Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015310.1 Kokia drynarioides strain JFW-HI SEQ_130355, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 579475
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 305 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3668 original size:18 final size:18
Alignment explanation
Indices: 3645--3689 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3635 TTGAACTTTA
3645 ACTTTTAATCATTTTAAG
1 ACTTTTAATCATTTTAAG
* *
3663 ACTTTTATTTATTTTAAG
1 ACTTTTAATCATTTTAAG
*
3681 ACTTGTAAT
1 ACTTTTAAT
3690 TTTTGGATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (18 bp):
ACTTTTAATCATTTTAAG
Found at i:4543 original size:30 final size:30
Alignment explanation
Indices: 4507--4568 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
4497 GAGGAACAAT
*
4507 TAGGGAGTTGTCCTACTAGTCTAGAGATAG
1 TAGGGAGTAGTCCTACTAGTCTAGAGATAG
*
4537 TAGGGAGTAGTCCTAGTAGTCTAGAGATAG
1 TAGGGAGTAGTCCTACTAGTCTAGAGATAG
4567 TA
1 TA
4569 AGCTTCGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (30 bp):
TAGGGAGTAGTCCTACTAGTCTAGAGATAG
Found at i:13725 original size:20 final size:20
Alignment explanation
Indices: 13689--13738 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
13679 TCATTAAGCT
*
13689 TTAATTAATCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
13709 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
13729 TTAATATAAA
1 TTAAT-TAAA
13739 TCATACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:16657 original size:17 final size:17
Alignment explanation
Indices: 16635--16673 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
16625 CTCCACCTTG
*
16635 ACAAGAATTCTCT-ACGA
1 ACAAGAACTC-CTAACGA
16652 ACAAGAACTCCTAACGA
1 ACAAGAACTCCTAACGA
16669 ACAAG
1 ACAAG
16674 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCCTAACGA
Found at i:19370 original size:16 final size:15
Alignment explanation
Indices: 19351--19384 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
19341 ACAGAATTAA
19351 AAATAAAAGAAAATAG
1 AAATAAAAG-AAATAG
19367 AAATAAAAGAAATAG
1 AAATAAAAGAAATAG
19382 AAA
1 AAA
19385 ATAGGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATAAAAGAAATAG
Found at i:19374 original size:21 final size:22
Alignment explanation
Indices: 19328--19388 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
19318 CGATCTAAGG
* *
19328 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAAAT
19349 AAAAATAAAAGAAAATAGAAAT
1 AAAAATAAAAGAAAATAGAAAT
*
19371 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
19389 GGAAGTCGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAAAT
Found at i:19386 original size:16 final size:17
Alignment explanation
Indices: 19350--19387 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19340 AACAGAATTA
19350 AAAATAAAAGAAAATAG
1 AAAATAAAAGAAAATAG
19367 -AAATAAAAG-AAATAG
1 AAAATAAAAGAAAATAG
19382 AAAATA
1 AAAATA
19388 GGGAAGTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (17 bp):
AAAATAAAAGAAAATAG
Found at i:23933 original size:92 final size:92
Alignment explanation
Indices: 23780--23965 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 92
23770 GCATGGTTAA
23780 AACTAAAGAGTGTCTTTTAAAGTTTATCTAAATCAATTTTTTTTTTACTAGAACTGAATGGAGAT
1 AACTAAAGAGTGTCTTTTAAAGTTTATCTAAATCAATTTTTTTTTTACTAGAACTGAATGGAGAT
23845 GTAAATCATGAAAAATAAAAATTAAAC
66 GTAAATCATGAAAAATAAAAATTAAAC
*
23872 AACTAAAGAGTGTCTTTTAAAGTTTATCTAAATCAATTTTTTTTTTACTAGAACTGGATGGAGAT
1 AACTAAAGAGTGTCTTTTAAAGTTTATCTAAATCAATTTTTTTTTTACTAGAACTGAATGGAGAT
23937 GTAAATCATGAAAAATAAAAATTAAAC
66 GTAAATCATGAAAAATAAAAATTAAAC
23964 AA
1 AA
23966 ACACCTTTAA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (92 bp):
AACTAAAGAGTGTCTTTTAAAGTTTATCTAAATCAATTTTTTTTTTACTAGAACTGAATGGAGAT
GTAAATCATGAAAAATAAAAATTAAAC
Found at i:35979 original size:28 final size:28
Alignment explanation
Indices: 35939--36005 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
35929 AGGCTTAACA
* *
35939 AATATTCTATATTCTAGCTCATAAGAGT
1 AATATTCTGTATTCTAGCTCATAAGAGC
* *
35967 AATATTCTGTATTCTGGCTCATATGAGC
1 AATATTCTGTATTCTAGCTCATAAGAGC
*
35995 ATTATTCTGTA
1 AATATTCTGTA
36006 AGCTGGCTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (28 bp):
AATATTCTGTATTCTAGCTCATAAGAGC
Found at i:36011 original size:28 final size:28
Alignment explanation
Indices: 35955--36014 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
35945 CTATATTCTA
* **
35955 GCTCATAAGAGTAATATTCTGTATTCTG
1 GCTCATAAGAGCAATATTCTGTAAGCTG
* *
35983 GCTCATATGAGCATTATTCTGTAAGCTG
1 GCTCATAAGAGCAATATTCTGTAAGCTG
36011 GCTC
1 GCTC
36015 GAAAGAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (28 bp):
GCTCATAAGAGCAATATTCTGTAAGCTG
Found at i:43878 original size:313 final size:311
Alignment explanation
Indices: 43274--43897 Score: 1194
Period size: 313 Copynumber: 2.0 Consensus size: 311
43264 AGCTTTGCTG
43274 GCATTCATTTGAGTTTGGCATACGGGTTTGGGAACTAGTGGTGTGTAGTGGATGGTTAGGGTAAG
1 GCATTCATTTGAGTTTGGCATACGGGTTTGGGAACTAGTGGTGTGTAGTGGATGGTTAGGGTAAG
43339 AACTCATATGTGCATTATGTCATGAGCATGAGTCATTAAAATGTTACTATTGTTATTTGATTATG
66 AACTCATATGTGCATTATGTCATGAGCATGAGTCATTAAAATGTTACTATTGTTATTTGATTATG
43404 ATATTCGTTTCATGTGAAAGTGCTTAATGTATGCCAAATGTTTAATTGTTTAGACTCACACTAAG
131 ATATTCGTTTCATGTGAAAGTGCTTAATGTATGCCAAATGTTTAATTGTTTAGACTCACACTAAG
*
43469 CTTATTAAGCTTATCCCATTACTTCAACTTCTCAGTTAATGAACGGAATTAGGATTGGATTTGAC
196 CTTATTAAGCTTAACCCATTACTTCAACTTCTCAGTTAATGAACGGAATTAGGATTGGATTTGAC
* *
