCTA
1 AAACAGACCTTATCTCTCT-AAAGTTGCAGTAGAGCA-GATCAA-A-ACAAACCTTATCTCCCTA
* * * *
25803946 AAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
62 AAGTTGCAGTAGAGCAGACTGAAAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGCAACAGATT
25804011 GAAGCTAT-AAT
127 GAAGCTATAAAT
* * *
25804022 -TACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATT
1 AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTAAAGT
* *
25804086 TGCAGTAGAGCAG-GTTAAAATTA-C-AAGTCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGA
66 TGCAGTAGAGCAGACTGAAAA-TAGCGAA-TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGA
25804148 AGCTATAAAT
129 AGCTATAAAT
* * * * * ** * *
25804158 AAACATATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATCTTAGCAAACCTTATCT-CCTCGAAG
1 AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCT-AAAG
*
25804222 TTGCAGTGGAGC
65 TTGCAGTAGAGC
25804234 GATTAAAATG
Statistics
Matches: 178, Mismatches: 28, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
134 2 0.01
135 43 0.24
136 39 0.22
137 60 0.34
138 7 0.04
139 27 0.15
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (138 bp):
AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTAAAGT
TGCAGTAGAGCAGACTGAAAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAG
CTATAAAT
Found at i:25805857 original size:3 final size:3
Alignment explanation
Indices: 25805844--25806078 Score: 74
Period size: 3 Copynumber: 76.7 Consensus size: 3
25805834 TTATTTAAAA
* * *
25805844 TAT TGT TAT TAT TAT TAT CT-C TAT TAT TTT TAT TAT GGTAT T-T TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * *
25805890 TAT TAT GT-T TAT TAT TAG TAT TAG TAT TAAT TAT AAT TAT TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * * * * *
25805936 CAT TA- TATT TAT TAC TAA TAT TAG TAT AAT TAT T-T TCTT TAG TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * * *
25805981 TAT TAC TGT TAT TA- TAT TAT T-T GTCT TAT TAAT GTAC TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT -TAT TAT TAT TAT
* * *
25806027 T-T CCTACT TAAC TAT TAT TAT TAT TAT TAT T-T TAC TAT TAT AAT TAT
1 TAT --TA-T T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25806074 TAT TA
1 TAT TA
25806079 ACCTTTACCC
Statistics
Matches: 167, Mismatches: 42, Indels: 46
0.65 0.16 0.18
Matches are distributed among these distances:
2 14 0.08
3 131 0.78
4 16 0.10
5 5 0.03
6 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:25811046 original size:14 final size:14
Alignment explanation
Indices: 25811022--25811063 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
25811012 ATGTTTAAGA
25811022 ACTTTTTATTTATT
1 ACTTTTTATTTATT
25811036 A-TTTATTATTT-TT
1 ACTTT-TTATTTATT
25811049 ACTTTTATATTTATT
1 ACTTTT-TATTTATT
25811064 TATCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (14 bp):
ACTTTTTATTTATT
Found at i:25813510 original size:14 final size:15
Alignment explanation
Indices: 25813491--25813520 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25813481 ATATTTGACT
25813491 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
25813505 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
25813520 T
1 T
25813521 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:25820917 original size:33 final size:33
Alignment explanation
Indices: 25820879--25820945 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
25820869 TAGTTGGCAT
25820879 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
1 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
25820912 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
1 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
25820945 G
1 G
25820946 GTTATATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.28, T:0.45
Consensus pattern (33 bp):
GTCATAGGATTGTTTGTGTATGGGTTATACTTC
Found at i:25821281 original size:9 final size:9
Alignment explanation
Indices: 25821267--25821343 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
25821257 ATAAGTATAA
25821267 AATTAACCG
1 AATTAACCG
*
25821276 AATTAACCA
1 AATTAACCG
*
25821285 AATTAATCG
1 AATTAACCG
**
25821294 AATTAACTA
1 AATTAACCG
*
25821303 AATTACCCG
1 AATTAACCG
* *
25821312 AATTACCCA
1 AATTAACCG
25821321 AATTAACCG
1 AATTAACCG
25821330 AATTAACCG
1 AATTAACCG
25821339 AATTA
1 AATTA
25821344 TTTGTATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:25821289 original size:18 final size:18
Alignment explanation
Indices: 25821266--25821343 Score: 111
Period size: 18 Copynumber: 4.3 Consensus size: 18
25821256 AATAAGTATA
25821266 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
* *
25821284 AAATTAATCGAATTAACT
1 AAATTAACCGAATTAACC
* *
25821302 AAATTACCCGAATTACCC
1 AAATTAACCGAATTAACC
25821320 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
*
25821338 GAATTA
1 AAATTA
25821344 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:25823405 original size:12 final size:12
Alignment explanation
Indices: 25823382--25823413 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
25823372 AATATATTGT
25823382 ATATATTTTAGGC
1 ATATA-TTTAGGC
25823395 ATATATTTAGGC
1 ATATATTTAGGC
25823407 ATATATT
1 ATATATT
25823414 ATATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (12 bp):
ATATATTTAGGC
Found at i:25823432 original size:31 final size:31
Alignment explanation
Indices: 25823394--25823456 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
25823384 ATATTTTAGG
*
25823394 CATATATTTAGGCATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25823425 CATATATTTAGGAATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
25823456 C
1 C
25823457 TATTCTCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (31 bp):
CATATATTTAGGAATATATTATATATCTTTC
Found at i:25824565 original size:28 final size:28
Alignment explanation
Indices: 25824526--25824594 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
25824516 TTATTTATTA
* * *
25824526 TTTAGAATTTTTATGCATTTTTTGATTAT
1 TTTATAATTTTTATGCAGTTTTT-AATAT
* *
25824555 TTTA-ATTTTTTATGTAGTTTTTAATAT
1 TTTATAATTTTTATGCAGTTTTTAATAT
25824582 TTTATAATTTTTA
1 TTTATAATTTTTA
25824595 AAAATTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 8 0.24
28 22 0.65
29 4 0.12
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (28 bp):
TTTATAATTTTTATGCAGTTTTTAATAT
Found at i:25824882 original size:19 final size:19
Alignment explanation
Indices: 25824842--25824883 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25824832 TGAATAATTT
*
25824842 AAAATAAAAATTTTAAAGA
1 AAAATAAAAATTTAAAAGA
*
25824861 AAAAT-AAAATATTAAAATA
1 AAAATAAAAAT-TTAAAAGA
25824880 AAAA
1 AAAA
25824884 AATATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATTTAAAAGA
Found at i:25824887 original size:16 final size:16
Alignment explanation
Indices: 25824847--25824913 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
25824837 AATTTAAAAT
* *
25824847 AAAAATTTTAAAGAAAA
1 AAAAATATTAAA-ATAA
25824864 ATAAAATATTAAAATAA
1 A-AAAATATTAAAATAA
*
25824881 AAAAATATT-AAGTGAA
1 AAAAATATTAAAAT-AA
*
25824897 AAAAAT-TTAAAAGAA
1 AAAAATATTAAAATAA
25824912 AA
1 AA
25824914 TTGAAATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.21
16 18 0.43
17 5 0.12
18 10 0.24
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAATATTAAAATAA
Found at i:25825049 original size:30 final size:30
Alignment explanation
Indices: 25825009--25825086 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
25824999 GTTTTAGTTT
*
25825009 TTTATTTTTCATTTTAAC-TTTTCTCTTCTTC
1 TTTATTTTTCATTTTAACGTTTT-ACTT-TTC
*
25825040 TTT-TTTTTCATTTTAACGTTTTAGTTTTC
1 TTTATTTTTCATTTTAACGTTTTACTTTTC
25825069 TTTATATTTTCATTTTAA
1 TTTAT-TTTTCATTTTAA
25825087 ATTAAGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 6 0.14
30 17 0.40
31 19 0.45
ACGTcount: A:0.17, C:0.13, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTATTTTTCATTTTAACGTTTTACTTTTC
Found at i:25825082 original size:31 final size:30
Alignment explanation
Indices: 25824999--25825086 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
25824989 ATGCAACAAT
25824999 GTTTTAG-TTT-TTTATTTTTCATTTTAAC
1 GTTTTAGTTTTCTTTATTTTTCATTTTAAC
**
25825027 -TTTTCTCTTCTTCTTT-TTTTTCATTTTAAC
1 GTTTT-AGTT-TTCTTTATTTTTCATTTTAAC
25825057 GTTTTAGTTTTCTTTATATTTTCATTTTAA
1 GTTTTAGTTTTCTTTAT-TTTTCATTTTAA
25825087 ATTAAGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.08
29 7 0.14
30 19 0.39
31 19 0.39
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (30 bp):
GTTTTAGTTTTCTTTATTTTTCATTTTAAC
Found at i:25825721 original size:2 final size:2
Alignment explanation
Indices: 25825714--25825769 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
25825704 TTACAGCTAG
25825714 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25825756 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
25825770 AATGATTTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25834686 original size:23 final size:23
Alignment explanation
Indices: 25834656--25834703 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
25834646 ACATATGGTT
25834656 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25834679 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
25834702 TT
1 TT
25834704 CTTTAGGGAT
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:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTCATTGAAATTCTTTGAATCA
Found at i:25848327 original size:7 final size:7
Alignment explanation
Indices: 25848305--25848341 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
25848295 TCTGTTATGG
25848305 AGTT-TT
1 AGTTATT
25848311 AGTT-TT
1 AGTTATT
25848317 AGTTATT
1 AGTTATT
25848324 AGTTATT
1 AGTTATT
*
25848331 AGTTATC
1 AGTTATT
25848338 AGTT
1 AGTT
25848342 TCAGGTACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (7 bp):
AGTTATT
Found at i:25848373 original size:33 final size:33
Alignment explanation
Indices: 25848275--25848374 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
25848265 CATTTTAATA
25848275 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
1 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
* * *
25848308 TTTAGTTTTA-GT---T--AT-TAGTTAT-TAGT
1 TTCAGTTTCAGGTACCTAAATCT-GTTATGGAGT
*
25848334 TATCAGTTTCAGGTACCTAAATCTCTTATGGAGT
1 T-TCAGTTTCAGGTACCTAAATCTGTTATGGAGT
25848368 TTCAGTT
1 TTCAGTT
25848375 ATTAGTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
26 5 0.10
27 14 0.28
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 20 0.40
34 5 0.10
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
Found at i:25854076 original size:16 final size:16
Alignment explanation
Indices: 25854055--25854093 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25854045 AAATAAAAAA
25854055 AAATTATACTACAATT
1 AAATTATACTACAATT
* *
25854071 AAATTATATTATAATT
1 AAATTATACTACAATT
25854087 -AATTATA
1 AAATTATA
25854094 AATCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTATACTACAATT
Found at i:25855139 original size:18 final size:19
Alignment explanation
Indices: 25855083--25855139 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
25855073 ATTATTAGGA
25855083 ATTATAAAAAAATATT-AAT
1 ATTAT-AAAAAATATTAAAT
* **
25855102 TTTAGTAAAAAATAAAAAAT
1 ATTA-TAAAAAATATTAAAT
25855122 ATT-TAAAAAATATTAAAT
1 ATTATAAAAAATATTAAAT
25855140 GGTTGTCCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 13 0.43
19 11 0.37
20 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTATAAAAAATATTAAAT
Found at i:25855231 original size:17 final size:18
Alignment explanation
Indices: 25855209--25855242 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25855199 TTTAAATAAT
25855209 TTTTAAAT-AATTTTTAC
1 TTTTAAATAAATTTTTAC
25855226 TTTTAAATAAATTTTTA
1 TTTTAAATAAATTTTTA
25855243 TAATTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAATAAATTTTTAC
Found at i:25855240 original size:11 final size:11
Alignment explanation
Indices: 25855198--25855224 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25855188 TCTAGGCATG
25855198 TTTTAAATAAT
1 TTTTAAATAAT
25855209 TTTTAAATAAT
1 TTTTAAATAAT
25855220 TTTTA
1 TTTTA
25855225 CTTTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:25856856 original size:25 final size:25
Alignment explanation
Indices: 25856823--25856878 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
25856813 ACAAATGTGC
25856823 TAATCAAATAGCACTAACGTGATAA
1 TAATCAAATAGCACTAACGTGATAA
* *
25856848 TAATCAAATAGCACTGACGTGCTAA
1 TAATCAAATAGCACTAACGTGATAA
25856873 TAATCA
1 TAATCA
25856879 GAGCACGCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (25 bp):
TAATCAAATAGCACTAACGTGATAA
Found at i:25858003 original size:5 final size:5
Alignment explanation
Indices: 25857985--25858090 Score: 94
Period size: 5 Copynumber: 21.0 Consensus size: 5
25857975 CTTTTGTTTT
* * *
25857985 ATATA TATAAA ATATA ATATA ATATA ATACA ATATA ATATA ATATA ATATT
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* *
25858036 ATATT ATAATA ATATA ATA-A CATACTT AT-TA AT-TA A-ATAA ATATA
1 ATATA AT-ATA ATATA ATATA -ATA-TA ATATA ATATA ATAT-A ATATA
25858081 ATATA ATATA
1 ATATA ATATA