43534 ATGCAGACGTACGATGGATTTTGGGCTCAATTTCAAACAGTTTATTTTTAT
261 ATGCAGACGTACGATGGATTTTAGACTCAATTTCAAACAGTTTATTTTTAT
43585 GCATTCATTTGAGTTTGGCATACGGGTTTTGGGGAACTAGTGGTGTGTAGTGGATGGTTAGGGTA
1 GCATTCATTTGAGTTTGGCATACGGG-TTT-GGGAACTAGTGGTGTGTAGTGGATGGTTAGGGTA
*
43650 AGAACTCATATGTGTATTATGTCATGAGCATGAGTCATTAAAATGTTACTATTGTTATTTGATTA
64 AGAACTCATATGTGCATTATGTCATGAGCATGAGTCATTAAAATGTTACTATTGTTATTTGATTA
43715 TGATATTCGTTTCATGTGAAAGTGCTTAATGTATGCCAAATGTTTAATTGTTTAGACTCACACTA
129 TGATATTCGTTTCATGTGAAAGTGCTTAATGTATGCCAAATGTTTAATTGTTTAGACTCACACTA
43780 AGCTTATTAAGCTTAACCCATTACTTCAACTTCTCAGTTAATGAACGGAATTAGGATTGGATTTG
194 AGCTTATTAAGCTTAACCCATTACTTCAACTTCTCAGTTAATGAACGGAATTAGGATTGGATTTG
43845 ACATGCAGACGTACGATGGATTTTAGACTCAATTTCAAACAGTTTATTTTTAT
259 ACATGCAGACGTACGATGGATTTTAGACTCAATTTCAAACAGTTTATTTTTAT
43898 TTAAAATTCT
Statistics
Matches: 307, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
311 26 0.08
312 3 0.01
313 278 0.91
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (311 bp):
GCATTCATTTGAGTTTGGCATACGGGTTTGGGAACTAGTGGTGTGTAGTGGATGGTTAGGGTAAG
AACTCATATGTGCATTATGTCATGAGCATGAGTCATTAAAATGTTACTATTGTTATTTGATTATG
ATATTCGTTTCATGTGAAAGTGCTTAATGTATGCCAAATGTTTAATTGTTTAGACTCACACTAAG
CTTATTAAGCTTAACCCATTACTTCAACTTCTCAGTTAATGAACGGAATTAGGATTGGATTTGAC
ATGCAGACGTACGATGGATTTTAGACTCAATTTCAAACAGTTTATTTTTAT
Found at i:50659 original size:32 final size:32
Alignment explanation
Indices: 50585--50791 Score: 215
Period size: 32 Copynumber: 6.4 Consensus size: 32
50575 TAAATTCATA
* *
50585 GTATGCTCATGAGAGTTCATCAATCAGTACACTT
1 GTATGCTCGTAAGAGTT-ATCAATCAGTACAC-T
*
50619 GTATGCTCGTAGGAGTTATCAATCAGTACACT
1 GTATGCTCGTAAGAGTTATCAATCAGTACACT
*
50651 GTATGCTCGTAA-AATCTATCAATCAGTACA-T
1 GTATGCTCGTAAGAGT-TATCAATCAGTACACT
* *
50682 GGTATGCTCTTAAGAGCTATCAATCAGTACAC-
1 -GTATGCTCGTAAGAGTTATCAATCAGTACACT
* * *
50714 GATATTCTCGTAAGAGCTATCAATCAGTACACA
1 G-TATGCTCGTAAGAGTTATCAATCAGTACACT
* * **
50747 ATATGCTCATAAGAGTTA-CAAATCAGTACAAG
1 GTATGCTCGTAAGAGTTATC-AATCAGTACACT
50779 GTATGCTCGTAAG
1 GTATGCTCGTAAG
50792 GGCAATCCAA
Statistics
Matches: 148, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
31 5 0.03
32 114 0.77
33 15 0.10
34 14 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (32 bp):
GTATGCTCGTAAGAGTTATCAATCAGTACACT
Found at i:50771 original size:96 final size:97
Alignment explanation
Indices: 50585--50791 Score: 242
Period size: 96 Copynumber: 2.1 Consensus size: 97
50575 TAAATTCATA
* * * *
50585 GTATGCTCATGAGAGTTCATCAATCAGTACACTTGTATGCTCGTAGGAGTTATCAATCAGTACAC
1 GTATGCTCATAAGAGCTCATCAATCAGTACAC-TGTATGCTCGTAAGAGCTATCAATCAGTACAC
** * *
50650 TGTATGCTCGTAAAATCTATCAATCAGTACATG
65 AATATGCTCATAAAATCTATCAATCAGTACAAG
* *
50683 GTATGCTCTTAAGAGCT-ATCAATCAGTACAC-GATATTCTCGTAAGAGCTATCAATCAGTACAC
1 GTATGCTCATAAGAGCTCATCAATCAGTACACTG-TATGCTCGTAAGAGCTATCAATCAGTACAC
*
50746 AATATGCTCATAAGAGT-TA-CAAATCAGTACAAG
65 AATATGCTCATAA-AATCTATC-AATCAGTACAAG
*
50779 GTATGCTCGTAAG
1 GTATGCTCATAAG
50792 GGCAATCCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
95 2 0.02
96 62 0.66
97 16 0.17
98 14 0.15
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (97 bp):
GTATGCTCATAAGAGCTCATCAATCAGTACACTGTATGCTCGTAAGAGCTATCAATCAGTACACA
ATATGCTCATAAAATCTATCAATCAGTACAAG
Found at i:69993 original size:22 final size:22
Alignment explanation
Indices: 69963--70007 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
69953 ATAGTAAAAG
*
69963 TATATTTCTATACATATTCCAC
1 TATACTTCTATACATATTCCAC
69985 TATACTTCTATACATATTCCAC
1 TATACTTCTATACATATTCCAC
70007 T
1 T
70008 TATGCAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TATACTTCTATACATATTCCAC
Found at i:79766 original size:52 final size:52
Alignment explanation
Indices: 79710--79892 Score: 188
Period size: 52 Copynumber: 3.5 Consensus size: 52
79700 AGAGTGTTAT
* * * *
79710 TCTGTTTGGGCTCGAATGAGTTAAATTATATCTAGGCTCGTAAGAGCTAAAC
1 TCTGTTTGGGCTCGAATGAGCTAAATTCTATCTAGGCTTGTATGAGCTAAAC
* * * *
79762 TCTGTTTGGGTTCAAATGAGCTAAATTCTATTTAGGCTTGTATGGGCTAAAC
1 TCTGTTTGGGCTCGAATGAGCTAAATTCTATCTAGGCTTGTATGAGCTAAAC
* * * * * * * *
79814 TTTGTCTCGGG-TCGTATGAGCTAAACTCTGTCTCGGCTTGTTTGAGCTAAAT
1 TCTGT-TTGGGCTCGAATGAGCTAAATTCTATCTAGGCTTGTATGAGCTAAAC
* *
79866 TTTGTTTGGGCTCGTATGAGCTAAATT
1 TCTGTTTGGGCTCGAATGAGCTAAATT
79893 TCTAGAATGA
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
51 4 0.04
52 100 0.93
53 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (52 bp):
TCTGTTTGGGCTCGAATGAGCTAAATTCTATCTAGGCTTGTATGAGCTAAAC
Found at i:79893 original size:26 final size:26
Alignment explanation
Indices: 79708--79892 Score: 140
Period size: 26 Copynumber: 7.1 Consensus size: 26
79698 TAAGAGTGTT
* *
79708 ATTCTGTTTGGGCTCGAATGAGTTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
* * * * *
79734 ATTATATCTAGGCTCGTAAGAGCTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
* * **
79760 ACTCTGTTTGGGTTCAAATGAGCTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
* * * *
79786 ATTCTATTTAGGCTTGTATGGGCTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
*
79812 ACTT-TGTCTCGGG-TCGTATGAGCTAA
1 A-TTCTGT-TTGGGCTCGTATGAGCTAA
* * * * *
79838 ACTCTGTCTCGGCTTGTTTGAGCTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
*
79864 ATTTTGTTTGGGCTCGTATGAGCTAA
1 ATTCTGTTTGGGCTCGTATGAGCTAA
79890 ATT
1 ATT
79893 TCTAGAATGA
Statistics
Matches: 114, Mismatches: 41, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
25 3 0.03
26 106 0.93
27 5 0.04
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (26 bp):
ATTCTGTTTGGGCTCGTATGAGCTAA
Found at i:82159 original size:26 final size:30
Alignment explanation
Indices: 82111--82169 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 30
82101 TTATAATTTT
*
82111 TTTATAATATATATTAATTATTATCAA-AG
1 TTTATAATATATATTAATGATTATCAAGAG
*
82140 TTTAT-ATATA-ATTAA-GATTATTAAGAG
1 TTTATAATATATATTAATGATTATCAAGAG
82167 TTT
1 TTT
82170 TTATTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.26
27 10 0.37
28 5 0.19
29 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (30 bp):
TTTATAATATATATTAATGATTATCAAGAG
Found at i:84622 original size:21 final size:21
Alignment explanation
Indices: 84598--84648 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
84588 TTTTAGTAGA
84598 GGTAGAAGTAAG-ACTTGTATC
1 GGTAGAAGT-AGCACTTGTATC
84619 GGTAGAAG-AGTCACTTGTATC
1 GGTAGAAGTAG-CACTTGTATC
84640 GGTAGAAGT
1 GGTAGAAGT
84649 CTACACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
21 25 0.93
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (21 bp):
GGTAGAAGTAGCACTTGTATC
Found at i:85128 original size:26 final size:24
Alignment explanation
Indices: 85070--85129 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
85060 AATTCTCTCC
*
85070 TAATTTTTAATTTGTTTTAATTGT
1 TAATTTTTAATTTATTTTAATTGT
85094 TAACTTTTTAATTTATTTTAAATTGT
1 TAA-TTTTTAATTTATTTT-AATTGT
85120 TAATATTTTA
1 TAAT-TTTTA
85130 TACTAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 3 0.09
25 15 0.47
26 14 0.44
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (24 bp):
TAATTTTTAATTTATTTTAATTGT
Found at i:85309 original size:191 final size:191
Alignment explanation
Indices: 84985--85361 Score: 605
Period size: 191 Copynumber: 2.0 Consensus size: 191
84975 CTCCTTCAAC
* * * *
84985 CAACCCTAGACTAACCTTTTTGCTTTATACCCTAATTTTTTTAATTAAATTGTTATCATACAAAG
1 CAACCCTAGACCAACCTCTTTGCTTTATACCCTAATTGTTTTAATTAAATTGTTATCATACAAAA
* *
85050 GTGGTAAGGAAATTCTCTCCTAATTTTTAATTTGTTTTAATTGTTAACTTTTTAATTTATTTTAA
66 GTGGTAAGGAAATTCTCTCCTAATTTTTAATCTGTTTAAATTGTTAACTTTTTAATTTATTTTAA
*
85115 ATTGTTAATATTTTATACTAATTAAATCTTGAGAAAATATTAGTTGTTTCCATCTTTCGTG
131 ATTGTTAATATTTTATACTAATTAAATCTTGAGAAAATATTACTTGTTTCCATCTTTCGTG
* * *
85176 CAACCCTTGACCAACCTCTTTGCTTTATACCTTAATTGTTTTATTTAAATTGTTATCATACAAAA
1 CAACCCTAGACCAACCTCTTTGCTTTATACCCTAATTGTTTTAATTAAATTGTTATCATACAAAA
*
85241 GTGGTAAGGAATTTCTCTCCTAATTTTTAATCTGTTTAAATCT-TTAAAC-TTTTAATTTATTTT
66 GTGGTAAGGAAATTCTCTCCTAATTTTTAATCTGTTTAAAT-TGTT-AACTTTTTAATTTATTTT
* *
85304 AAATTGTTAATATTTTATACTAATTAAATCTTGGGAAAATATTACTTGTTTTCATCTT
129 AAATTGTTAATATTTTATACTAATTAAATCTTGAGAAAATATTACTTGTTTCCATCTT
85362 ATTTGATGAT
Statistics
Matches: 171, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
191 167 0.98
192 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (191 bp):
CAACCCTAGACCAACCTCTTTGCTTTATACCCTAATTGTTTTAATTAAATTGTTATCATACAAAA
GTGGTAAGGAAATTCTCTCCTAATTTTTAATCTGTTTAAATTGTTAACTTTTTAATTTATTTTAA
ATTGTTAATATTTTATACTAATTAAATCTTGAGAAAATATTACTTGTTTCCATCTTTCGTG
Found at i:90774 original size:12 final size:12
Alignment explanation
Indices: 90757--90801 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
90747 AGGGAGCAAG
*
90757 AGAAGAAGAGTA
1 AGAAGAAGAGGA
*
90769 AGAAGAAAAGGA
1 AGAAGAAGAGGA
90781 AGAAG-AGAAGGA
1 AGAAGAAG-AGGA
90793 AGAAGAAGA
1 AGAAGAAGA
90802 AAGTATTGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 1 0.04
12 25 0.89
13 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AGAAGAAGAGGA
Found at i:91221 original size:17 final size:17
Alignment explanation
Indices: 91195--91239 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
91185 GCATGCATTT
91195 ATTTTAATTGTCAT-TGC
1 ATTTTAATTGTC-TCTGC
*
91212 ATTTTTATTGTCTCTGC
1 ATTTTAATTGTCTCTGC
*
91229 ATTTTATTTGT
1 ATTTTAATTGT
91240 TTTAGCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (17 bp):
ATTTTAATTGTCTCTGC
Found at i:91462 original size:24 final size:24
Alignment explanation
Indices: 91432--91481 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
91422 AACACAATTT
* *
91432 TTCATTTG-ATGCGTAATTCTTGAA
1 TTCATTTGAATGC-TAATGCATGAA
91456 TTCATTTGAATGCTAATGCATGAA
1 TTCATTTGAATGCTAATGCATGAA
91480 TT
1 TT
91482 GGATGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (24 bp):
TTCATTTGAATGCTAATGCATGAA
Found at i:96558 original size:12 final size:12
Alignment explanation
Indices: 96541--96590 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
96531 TAGGTTCTAT
96541 TTCTTCTTTCTC
1 TTCTTCTTTCTC
96553 TTCTTCATTTC-C
1 TTCTTC-TTTCTC
*
96565 TTCTTCTTTTTC
1 TTCTTCTTTCTC
* *
96577 TTCATCCTTCTC
1 TTCTTCTTTCTC
96589 TT
1 TT
96591 GATCACCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 3 0.09
12 25 0.78
13 4 0.12
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:107587 original size:47 final size:48
Alignment explanation
Indices: 107527--107626 Score: 184
Period size: 47 Copynumber: 2.1 Consensus size: 48
107517 TCATTTGGCC
*
107527 TTAAAGACAAATAAATCATCATTTTAACACTTAGGTTACACAGTTTAT
1 TTAAAGACAAATAAATCATCATTTTAACACTTAGGTTACACAATTTAT
107575 TTAAAGAC-AATAAATCATCATTTTAACACTTAGGTTACACAATTTAT
1 TTAAAGACAAATAAATCATCATTTTAACACTTAGGTTACACAATTTAT
107622 TTAAA
1 TTAAA
107627 TAACAAAACA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 43 0.84
48 8 0.16
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (48 bp):
TTAAAGACAAATAAATCATCATTTTAACACTTAGGTTACACAATTTAT
Found at i:129998 original size:30 final size:30
Alignment explanation
Indices: 129964--130058 Score: 145