25858091 TATTTTAAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
4 8 0.09
5 65 0.76
6 12 0.14
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:25865472 original size:51 final size:51
Alignment explanation
Indices: 25865324--25865473 Score: 194
Period size: 51 Copynumber: 2.9 Consensus size: 51
25865314 GCTGCTAGTG
* * * * *
25865324 AATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATATTGCAGATG
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* * *
25865375 AATATGTTGGTGATTTTGCAACATCAGATGGAGTAGATAATGTTACTTATA
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* *
25865426 AATATGCTGGTGATTTTACAACATCTA-ATGGACTGGATAATGTTACTG
1 AATATGCTGGTGATTTTGCAACATC-AGATGGAGTGGATAATGTTACTG
25865474 CTGCACGTAG
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 84 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (51 bp):
AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
Found at i:25870450 original size:14 final size:14
Alignment explanation
Indices: 25870428--25870457 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25870418 AAATATTAGG
*
25870428 TAAATTTTTTATTT
1 TAAACTTTTTATTT
25870442 TAAACTTTTTATTT
1 TAAACTTTTTATTT
25870456 TA
1 TA
25870458 TTTTGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAACTTTTTATTT
Found at i:25872584 original size:16 final size:16
Alignment explanation
Indices: 25872563--25872608 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
25872553 GAATGCTAAC
*
25872563 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
25872579 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
25872595 GATTGCTAGGGATT
1 GATT--TAGGGATT
25872609 CAATAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
18 8 0.31
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:25873060 original size:20 final size:20
Alignment explanation
Indices: 25873013--25873051 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25873003 CGTTGGAGCT
*
25873013 AAAATATCGATACCATATAG
1 AAAATATTGATACCATATAG
25873033 AAAATATTGATACCATATA
1 AAAATATTGATACCATATA
25873052 AAAGGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATATTGATACCATATAG
Found at i:25873065 original size:20 final size:20
Alignment explanation
Indices: 25873022--25873066 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25873012 TAAAATATCG
*
25873022 ATACCATATAGAAAATATTG
1 ATACCATATAGAAAATATTA
*
25873042 ATACCATATA-AAAGGTATTA
1 ATACCATATAGAAA-ATATTA
25873062 ATACC
1 ATACC
25873067 GGACCGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
ATACCATATAGAAAATATTA
Found at i:25876835 original size:143 final size:143
Alignment explanation
Indices: 25876547--25876818 Score: 345
Period size: 143 Copynumber: 1.9 Consensus size: 143
25876537 GTTAATAATA
* * *
25876547 AAAATTAGGATAGATTATTGATTACTAATTAAGGATAAAAAGTATATGTTAATAATTAAGGAAAT
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
* * * *
25876612 ATTTTGGAACTTAAAAAGAATTAACCTAAAACTCAAAGCTTCCTAAAATAATCGTGTTTCTTATT
66 ATTTTAGAACTTAAAAAGAACTAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTATT
*
25876677 TTGTATTAGGGAT
131 TTGTATTAAGGAT
* * *
25876690 AAAATTAGGATAAATTATTGATTATTAATTAAGGATAAAACA-TATAAGGTAATAATTAGGGAAG
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAA-AGTATAAGGTAATAATTAAGGAAA
* * * ** **
25876754 TATTTTAGAAC-T-CAAATAACTAACCTAGAACTCAAAG-TTTTTAAAATGCTCATGTTCCTTAT
65 TATTTTAGAACTTAAAAAGAACTAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTAT
25876816 TTT
130 TTT
25876819 AGATATATAA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
140 22 0.20
141 21 0.19
142 1 0.01
143 66 0.59
144 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (143 bp):
AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
ATTTTAGAACTTAAAAAGAACTAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTATT
TTGTATTAAGGAT
Found at i:25877073 original size:16 final size:15
Alignment explanation
Indices: 25877044--25877090 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
25877034 TTATGCTTTC
25877044 TTTTAAATTTTTTAT
1 TTTTAAATTTTTTAT
25877059 TTTTAAATATTTTTATAAT
1 TTTT-AA-ATTTTT-T-AT
25877078 TTTTAAATTTTTT
1 TTTTAAATTTTTT
25877091 TGTGCAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 12 0.43
18 3 0.11
19 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:25877416 original size:14 final size:14
Alignment explanation
Indices: 25877397--25877425 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25877387 TTTATATTAA
25877397 TAATATATATAATT
1 TAATATATATAATT
25877411 TAATATATATAATT
1 TAATATATATAATT
25877425 T
1 T
25877426 GTTAAGGATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATATATAATT
Found at i:25893603 original size:24 final size:25
Alignment explanation
Indices: 25893570--25893642 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 25
25893560 GTCTGGGTTA
*
25893570 TATAA-CGGGAAGCTCATAAGAGCC
1 TATAATCGGGAAGTTCATAAGAGCC
* *
25893594 -ATAATCGGGAAGTTCACAAAGAACC
1 TATAATCGGGAAGTTCA-TAAGAGCC
* *
25893619 TTTAATCGGGATGTTCATAAGAGC
1 TATAATCGGGAAGTTCATAAGAGC
25893643 TAAAGTGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 4 0.10
24 10 0.26
25 11 0.28
26 14 0.36
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (25 bp):
TATAATCGGGAAGTTCATAAGAGCC
Found at i:25896681 original size:47 final size:47
Alignment explanation
Indices: 25896561--25896690 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
25896551 GTGCGAATAA
* * ** *
25896561 TACCTTGATTTGGCTATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
25896608 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
25896655 TACCTTGATTTGGCTATGAGCAATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
25896691 TATCGATTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:25904765 original size:26 final size:26
Alignment explanation
Indices: 25904729--25904836 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25904719 TGAAATTCCA
*
25904729 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25904755 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25904781 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25904807 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25904833 ATCA
1 ATCA
25904837 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25911978 original size:26 final size:26
Alignment explanation
Indices: 25911942--25912049 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25911932 TGAAATTCCA
*
25911942 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25911968 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25911994 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25912020 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25912046 ATCA
1 ATCA
25912050 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25918260 original size:3 final size:3
Alignment explanation
Indices: 25918254--25918289 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
25918244 ACACTACTAT
25918254 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25918290 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25920795 original size:13 final size:13
Alignment explanation
Indices: 25920762--25920798 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
25920752 TGTATATAGG
25920762 ATATATAAAA-AA
1 ATATATAAAAGAA
25920774 A-AT-TAAAAGAA
1 ATATATAAAAGAA
25920785 ATATATAAAAGAA
1 ATATATAAAAGAA
25920798 A
1 A
25920799 CAAGACACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.23
11 5 0.23
12 3 0.14
13 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (13 bp):
ATATATAAAAGAA
Found at i:25926158 original size:15 final size:15
Alignment explanation
Indices: 25926140--25926251 Score: 73
Period size: 15 Copynumber: 7.5 Consensus size: 15
25926130 AAACCAAAGA
*
25926140 ATATCATAACAAAAC
1 ATATCATAACATAAC
* * *
25926155 ATATTATAACGTATC
1 ATATCATAACATAAC
* *
25926170 ATATCATATCCTAAC
1 ATATCATAACATAAC
* * *
25926185 ATAACATAGCATATC
1 ATATCATAACATAAC
**
25926200 ATATCATAACATATT
1 ATATCATAACATAAC
* * *
25926215 ATAAT-GTATCATATC
1 AT-ATCATAACATAAC
*
25926230 ATATCGTAACATAAC
1 ATATCATAACATAAC
25926245 ATATCAT
1 ATATCAT
25926252 GTCCTACCCC
Statistics
Matches: 74, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
14 2 0.03
15 70 0.95
16 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATCATAACATAAC
Found at i:25926174 original size:5 final size:5
Alignment explanation
Indices: 25926166--25926251 Score: 66
Period size: 5 Copynumber: 17.2 Consensus size: 5
25926156 TATTATAACG
* * * * * *
25926166 TATCA TATCA TATCC TAACA TAACA TAGCA TATCA TATCA TAACA TATTA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * *
25926216 TAAT-G TATCA TATCA TATCG TAACA TAACA TATCA T
1 T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA T
25926252 GTCCTACCCC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
4 2 0.03
5 61 0.94
6 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (5 bp):
TATCA
Found at i:25926184 original size:20 final size:20
Alignment explanation
Indices: 25926161--25926257 Score: 60
Period size: 20 Copynumber: 5.1 Consensus size: 20
25926151 AAACATATTA
*
25926161 TAACGTATCATATCATATCC
1 TAACATATCATATCATATCC
* *
25926181 TAACATAACATAGCATA---
1 TAACATATCATATCATATCC
* **
25926198 T--CATATCATAACATATTA
1 TAACATATCATATCATATCC
** *
25926216 TAATGTATCATATCATATCG
1 TAACATATCATATCATATCC
* *
25926236 TAACATAACATATCATGTCC
1 TAACATATCATATCATATCC
25926256 TA
1 TA
25926258 CCCCCATCCG
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
15 12 0.21
17 1 0.02
18 1 0.02
20 43 0.75
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
TAACATATCATATCATATCC
Found at i:25926188 original size:25 final size:25
Alignment explanation
Indices: 25926160--25926251 Score: 94
Period size: 25 Copynumber: 3.5 Consensus size: 25
25926150 AAAACATATT
* *
25926160 ATAACGTATCATATCATATCCTAAC
1 ATAACATATCATATCATATCATAAC
*
25926185 ATAACATAGCATATCATATCATAAC
1 ATAACATATCATATCATATCATAAC
* *
25926210 ATATTATAATGTATCATATCATATCGTAAC
1 ATA--A-CA--TATCATATCATATCATAAC
25926240 ATAACATATCAT
1 ATAACATATCAT
25926252 GTCCTACCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 31 0.56
27 2 0.04
28 2 0.04
30 20 0.36
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.34
Consensus pattern (25 bp):
ATAACATATCATATCATATCATAAC
Found at i:25926214 original size:55 final size:55
Alignment explanation
Indices: 25926140--25926247 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
25926130 AAACCAAAGA
25926140 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
1 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
* * * *
25926195 ATATCATATCATAACATATTATAATGTATCATATCATATCGTAACATAACATA
1 ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATA
25926248 TCATGTCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (55 bp):
ATATCATAACAAAACATATTATAACGTATCATATCATATCCTAACATAACATAGC
Found at i:25926233 original size:30 final size:29
Alignment explanation
Indices: 25926140--25926242 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
25926130 AAACCAAAGA
* *
25926140 ATATCATAACAAAACATATTATAACGTATC
1 ATATCATATCATAACATATTATAA-GTATC
* * *
25926170 ATATCATATCCTAACATA--A-CA-TAGC
1 ATATCATATCATAACATATTATAAGTATC
25926195 ATATCATATCATAACATATTATAATGTATC
1 ATATCATATCATAACATATTATAA-GTATC
*
25926225 ATATCATATCGTAACATA
1 ATATCATATCATAACATA
25926243 ACATATCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
25 20 0.34
27 2 0.03
28 2 0.03
30 35 0.59
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATCATATCATAACATATTATAAGTATC
Found at i:25930100 original size:54 final size:54
Alignment explanation
Indices: 25929968--25930112 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 54
25929958 TATTGTCCTA
* * * * *
25929968 ATAGATTACCCTGTGTTTATTGTC-CCGATGGACTA-CTCCGTGTTTACTGTCCC
1 ATAGACTACCCCGTGTTTACTGTCTCAG-TGGACTACCTCCGTGTTTACTGCCCC
* * * *
25930021 AGCAGACTACCCGGTGTCTACTGTCTCAGTGGACTACCT-CGTGTTTATTGCCCC
1 A-TAGACTACCCCGTGTTTACTGTCTCAGTGGACTACCTCCGTGTTTACTGCCCC
* *
25930075 GATAGACTACCCCGTGTTTACTGTCTCAATAGACTACC
1 -ATAGACTACCCCGTGTTTACTGTCTCAGTGGACTACC
25930113 CTATGTTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
53 1 0.01
54 69 0.92
55 5 0.07
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.32
Consensus pattern (54 bp):
ATAGACTACCCCGTGTTTACTGTCTCAGTGGACTACCTCCGTGTTTACTGCCCC
Found at i:25930119 original size:27 final size:27
Alignment explanation
Indices: 25929956--25930121 Score: 129
Period size: 27 Copynumber: 6.1 Consensus size: 27
25929946 CTTCCCCATA
* * *
25929956 TTTATTGTCCTAATAGATTACCCTGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* * *
25929983 TTTATTGTCCCGATGGACTACTCC-GTG
1 TTTACTGTCCCAATAGACTAC-CCTGTG
** *
25930010 TTTACTGTCCCAGCAGACTACCCGGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* * * *
25930037 TCTACTGTCTCAGTGGACTA-CCTCGTG
1 TTTACTGTCCCAATAGACTACCCT-GTG
* * * *
25930064 TTTATTGCCCCGATAGACTACCCCGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* *
25930091 TTTACTGTCTCAATAGACTACCCTATG
1 TTTACTGTCCCAATAGACTACCCTGTG