Period size: 30 Copynumber: 3.2 Consensus size: 30
129954 ACTTATTTTA
* **
129964 TTGTTAATTTTGTTATTATTTTTGAGGTGT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
129994 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
* *
130024 TTGCTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
130054 TTGTT
1 TTGTT
130059 TGTTAAGTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.21, C:0.03, G:0.17, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:133805 original size:15 final size:15
Alignment explanation
Indices: 133777--133815 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
133767 ATGACCTGCT
133777 GAAG-AAAA-AGGAA
1 GAAGAAAAAGAGGAA
133790 GAAGAAAAAGAGGAA
1 GAAGAAAAAGAGGAA
*
133805 GAAGAGAAAGA
1 GAAGAAAAAGA
133816 CCCCGTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 4 0.17
15 15 0.65
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
GAAGAAAAAGAGGAA
Found at i:136714 original size:12 final size:12
Alignment explanation
Indices: 136697--136721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136687 GATCAAGTAT
136697 ATTGATGTTTTC
1 ATTGATGTTTTC
136709 ATTGATGTTTTC
1 ATTGATGTTTTC
136721 A
1 A
136722 ACGTTAGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTGATGTTTTC
Found at i:136925 original size:19 final size:19
Alignment explanation
Indices: 136878--136925 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
136868 AGTCATAAAC
136878 AAAAAAT-AAATACGAAAG
1 AAAAAATAAAATACGAAAG
* *
136896 AAATAACAAAATACGAAA-
1 AAAAAATAAAATACGAAAG
136914 AATAAAATAAAA
1 AA-AAAATAAAA
136926 GTAAAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAAATAAAATACGAAAG
Found at i:139096 original size:5 final size:5
Alignment explanation
Indices: 139086--139117 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
139076 ACATCTATCT
*
139086 TTTTC TTTTC TTTTC TTTTC TTTTT TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
139118 ATATATGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:139736 original size:17 final size:17
Alignment explanation
Indices: 139687--139747 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
139677 ATGGAAATCC
* *
139687 AATGATAATGCAAATGT
1 AATGACAATGAAAATGT
* *
139704 AGTGACAATTAAAATGT
1 AATGACAATGAAAATGT
*
139721 AATGACAATGAGAATGT
1 AATGACAATGAAAATGT
*
139738 AATGAAAATG
1 AATGACAATG
139748 CTTACTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (17 bp):
AATGACAATGAAAATGT
Found at i:150688 original size:15 final size:16
Alignment explanation
Indices: 150668--150709 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
150658 GGATCTCCCA
150668 ATCTTCATAG-TATCC
1 ATCTTCATAGATATCC
150683 ATCTTCATAGATAT-C
1 ATCTTCATAGATATCC
150698 ATCCTT-ATAGAT
1 AT-CTTCATAGAT
150710 GTCATCATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.40
Consensus pattern (16 bp):
ATCTTCATAGATATCC
Found at i:179861 original size:20 final size:21
Alignment explanation
Indices: 179806--179861 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
179796 CTACAAGATA
*
179806 AATATTAAATTAAATTATATTT
1 AATATTAAATT-AATCATATTT
179828 AATATT-AATATAATCA-ATTT
1 AATATTAAAT-TAATCATATTT
179848 AATATTAAATTAAT
1 AATATTAAATTAAT
179862 AAAATACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 14 0.45
21 10 0.32
22 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTAATCATATTT
Found at i:180251 original size:20 final size:19
Alignment explanation
Indices: 180222--180263 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
180212 GTTCAACCAA
* *
180222 TTTTGTTCTCGGTCTCGAT
1 TTTTGTTCTCGGGCTCAAT
180241 TTTTGGTTCTCGGGCTCAAT
1 TTTT-GTTCTCGGGCTCAAT
180261 TTT
1 TTT
180264 CTATTCCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.07, C:0.19, G:0.21, T:0.52
Consensus pattern (19 bp):
TTTTGTTCTCGGGCTCAAT
Found at i:181189 original size:18 final size:15
Alignment explanation
Indices: 181151--181179 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
181141 CTTGCAAAAG
181151 AAAA-AGGAAGAAGA
1 AAAAGAGGAAGAAGA
181165 AAAAGAGGAAGAAGA
1 AAAAGAGGAAGAAGA
181180 GAATGAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAAGAGGAAGAAGA
Found at i:197053 original size:12 final size:12
Alignment explanation
Indices: 197036--197065 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
197026 GATTTTTCTA
197036 AAAATAAAAATG
1 AAAATAAAAATG
197048 AAAATAAAAATG
1 AAAATAAAAATG
197060 AGAAAT
1 A-AAAT
197066 GAATTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:197102 original size:21 final size:22
Alignment explanation
Indices: 197052--197104 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
197042 AAAATGAAAA
* *
197052 TAAAAATGAGAAATGAATTCATT
1 TAAAAATGAAAAAGGAATTCA-T
*
197075 TAGAAATGAAAAAGGAATTC-T
1 TAAAAATGAAAAAGGAATTCAT
197096 TAAAAATGA
1 TAAAAATGA
197105 TCGAAAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
23 17 0.65
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (22 bp):
TAAAAATGAAAAAGGAATTCAT
Found at i:201676 original size:19 final size:19
Alignment explanation
Indices: 201654--201698 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
201644 TTTTATTAGG
201654 ATTTAATATTTAACATAT-T
1 ATTTAATATTTAA-ATATGT
* *
201673 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
201692 ATTTAAT
1 ATTTAAT
201699 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:205235 original size:6 final size:6
Alignment explanation
Indices: 205224--205263 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