25930118 TTTA
1 TTTA
25930122 TACATTAAAC
Statistics
Matches: 107, Mismatches: 28, Indels: 8
0.75 0.20 0.06
Matches are distributed among these distances:
26 4 0.04
27 99 0.93
28 4 0.04
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (27 bp):
TTTACTGTCCCAATAGACTACCCTGTG
Found at i:25930563 original size:25 final size:25
Alignment explanation
Indices: 25930529--25930581 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
25930519 TTCTCATTCC
*
25930529 CAAATCCTAACTTTATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25930554 CAAATCCTAACTTCATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25930579 CAA
1 CAA
25930582 TTATTTTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (25 bp):
CAAATCCTAACTTCATATATCCTAT
Found at i:25933355 original size:21 final size:22
Alignment explanation
Indices: 25933329--25933371 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25933319 TTGTCTAAGT
*
25933329 AATTTAGGGTTT-ATGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25933350 AATTTAGGGTTTAAGGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25933372 GGTTTATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (22 bp):
AATTTAGGGTTTAAGGGTTTAA
Found at i:25933457 original size:35 final size:35
Alignment explanation
Indices: 25933417--25933485 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
25933407 TGCATTTAGG
25933417 GATT-GGGATTTAGGGTCTTAAGGTTTGGGTTTAAT
1 GATTGGGGA-TTAGGGTCTTAAGGTTTGGGTTTAAT
* *
25933452 GATTGGGGATTAGGGTCTTGATGTTTGGGTTTAA
1 GATTGGGGATTAGGGTCTTAAGGTTTGGGTTTAA
25933486 GGTTTATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (35 bp):
GATTGGGGATTAGGGTCTTAAGGTTTGGGTTTAAT
Found at i:25933500 original size:35 final size:35
Alignment explanation
Indices: 25933411--25933538 Score: 98
Period size: 35 Copynumber: 3.6 Consensus size: 35
25933401 GGTTTATGCA
*
25933411 TTTAGGGATT-GGGATTTAGGGTCTTAAGGTTTGGG
1 TTTAAGGATTAGGG-TTTAGGGTCTTAAGGTTTGGG
* * * * *
25933446 TTTAATGATTGGGGATTAGGGTCTTGATGTTTGGG
1 TTTAAGGATTAGGGTTTAGGGTCTTAAGGTTTGGG
* ** * *
25933481 TTTAAGGTTTATTGTTTAGGAT-TTAGGGTTTAGGG
1 TTTAAGGATTAGGGTTTAGGGTCTTAAGGTTT-GGG
* *
25933516 TTTAAGGGGTTAAGGTTTAGGGT
1 TTTAA-GGATTAGGGTTTAGGGT
25933539 TTAGGGAAGA
Statistics
Matches: 71, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
34 6 0.08
35 49 0.69
36 16 0.23
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.43
Consensus pattern (35 bp):
TTTAAGGATTAGGGTTTAGGGTCTTAAGGTTTGGG
Found at i:25933542 original size:7 final size:7
Alignment explanation
Indices: 25933474--25933544 Score: 72
Period size: 7 Copynumber: 10.1 Consensus size: 7
25933464 GGGTCTTGAT
25933474 GTTT-GG
1 GTTTAGG
*
25933480 GTTTAAG
1 GTTTAGG
**
25933487 GTTTATT
1 GTTTAGG
25933494 GTTTAGG
1 GTTTAGG
*
25933501 ATTTAGG
1 GTTTAGG
25933508 GTTTAGG
1 GTTTAGG
25933515 GTTTAAGG
1 GTTT-AGG
* *
25933523 GGTTAAG
1 GTTTAGG
25933530 GTTTAGG
1 GTTTAGG
25933537 GTTTAGG
1 GTTTAGG
25933544 G
1 G
25933545 AAGATCAAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
6 4 0.08
7 42 0.81
8 6 0.12
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:25934005 original size:114 final size:113
Alignment explanation
Indices: 25933824--25934046 Score: 250
Period size: 114 Copynumber: 2.0 Consensus size: 113
25933814 AATCATTATG
* ** * *
25933824 TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTTAGTGGCGTTTTTGGCACAATGCCGCAATA
1 TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAATA
* * *
25933889 GGTTAGGATTTAAAGGCGCTAGGGTAAAAACGCCGCTAAAGGTTATTCT
66 GGTTAGCATTTAAAGACGCTAGGATAAAAACGCCG-TAAAGGTTATTCT
* * * * * *
25933938 TTTTAAATCAAAACGGTGTCGTTTTATTGGATTT-TGAGTGGCGTTTTCAGTAAAACGCCGTAAT
1 TTTTAAA-CAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAAT
* * ** *
25934002 AGGTTTGCCTTTAGTGATGCTAGGATAAAAACGCCGTAAAGGTTA
65 AGGTTAGCATTTAAAGACGCTAGGATAAAAACGCCGTAAAGGTTA
25934047 ATTTATTTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
113 9 0.10
114 58 0.65
115 22 0.25
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (113 bp):
TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAATA
GGTTAGCATTTAAAGACGCTAGGATAAAAACGCCGTAAAGGTTATTCT
Found at i:25934200 original size:36 final size:36
Alignment explanation
Indices: 25934148--25934251 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 36
25934138 ATTTTCCCCC
* * *
25934148 TTTTCCCTAATCCAAAATCCCTAAAGTAATCACCTT
1 TTTTCCCCAATTCAAAATCCCTAAAGTAATCACCAT
25934184 TTTTCCCCAATTCAAAATTCGAAACCCCTAAAGTAATCACCAT
1 TTTTCCCCAATTCAAAA-T------CCCTAAAGTAATCACCAT
*
25934227 TTTTCTCCAATTCAAAATCCCTAAA
1 TTTTCCCCAATTCAAAATCCCTAAA
25934252 ATTCACCCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
36 22 0.39
37 1 0.02
42 1 0.02
43 33 0.58
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.32
Consensus pattern (36 bp):
TTTTCCCCAATTCAAAATCCCTAAAGTAATCACCAT
Found at i:25936072 original size:159 final size:160
Alignment explanation
Indices: 25935825--25936597 Score: 1245
Period size: 159 Copynumber: 4.8 Consensus size: 160
25935815 AGATTTAATC
25935825 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
* *
25935890 ACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTAAAATATTATTTAATTAAAATAATT
66 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTT-AAATATTATTTAATTAAAATAATT
* *
25935955 TTTTT-ATGTGA-TTTTCTGCATCATCAATTT
130 TTTTTCATGTGATTTTTC-GCATCGTCAAATT
* * *
25935985 TTATTTTTATTTTTTTCCATGAAAAAAAGTTGACATTTCATCTTATACGG-TTTCAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
25936049 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
66 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
25936114 TTTTCCATGTGATTTTTCGCATCGTCAAATT
131 TTTT-CATGTGATTTTTCGCATCGTCAAATT
25936145 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA-T-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* ** **
25936210 ATACACATTTTTTTTAAATTATATAATTTTAATTAATTTATTTAAATATTATTTAATTAGCATAA
64 ATACACA-ATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
*
25936275 TTTTTTTCCATGTGATTTTTTGCATCGTCAAATT
128 TTTTTTT-CATGTGATTTTTCGCATCGTCAAATT
* *
25936309 TTA-TTTTA--TTTTTTCATGGAACAAAGTTGACATTTCATCTTATATGGTTTTTAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
*
25936371 ACACAATTTTTAAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
66 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA-TT
25936436 TTTTTCATGTGATTTTTCGCATCGTCAAATT
130 TTTTTCATGTGATTTTTCGCATCGTCAAATT
25936467 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA-TTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* *
25936532 ACATACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
64 ATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
25936596 TT
129 TT
25936598 ATTTAAATAT
Statistics
Matches: 570, Mismatches: 30, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
158 108 0.19
159 121 0.21
160 73 0.13
161 9 0.02
162 93 0.16
163 78 0.14
164 88 0.15
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (160 bp):
TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
TTTTCATGTGATTTTTCGCATCGTCAAATT
Found at i:25936417 original size:322 final size:319
Alignment explanation
Indices: 25935825--25936602 Score: 1276
Period size: 322 Copynumber: 2.4 Consensus size: 319
25935815 AGATTTAATC
25935825 TTATTTTTA-TTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
1 TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
* *
25935889 TACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTAAAATATTATTTAATTAAAATAAT
66 TACAC-ATTTTTTAAATTATATAATTTGGATTAATTTATTT-AAATATTATTTAATTAAAATAAT
*
25935954 TTTTTTATGTGATTTTCTGCATCATCAATTTTTATTTTTATTTTTTTCCATGAAAAAAAGTTGAC
129 TTTTTTATGTGATTTTCTGCATCATCAAATTTTATTTTTATTTTTTTCCATGAAAAAAAGTTGAC
*
25936019 ATTTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTTAAATTATATAATTTGGATTAATT
194 ATTTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATTAATT
25936084 TATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
259 TATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
25936145 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATT-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
** **
25936210 ATACACATTTTTTTTAAATTATATAATTTTAATTAATTTATTTAAATATTATTTAATTAGCATAA
65 ATACACA--TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
* * * *
25936275 TTTTTTTCCATGTGATTTTTTGCATCGTCAAATTTTA-TTTTA-TTTTTT-CATGGAACAAAGTT
128 TTTTTTT--ATGTGATTTTCTGCATCATCAAATTTTATTTTTATTTTTTTCCATGAAAAAAAGTT
* *
25936337 GACATTTCATCTTATATGGTTTTTAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATT
191 GACATTTCATCTTATACGG-TTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATT
*
25936402 AATTTATTTAAATATTATTTAATTAAAATAATTTTTTTTCATGTGATTTTTCGCATCGTCAAATT
255 AATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
25936467 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATTTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* * *
25936532 ACATACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
65 ATACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
*
25936597 TATTTA
130 TTTTTA
25936603 AATATTATTT
Statistics
Matches: 427, Mismatches: 23, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
318 1 0.00
320 66 0.15
321 35 0.08
322 265 0.62
323 35 0.08
324 25 0.06
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (319 bp):
TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
TACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
TTTTATGTGATTTTCTGCATCATCAAATTTTATTTTTATTTTTTTCCATGAAAAAAAGTTGACAT
TTCATCTTATACGGTTTCAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATTAATTTA
TTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
Found at i:25936589 original size:15 final size:15
Alignment explanation
Indices: 25936565--25936619 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
25936555 ATTTGGATTA
*
25936565 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
25936580 ATTTAATTAAA-ATA
1 ATTTAATTAAATATT
*
25936594 ATTTATTTAAATATT
1 ATTTAATTAAATATT
25936609 ATTTAATTAAA
1 ATTTAATTAAA
25936620 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:25936601 original size:29 final size:29
Alignment explanation
Indices: 25936563--25936626 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
25936553 TAATTTGGAT
25936563 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25936592 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25936621 TAATTT
1 TAATTT
25936627 TTTTCCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:25936733 original size:191 final size:192
Alignment explanation
Indices: 25936401--25936776 Score: 691
Period size: 191 Copynumber: 2.0 Consensus size: 192
25936391 TAATTTGGAT
* *
25936401 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTTCATGTGATTTTTCGCATCGTCAAAT
1 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
*
25936466 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
66 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
* *
25936531 TACATACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAA
131 TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
25936592 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
1 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
25936657 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
66 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
*
25936722 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
131 TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
25936777 TCTTAATGTT
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
191 134 0.75
192 44 0.25
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (192 bp):
TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
Found at i:25936828 original size:27 final size:27
Alignment explanation
Indices: 25936791--25936844 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25936781 AATGTTAAAT
25936791 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
*
25936818 ATATATATCATATCATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
25936845 CTTACAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATATCATATAATAACTTACATAA
Found at i:25936843 original size:9 final size:9
Alignment explanation
Indices: 25936831--25936866 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25936821 TATATCATAT
25936831 CATAACTTA
1 CATAACTTA
25936840 CATAACTTA
1 CATAACTTA
*
25936849 CAAAACTTA
1 CATAACTTA
*
25936858 CTTAACTTA
1 CATAACTTA
25936867 TGTAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:25938904 original size:18 final size:18
Alignment explanation
Indices: 25938870--25939165 Score: 161
Period size: 18 Copynumber: 16.1 Consensus size: 18
25938860 TCATTAACAA
* *
25938870 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
* *
25938887 TCAGTAACAGTTAGTTAT
1 TCAGTAACAATCAGTTAT
* *
25938905 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25938923 TCAATAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
*
25938941 TCAGTATTGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