205214 GGCAACCCAA
*
205224 TTATTT TTATTT TTA-TT TTATTT TTATTT TT-TAT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
205264 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:205244 original size:11 final size:11
Alignment explanation
Indices: 205228--205268 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
205218 ACCCAATTAT
205228 TTTTATTTTTA
1 TTTTATTTTTA
205239 TTTTATTTTTA
1 TTTTATTTTTA
205250 TTTT-TTATTTA
1 TTTTATT-TTTA
205261 -TTTATTTT
1 TTTTATTTT
205269 ATTATATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:205246 original size:17 final size:17
Alignment explanation
Indices: 205224--205263 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
205214 GGCAACCCAA
205224 TTATTTTTA-TTTTTATT
1 TTATTTTTATTTTTTA-T
205241 TTATTTTTATTTTTTAT
1 TTATTTTTATTTTTTAT
205258 TTATTT
1 TTATTT
205264 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTTATTTTTTAT
Found at i:206212 original size:105 final size:106
Alignment explanation
Indices: 206044--206235 Score: 246
Period size: 105 Copynumber: 1.8 Consensus size: 106
206034 TGTGTTAGAC
* * * *
206044 TGAGTAATCGGGGTGGAGTGTTTGGTTGTCATTTCACTTCACGTCAAAAGGGCTAACACATTC-T
1 TGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCTAACACATTCTT
206108 AAACAAAGAAAA-AAAAAGAAAAAATTGAGAGCATGCTGGAT
66 AAACAAA-AAAAGAAAAAGAAAAAATTGAGAGCATGCTGGAT
* * ***
206149 TGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCATTTCACGTCAAAA-GGTTCAATGTATTCT
1 TGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCT-AACACATTCT
* *
206213 TAAAGAAAAAAAGAGAAAGAAAA
65 TAAACAAAAAAAGAAAAAGAAAA
206236 TCGACAAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
104 3 0.04
105 54 0.74
106 16 0.22
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (106 bp):
TGAGTAACCGGGATGGAGTGCTTGGGTGTCATTTCACTTCACGTCAAAAGGGCTAACACATTCTT
AAACAAAAAAAGAAAAAGAAAAAATTGAGAGCATGCTGGAT
Found at i:206836 original size:19 final size:19
Alignment explanation
Indices: 206796--206840 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
206786 TTTTATTAGG
206796 ATTTAATATTTAACATATT
1 ATTTAATATTTAACATATT
* *
206815 ATTTATTATTTAA-ATTTGT
1 ATTTAATATTTAACATAT-T
206834 ATTTAAT
1 ATTTAAT
206841 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAACATATT
Found at i:207672 original size:24 final size:24
Alignment explanation
Indices: 207642--207688 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
207632 ACTCCTATTT
207642 TTTATTTCTTTTAATTATGTTTTC
1 TTTATTTCTTTTAATTATGTTTTC
207666 TTTATTTCTTTTAATTATGTTTT
1 TTTATTTCTTTTAATTATGTTTT
207689 TTCCCCTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTATTTCTTTTAATTATGTTTTC
Found at i:211470 original size:30 final size:29
Alignment explanation
Indices: 211377--211477 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 29
211367 ACTTCTTTAG
* *
211377 AATAAAAAAATTTTCATTTAA-ATTTTTTAA
1 AATAAAAAAA-TTTAATTTAATA-TTTTAAA
* * *
211407 AATAATAAAAA-ATATATTCTTATTTTATTAAA
1 AATAA-AAAAATTTA-ATT-TAATATT-TTAAA
211439 AATAATAAAAATTTAATTTAATATTTTAAA
1 AATAA-AAAAATTTAATTTAATATTTTAAA
211469 AATAAAAAA
1 AATAAAAAA
211478 TAAATTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
29 5 0.09
30 18 0.32
31 14 0.25
32 18 0.32
33 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
AATAAAAAAATTTAATTTAATATTTTAAA
Found at i:213207 original size:22 final size:21
Alignment explanation
Indices: 213167--213209 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
213157 TTACACATTT
213167 AATATTTAATTAATTTTTTTA
1 AATATTTAATTAATTTTTTTA
*
213188 AATATTATAATT-ATTATTTTA
1 AATATT-TAATTAATTTTTTTA
213209 A
1 A
213210 TGATTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AATATTTAATTAATTTTTTTA
Found at i:222382 original size:52 final size:52
Alignment explanation
Indices: 222296--222585 Score: 411
Period size: 52 Copynumber: 5.6 Consensus size: 52
222286 AATGAAAAAG
* **
222296 GGTCCGATGACTACATGTCATCGTGAGTATATGAATCCTTTATGGATTATGA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
* * *
222348 GGTTCGAAGACTACGTGTCATCGTGAGTATATGAATCTTTTACAGATTATGA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
* * *
222400 GGTCCGATAACTACGTGTCATCGTGAGTATAT-ATATCCTTTACGGATTTTGA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGA-ATCCTTTACAGATTATGA
* *
222452 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATAGATTATGA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
* * * *
222504 AGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAGATTACGA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
* *
222556 GTTCCGATGACTATGTGTCATCGTGAGTAT
1 GGTCCGATGACTACGTGTCATCGTGAGTAT
222586 TAAACGAAAT
Statistics
Matches: 212, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
51 1 0.00
52 210 0.99
53 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (52 bp):
GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACAGATTATGA
Found at i:222580 original size:156 final size:156
Alignment explanation
Indices: 222296--222585 Score: 463
Period size: 156 Copynumber: 1.9 Consensus size: 156
222286 AATGAAAAAG
* * *
222296 GGTCCGATGACTACATGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGTTCGAAGACTA
1 GGTCCGATGACTACATGTCATCGTGAGTATATGAATCCTTTATAGATTATGAAGTCCGAAGACTA
* * *
222361 CGTGTCATCGTGAGTATATGAATCTTTTACAGATTATGAGGTCCGATAACTACGTGTCATCGTGA
66 CGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATAACTACGTGTCATCGTGA
222426 GTATATATATCCTTTACGGATTTTGA
131 GTATATATATCCTTTACGGATTTTGA
** *
222452 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATAGATTATGAAGTCCGATGACTA
1 GGTCCGATGACTACATGTCATCGTGAGTATATGAATCCTTTATAGATTATGAAGTCCGAAGACTA
* * * *
222517 TGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGTTCCGATGACTATGTGTCATCGTGA
66 CGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATAACTACGTGTCATCGTGA
222582 GTAT
131 GTAT
222586 TAAACGAAAT
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
156 121 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (156 bp):
GGTCCGATGACTACATGTCATCGTGAGTATATGAATCCTTTATAGATTATGAAGTCCGAAGACTA
CGTGTCATCATGAGTATATGAATCCTTTACAGATTACGAGGTCCGATAACTACGTGTCATCGTGA
GTATATATATCCTTTACGGATTTTGA
Found at i:231361 original size:22 final size:23
Alignment explanation
Indices: 231333--231375 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
231323 CTTGAAATTA
**
231333 AGTATTTTCTTTATAT-TTTCAT
1 AGTATTTAATTTATATATTTCAT
231355 AGTATTTAATTTATATATTTC
1 AGTATTTAATTTATATATTTC
231376 TTTTGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (23 bp):
AGTATTTAATTTATATATTTCAT
Found at i:238586 original size:51 final size:51
Alignment explanation
Indices: 238502--238640 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 51
238492 AGGAAAGACA
* * *
238502 GTGTAAGACCATGTAAGAG-AGTCTCCATGGCATCCACAAATATTGTATGAG
1 GTGTAAGACCATGTGAGTGAAG-CTCCATGGCATCCACAAATATGGTATGAG
* * * *
238553 GTGTAAGACCATGTGAGTGAAGCTTCATTGCATCTACAAATATGGTATGGG
1 GTGTAAGACCATGTGAGTGAAGCTCCATGGCATCCACAAATATGGTATGAG
*
238604 GTGTAAGACCATGTGAGTGAGGCTCCATGGCATCCAC
1 GTGTAAGACCATGTGAGTGAAGCTCCATGGCATCCAC
238641 TGTGTTAGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 74 0.97
52 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (51 bp):
GTGTAAGACCATGTGAGTGAAGCTCCATGGCATCCACAAATATGGTATGAG
Found at i:239525 original size:19 final size:19
Alignment explanation
Indices: 239503--239541 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
239493 TTTTAAATGG
*
239503 TGAATAGTATTATAGGCCA
1 TGAATAGTATTATAGACCA
239522 TGAATAGTATTATAGACCA
1 TGAATAGTATTATAGACCA
239541 T
1 T
239542 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (19 bp):
TGAATAGTATTATAGACCA
Found at i:254581 original size:23 final size:25
Alignment explanation
Indices: 254555--254600 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
254545 CCAATTAGGG
254555 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
254578 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
254601 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:255687 original size:18 final size:19
Alignment explanation
Indices: 255666--255708 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
255656 TTTAGCCATT
255666 TTTTATTATTT-ATTTTTA
1 TTTTATTATTTCATTTTTA
255684 TTTTATTATTTGCATTTTTA
1 TTTTATTATTT-CATTTTTA
*
255704 ATTTA
1 TTTTA
255709 ATTTTTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTATTATTTCATTTTTA
Found at i:258596 original size:12 final size:11
Alignment explanation
Indices: 258578--258624 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
258568 AAAAAATTAG
258578 TATATTTATTT
1 TATATTTATTT
258589 TCATATTTATTTT
1 T-ATATTTA-TTT
*
258602 TATTTTTATTT
1 TATATTTATTT
258613 TAT-TTTATTT
1 TATATTTATTT
258623 TA
1 TA
258625 ATTATGCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 9 0.27
11 7 0.21
12 13 0.39
13 4 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TATATTTATTT
Found at i:258605 original size:6 final size:6
Alignment explanation
Indices: 258582--258623 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
258572 AATTAGTATA
* *
258582 TTTATT TTCATA TTTATT TTTATT TTTA-T TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
258624 AATTATGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:258613 original size:5 final size:5
Alignment explanation
Indices: 258582--258624 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
258572 AATTAGTATA
258582 TTTAT TTTCAT ATTTATT TTTATT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTT-AT -TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTA
258625 ATTATGCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 18 0.51
6 13 0.37
7 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:260624 original size:23 final size:25
Alignment explanation
Indices: 260597--260642 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
260587 CTAATTAGGG
260597 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
260620 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
260643 TGGATCCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:269113 original size:29 final size:28
Alignment explanation
Indices: 269079--269135 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
269069 GAGGAATTTG
*
269079 GGGATTAAAATCAAAGTTTTTGGAAAATT
1 GGGATTAAAATCAAA-CTTTTGGAAAATT
269108 GGGATTAAAATCAAACTTTTGGAAAATT
1 GGGATTAAAATCAAACTTTTGGAAAATT
269136 TGAGGGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.33
Consensus pattern (28 bp):
GGGATTAAAATCAAACTTTTGGAAAATT
Found at i:269156 original size:29 final size:27
Alignment explanation
Indices: 269124--269323 Score: 121
Period size: 29 Copynumber: 6.8 Consensus size: 27
269114 AAAATCAAAC
269124 TTTTGGAAAATTTGAGGGTAAAATGGTAA
1 TTTTGG-AAATTTGAGGGTAAAAT-GTAA
* * *
269153 TTTTAGGATATTTTAGGGTAAAACAGTAA
1 TTTT-GGAAATTTGAGGGTAAAA-TGTAA
*
269182 TTTTTGGAAGTTTGAGGGTAAAAATGTAA
1 -TTTTGGAAATTTGAGGGT-AAAATGTAA
* * * * *
269211 TTTTTAAGAAGTTTAGACGTTAAAATGTGAT
1 -TTTT-GGAAATTT-GAGGGTAAAATGT-AA
* **
269242 TTTTAGAAATTCAAGGGTAAAAATGTAA