25938967 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
*
25938985 TCAGTAA-AATCAGGTAT
1 TCAGTAACAATCAGTTAT
*
25939002 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
*
25939021 TCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
25939039 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
25939057 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
25939075 TCAGTAATATTTAGTTAT
1 TCAGTAACAATCAGTTAT
* *
25939093 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
25939111 CCAGTAACAGTCAATTA-
1 TCAGTAACAATCAGTTAT
* * * *
25939128 TCCGATAACAGTTAATTAT
1 TCAG-TAACAATCAGTTAT
*
25939147 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAGTTAT
25939165 T
1 T
25939166 TTATACCTTT
Statistics
Matches: 213, Mismatches: 49, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
17 23 0.11
18 151 0.71
19 21 0.10
21 2 0.01
22 1 0.00
23 2 0.01
26 13 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:25938923 original size:36 final size:36
Alignment explanation
Indices: 25938870--25939165 Score: 179
Period size: 36 Copynumber: 8.0 Consensus size: 36
25938860 TCATTAACAA
* * * *
25938870 TCAG-AACAATTATTTATTCAGTAACAGTTAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * *
25938905 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
** * * *
25938941 TCAGTATTGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTA---A-C-A---ATCAATTATTCAGTAACAATCAGTTAT
** *
25938985 TCAGTAA-AATCAGGTATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAA-TCAGTTAT
* *
25939021 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * * *
25939057 TCAGTAATGATCAATTATTCAGTAATATTTAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
25939093 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTA-
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
25939128 TCCGATAACAGTTAATTATTCAGTAATAATCAGTTAT
1 TCAG-TAACAATCAATTATTCAGTAACAATCAGTTAT
25939165 T
1 T
25939166 TTATACCTTT
Statistics
Matches: 197, Mismatches: 47, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 23 0.12
36 123 0.62
37 20 0.10
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.01
44 26 0.13
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:25939020 original size:54 final size:55
Alignment explanation
Indices: 25938883--25939165 Score: 211
Period size: 54 Copynumber: 5.1 Consensus size: 55
25938873 GAACAATTAT
* * * *
25938883 TTATTCAGTAACAGTT-AGTTATTCGGTAACAATCAATTATTCAATAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
* *
25938937 TTATTCAGTATTGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAG
1 TTATTCAGTA---A-CAATT-A--AGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
* * *
25938998 GTATTCAGTAACAATTAAGTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATT-ATTCAGTAATAATCAG
** * * * * * * *
25939053 TTATTCAGTAATGATCAA-TTATTCAGTAATATTTAGTTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AG
* * * * * *
25939107 ATATCCAGTAACAGTCAA-TTA-TCCGATAACAGTTAATTATTCAGTAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAG-TAACAGTCAATTATTCAGTAATAATCAG
25939161 TTATT
1 TTATT
25939166 TTATACCTTT
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
53 7 0.04
54 99 0.54
55 23 0.13
56 1 0.01
57 6 0.03
58 5 0.03
61 15 0.08
62 26 0.14
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (55 bp):
TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
Found at i:25939326 original size:52 final size:47
Alignment explanation
Indices: 25939276--25939381 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
25939266 CCGGAACAGT
* * *
25939276 AACAGTAGCA-TAAGGCACATAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
* *
25939322 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
25939369 AACAGTAACAGTA
1 AACAGTAACAGTA
25939382 ACGGTAACAG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 9 0.17
47 45 0.83
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
Found at i:25939351 original size:47 final size:47
Alignment explanation
Indices: 25939296--25939391 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
25939286 TAAGGCACAT
*
25939296 AGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGT-ACGGTACAC
1 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTA-AC
25939343 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
1 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
25939390 AG
1 AG
25939392 TAACAATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (47 bp):
AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
Found at i:25939434 original size:6 final size:6
Alignment explanation
Indices: 25939423--25939449 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25939413 GTGCCAAATC
25939423 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
25939450 GTCGGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:25945235 original size:21 final size:21
Alignment explanation
Indices: 25945210--25945255 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25945200 ACTTAGAGCG
25945210 GAGGCAACAACGAAG-GAAGCA
1 GAGGCAACAAC-AAGAGAAGCA
* *
25945231 GAGGCAGCAGCAAGAGAAGCA
1 GAGGCAACAACAAGAGAAGCA
25945252 GAGG
1 GAGG
25945256 AGCAAAACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.43, C:0.17, G:0.39, T:0.00
Consensus pattern (21 bp):
GAGGCAACAACAAGAGAAGCA
Found at i:25945797 original size:42 final size:43
Alignment explanation
Indices: 25945751--25945850 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
25945741 TGTCTATAGA
* *
25945751 AAAAGCGCCGCTAAAGCTCATG-TCTATAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGCTCATGTTCTATAGCAGCGTTTATGGT
* * * *
25945793 AAAAGCGCTGCTAAGGGTCATGTTCTATAGCAGCGTTTATTGT
1 AAAAGCGCCGCTAAAGCTCATGTTCTATAGCAGCGTTTATGGT
*
25945836 AAAAACGCCGCTAAA
1 AAAAGCGCCGCTAAA
25945851 TGTTCTATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 19 0.40
43 29 0.60
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGCTCATGTTCTATAGCAGCGTTTATGGT
Found at i:25949863 original size:26 final size:26
Alignment explanation
Indices: 25949834--25949889 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
25949824 GATAGATTTG
25949834 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25949860 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25949886 AGTA
1 AGTA
25949890 TAGAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (26 bp):
AGTAAGTAAAATACTAGTTTTGACTA
Found at i:25951319 original size:27 final size:27
Alignment explanation
Indices: 25951284--25951337 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25951274 AATTATTGCA
25951284 TTCTATTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
*
25951311 TTCTGTTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
25951338 AACTTGTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTATTTAATGAAGTTATTATATTTG
Found at i:25955200 original size:21 final size:21
Alignment explanation
Indices: 25955171--25955210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25955161 AGTCGTATGT
*
25955171 AGAGTCACACACCCATGTGAA
1 AGAGGCACACACCCATGTGAA
*
25955192 AGAGGCACACAGCCATGTG
1 AGAGGCACACACCCATGTG
25955211 GTGGAGACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.25, T:0.12
Consensus pattern (21 bp):
AGAGGCACACACCCATGTGAA
Found at i:25956110 original size:18 final size:18
Alignment explanation
Indices: 25956087--25956122 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25956077 TTAAAATAAG
25956087 AATAAAGTTAAATGAATA
1 AATAAAGTTAAATGAATA
*
25956105 AATAAAGTTAAATTAATA
1 AATAAAGTTAAATGAATA
25956123 CCAAAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AATAAAGTTAAATGAATA
Found at i:25960277 original size:18 final size:18
Alignment explanation
Indices: 25960244--25960284 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25960234 ATCTACTACC
**
25960244 CCTTCTTCCTTGACTGCA
1 CCTTCTTCCTCAACTGCA
*
25960262 TCTTCTTCCTCAACTGCA
1 CCTTCTTCCTCAACTGCA
25960280 CCTTC
1 CCTTC
25960285 ATTGTCATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.41, G:0.07, T:0.39
Consensus pattern (18 bp):
CCTTCTTCCTCAACTGCA
Found at i:25966972 original size:28 final size:28
Alignment explanation
Indices: 25966929--25966984 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
25966919 AGACAAAAGA
*
25966929 AAACAAATATTTATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25966957 AAACAAATATTCATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25966985 CAAATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (28 bp):
AAACAAATATTCATGTGTCTAGGGATCC
Found at i:25970070 original size:82 final size:83
Alignment explanation
Indices: 25969928--25970090 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 83
25969918 AGTAAAGGAA
*
25969928 TAGTTTTACAAAATAGGGGAGGACAGTGGATGAAAAGTAACTTAGAGAAAAAATTCAAACCCACT
1 TAGTTTTACAAAATACGGGAGGACAGTGGATGAAAAGTAACTTAGAGAAAAAATTCAAACCCACT
25969993 TGAAT-CCCCTCTTAGAC
66 TGAATGCCCCTCTTAGAC
* * * *
25970010 TAGTTTTACAAAATACGGGAGGATC-GTGGATGAGAAGTAACTTGGAGAAAAATTTTAAACCCAC
1 TAGTTTTACAAAATACGGGAGGA-CAGTGGATGAAAAGTAACTTAGAGAAAAAATTCAAACCCAC
25970074 TTGAATGCCCCTCTTAG
65 TTGAATGCCCCTCTTAG
25970091 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
82 63 0.85
83 11 0.15
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (83 bp):
TAGTTTTACAAAATACGGGAGGACAGTGGATGAAAAGTAACTTAGAGAAAAAATTCAAACCCACT
TGAATGCCCCTCTTAGAC
Found at i:25976372 original size:24 final size:23
Alignment explanation
Indices: 25976243--25976359 Score: 103
Period size: 23 Copynumber: 5.0 Consensus size: 23
25976233 CCCGATATAT
*
25976243 GGCTCTTCGTGAGTTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
25976266 GGCTCTTTGTAAGCTTCTCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * * *
25976289 GTGCTC-GCTTGAACTTCCCAATATA
1 G-GCTCTTCGTGAGCTTCCC--GATA
*
25976314 TGGCTATTCG-GAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
25976337 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
25976360 TGGTTCTTTG
Statistics
Matches: 71, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 8 0.11
23 43 0.61
24 4 0.06
25 14 0.20
26 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:25977985 original size:18 final size:18
Alignment explanation
Indices: 25977958--25978253 Score: 175
Period size: 18 Copynumber: 16.1 Consensus size: 18
25977948 TCATTAACAA
* *
25977958 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
25977975 TCAGTAACAATCACTTAT
1 TCAGTAACAATCAGTTAT
* *
25977993 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
25978011 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
25978029 TCAGTATCGATCAATTGATCAGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* ** *
25978055 CCAGTAACAGCCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25978073 TTAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
* *
25978090 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
25978109 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAGTTAT
*
25978127 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
25978145 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25978163 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
25978181 TAAGTAACAGTCTA-TTAT
1 TCAGTAACAATC-AGTTAT
* * *
25978199 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
25978217 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25978235 TCAGTAAGAATTAGTTAT
1 TCAGTAACAATCAGTTAT
25978253 T
1 T
25978254 TTATACCTTT
Statistics
Matches: 214, Mismatches: 52, Indels: 25
0.74 0.18 0.09
Matches are distributed among these distances:
17 16 0.07
18 165 0.77
19 15 0.07
21 2 0.01
22 1 0.00
23 2 0.01
26 13 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:25978251 original size:72 final size:72
Alignment explanation
Indices: 25978051--25978253 Score: 218
Period size: 72 Copynumber: 2.8 Consensus size: 72
25978041 AATTGATCAG
* * * *
25978051 TTATCCAGTAACAGCCAATTATTTAGTAAAATCAGA-TATTCAGT-AGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAGTCAATTATTCAGTAAAGTCA-ATTATTCAGTAAG-AATTAAGTTATTAAGT
25978114 AACAGTCAT
64 AACAGTCAT
* * * * * * *
25978123 TTATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAA-TATTCAGTTATTAAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAG-TCAATTATTCAGTAAGAATTAAGTTATTAAGTA
25978187 ACAGTC-T
65 ACAGTCAT
*
25978194 ATTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAAGAATT-AGTTATT
1 -TTATCCAGTAACAGTCAATTATTCAGTAA-AGTCAATTATTCAGTAAGAATTAAGTTATT
25978254 TTATACCTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 15 0.14
74 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (72 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAGTCAATTATTCAGTAAGAATTAAGTTATTAAGTAA
CAGTCAT
Found at i:25980257 original size:15 final size:15
Alignment explanation
Indices: 25980237--25980265 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25980227 TTTCTTATTT
25980237 ATATAATATAATAAA
1 ATATAATATAATAAA
25980252 ATATAATATAATAA
1 ATATAATATAATAA
25980266 CAATTTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATATAATAAA
Done.