1 TTTTGGAAATTTGAGGGT-AAAATGTAA
* * *
269270 TTTTAAGAAGTTCGAGGGTTAAAATGTAA
1 TTTT-GGAAATTTGAGGG-TAAAATGTAA
269299 TTTTTGGAAAGTTTGAGGGTTAAAA
1 -TTTTGGAAA-TTTGAGGG-TAAAA
269324 CGTGATTTCT
Statistics
Matches: 137, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
28 8 0.06
29 78 0.57
30 46 0.34
31 5 0.04
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (27 bp):
TTTTGGAAATTTGAGGGTAAAATGTAA
Found at i:269226 original size:58 final size:57
Alignment explanation
Indices: 269124--269323 Score: 199
Period size: 59 Copynumber: 3.4 Consensus size: 57
269114 AAAATCAAAC
* * *
269124 TTTTGGAAAATTTGAGGGT-AAAATGGTAATTTTAGGATATTTTAGGGTAAAACAGTAAT
1 TTTTGGAAAATTTGAGGGTAAAAAT-GTAATTTTAAGA-AGTTTAGGGTAAAA-TGTAAT
* * *
269183 TTTTGG-AAGTTTGAGGGTAAAAATGTAATTTTTAAGAAGTTTAGACGTTAAAATGTGAT
1 TTTTGGAAAATTTGAGGGTAAAAATGTAA-TTTTAAGAAGTTTAG--GGTAAAATGTAAT
* ** *
269242 TTTTAG-AAATTCAAGGGTAAAAATGTAATTTTAAGAAGTTCGAGGGTTAAAATGTAAT
1 TTTTGGAAAATTTGAGGGTAAAAATGTAATTTTAAGAAGTT-TAGGG-TAAAATGTAAT
* *
269300 TTTTGGAAAGTTTGAGGGTTAAAA
1 TTTTGGAAAATTTGAGGGTAAAAA
269324 CGTGATTTCT
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
58 48 0.41
59 61 0.53
60 6 0.05
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (57 bp):
TTTTGGAAAATTTGAGGGTAAAAATGTAATTTTAAGAAGTTTAGGGTAAAATGTAAT
Found at i:269311 original size:88 final size:88
Alignment explanation
Indices: 269167--269331 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 88
269157 AGGATATTTT
** *
269167 AGGGTAAAACAGTAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAAGAAGTTT-AGACGT
1 AGGGTAAAACAGTAATTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTAAGAAGTTTGAG-CGT
*
269231 TAAAATGTGATTTTTAGAAATTCA
65 TAAAACGTGATTTTTAGAAATTCA
* * *
269255 AGGGTAAAA-ATGTAATTTTAAGAAGTTCGAGGGTTAAAATGTAATTTTT-GGAAAGTTTGAGGG
1 AGGGTAAAACA-GTAATTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTAAG-AAGTTTGAGCG
269318 TTAAAACGTGATTT
64 TTAAAACGTGATTT
269332 CTAAAAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
87 2 0.03
88 63 0.94
89 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.36
Consensus pattern (88 bp):
AGGGTAAAACAGTAATTTTAAGAAGTTCGAGGGTAAAAATGTAATTTTTAAGAAGTTTGAGCGTT
AAAACGTGATTTTTAGAAATTCA
Found at i:271173 original size:6 final size:6
Alignment explanation
Indices: 271162--271204 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
271152 TAGATTTGAA
*
271162 TAAATT TAAATT TAAA-T T-AATT TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
271205 CCTAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 2 0.06
5 8 0.25
6 22 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:271174 original size:16 final size:16
Alignment explanation
Indices: 271150--271204 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
271140 CATTATTTAT
* *
271150 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
271166 TTTAAATTTAAATTAA
1 TTTAAATTTAAATAAA
271182 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
271199 TTTAAA
1 TTTAAA
271205 CCTAAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:271192 original size:11 final size:11
Alignment explanation
Indices: 271162--271203 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
271152 TAGATTTGAA
271162 TAAATTTAAATT
1 TAAATTT-AATT
271174 TAAA-TTAATT
1 TAAATTTAATT
**
271184 TAAATTTAAAA
1 TAAATTTAATT
271195 TAAATTTAA
1 TAAATTTAA
271204 ACCTAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 8 0.30
11 15 0.56
12 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:271200 original size:17 final size:17
Alignment explanation
Indices: 271160--271221 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
271150 TTTAGATTTG
271160 AATAAATTTAAATTT-A
1 AATAAATTTAAATTTAA
*
271176 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
**
271193 AATAAATTTAAACCTAA
1 AATAAATTTAAATTTAA
*
271210 AACAAATTTAAA
1 AATAAATTTAAA
271222 AATGAGTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
16 14 0.35
17 26 0.65
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:271606 original size:39 final size:39
Alignment explanation
Indices: 271546--272153 Score: 338
Period size: 39 Copynumber: 15.7 Consensus size: 39
271536 GCTGATGGTG
* * * *
271546 ATCTACCCCAGGCTCGAGGTAAGAGATCGAATGACTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * *
271585 ATTTGCCCCAAGCTTGGGGTAAGAGGTTAGCTG-ATGG-TG--
1 ATCTGCCCCAAGCTCGGGGTAAGA-G--ATC-GAATGGCTGCA
* * * *
271624 ATCTGCCCTAGGCTCGGGGTAAGAGATCAAATGGCTACA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * * ** * * **
271663 ATCTACCCCAAGCTCGGGTTAAGAGATTGGCTGACGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * * *
271702 ATCT-ACCCAAGGCTCAGGGTAAGAAATCGGATGGCTGCA
1 ATCTGCCCCAA-GCTCGGGGTAAGAGATCGAATGGCTGCA
* * * * *
271741 ATCTGCCCTAGGCTTGGGGTAAGAGATTGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * *
271780 TTCTGCCCCAGGCTTGGGGTAAGAGATTGGCTG-ATGG-TG--
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-T--C-GAATGGCTGCA
* *
271819 ATTTGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * *
271858 ATCTG-CCCTAGTCTCGGGGTAAGAGATTGGATGG-TG--
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATCGAATGGCTGCA
* * * **
271894 ATCTGCCCCAAGCTTGGGATAAGAGATCGGATGGCTATA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* ** * *
271933 ATCTGCCTCAAGCTCGGGGTAAGAGATTTACT-GATG-A
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * *
271970 TGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACA
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * * ** * *
272011 ATCT-NCTCAAGTTCGGGGTAAGAGATTTACT-GATG-A
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * *
272047 TGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACA
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
* * * * *
272088 ATCTGCTCCATGATCGGGGTAAGAGATTTG-CTGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-TCGAATGGCTGCA
* *
272127 ATCTGCCCTAAGCTC-GGGTAAAAGATC
1 ATCTGCCCCAAGCTCGGGGTAAGAGATC
272154 AACTTCTGTC
Statistics
Matches: 423, Mismatches: 113, Indels: 68
0.70 0.19 0.11
Matches are distributed among these distances:
35 1 0.00
36 36 0.09
37 13 0.03
38 47 0.11
39 298 0.70
40 11 0.03
41 6 0.01
42 9 0.02
43 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTGCA
Found at i:271649 original size:78 final size:78
Alignment explanation
Indices: 271501--271768 Score: 302
Period size: 78 Copynumber: 3.4 Consensus size: 78
271491 TTGATAACTA
* * * * *
271501 CAATCTGCCTCACGATTGGGGTAAGAGATTGGATGGCTGATGGTGATCTACCCCAGGCTCGAGGT
1 CAATCTGCCCCAAGCTTGGGGTAAGAGATT--A--GCTGATGGTGATCTACCCAAGGCTCGGGGT
*
271566 AAGAGATCGAATGACTG
62 AAGAGATCGAATGGCTG
* * * *
271583 CAATTTGCCCCAAGCTTGGGGTAAGAGGTTAGCTGATGGTGATCTGCCCTAGGCTCGGGGTAAGA
1 CAATCTGCCCCAAGCTTGGGGTAAGAGATTAGCTGATGGTGATCTACCCAAGGCTCGGGGTAAGA
* *
271648 GATCAAATGGCTA
66 GATCGAATGGCTG
* * * * * *
271661 CAATCTACCCCAAGCTCGGGTTAAGAGATTGGCTGACGGTGATCTACCCAAGGCTCAGGGTAAGA
1 CAATCTGCCCCAAGCTTGGGGTAAGAGATTAGCTGATGGTGATCTACCCAAGGCTCGGGGTAAGA
* *
271726 AATCGGATGGCTG
66 GATCGAATGGCTG
* *
271739 CAATCTGCCCTAGGCTTGGGGTAAGAGATT
1 CAATCTGCCCCAAGCTTGGGGTAAGAGATT
271769 GAATGGTTGC
Statistics
Matches: 156, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
78 130 0.83
80 1 0.01
82 25 0.16
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
CAATCTGCCCCAAGCTTGGGGTAAGAGATTAGCTGATGGTGATCTACCCAAGGCTCGGGGTAAGA
GATCGAATGGCTG
Found at i:271722 original size:117 final size:117
Alignment explanation
Indices: 271591--272152 Score: 388
Period size: 117 Copynumber: 4.9 Consensus size: 117
271581 TGCAATTTGC
* * *
271591 CCCAA-GCTTGGGGTAAGAGGTTAGCTGATGG-TG-ATCTGCCCTAGGCTCGGGGTAAGAGATCA
1 CCCAAGGCTCGGGGTAAGA-G-TATCTGATGGCTGAATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * *
271653 AATGGCTACAATCTACCCCAAGCTCGGGTTAAGAGATTGGCTGACGGTGATCTA
64 AATGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTG
* * * * *
271707 CCCAAGGCTCAGGGTAAGA-AATCGGATGGCTGCAATCTGCCCTAGGCTTGGGGTAAGAGATTGA
1 CCCAAGGCTCGGGGTAAGAGTATCTGATGGCTG-AATCTGCCCTAGGCTCGGGGTAAGAGATCGA
* * * * * * *
271771 ATGGTTGCATTCTGCCCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATTTG
65 ATGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTG
* * *
271824 CCCCAGGCTCGGGGTAAGAG-ATC-GAATGGCTGCAATCTGCCCTAGTCTCGGGGTAAGAGATTG
1 CCCAAGGCTCGGGGTAAGAGTATCTG-ATGGCTG-AATCTGCCCTAGGCTCGGGGTAAGAGATCG
* * * * * * * ** *
271887 GATGG-T--GATCTGCCCCAAGCTTGGGATAAGAGATCGGATGGCTATAATCTG
64 AATGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTG
* * * * * *
271938 CCTCAA-GCTCGGGGTAAGAGATTTACTGAT-GATG-TTCTGCCCCAAGCTCGAGGTAAGAGATC
1 CC-CAAGGCTCGGGGTAAGAG-TAT-CTGATGGCTGAATCTGCCCTAGGCTCGGGGTAAGAGATC
* * * ** * * *
272000 GAATGGCTACAATCT-NCTCAAGTTCGGGGTAAGAGATTTACTGATGATGTTCTG
63 GAATGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTG
* * * *
272054 CCCCAA-GCTCGAGGTAAGAG-ATC-GAATGGCTACAATCTGCTCC-ATGATCGGGGTAAGAGAT
1 -CCCAAGGCTCGGGGTAAGAGTATCTG-ATGGCT-GAATCTGC-CCTAGGCTCGGGGTAAGAGA-
* * * * *
272115 TTG-CTGGCTGCAATCTGCCCTAAGCTC-GGGTAAAAGAT
61 TCGAATGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGAT
272153 CAACTTCTGT
Statistics
Matches: 348, Mismatches: 76, Indels: 44
0.74 0.16 0.09
Matches are distributed among these distances:
112 1 0.00
113 3 0.01
114 86 0.25
115 5 0.01
116 92 0.26
117 160 0.46
118 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (117 bp):
CCCAAGGCTCGGGGTAAGAGTATCTGATGGCTGAATCTGCCCTAGGCTCGGGGTAAGAGATCGAA
TGGCTACAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTG
Found at i:271967 original size:153 final size:151
Alignment explanation
Indices: 271718--272116 Score: 424
Period size: 153 Copynumber: 2.6 Consensus size: 151
271708 CCAAGGCTCA
* * * * * * * *
271718 GGGTAAGAAATCGGATGGCTGCAATCTGCCCTAGGCTTGGGGTAAGAGATTGAATGGTTGCATTC
1 GGGTAAGAGATTGGATGG-TG--ATCTGCCCCAAGCTT-GGGTAAGAGATCGAATGGCTACAATC
* * * ** * * *
271783 TGCCCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATT-TGCCCCAGGCTCGGGGTAAGAGATC
62 TGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATG-TTCTGCCCCAAGCTCGAGGTAAGAGATC
* *
271847 GAATGGCTGCAATCTGCCCTAGTCTCG
126 GAATGGCTACAATCTGCCCAAGT-TCG
* *
271874 GGGTAAGAGATTGGATGGTGATCTGCCCCAAGCTTGGGATAAGAGATCGGATGGCTATAATCTGC
1 GGGTAAGAGATTGGATGGTGATCTGCCCCAAGCTTGGG-TAAGAGATCGAATGGCTACAATCTGC
271939 CTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAAT
65 CTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAAT
* *
272004 GGCTACAATCTNCTCAAGTTCG
130 GGCTACAATCTGCCCAAGTTCG
* * * *
272026 GGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAATC
1 GGGTAAGAGA-TT--GGATGGTGATCTGCCCCAAGCTTG-GGTAAGAGATCGAATGGCTACAATC
* *
272091 TG-CTCCATGATCGGGGTAAGAGATTT
62 TGCCT-CAAGCTCGGGGTAAGAGATTT
272117 GCTGGCTGCA
Statistics
Matches: 206, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
152 18 0.09
153 104 0.50
154 2 0.01
155 64 0.31
156 18 0.09
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (151 bp):
GGGTAAGAGATTGGATGGTGATCTGCCCCAAGCTTGGGTAAGAGATCGAATGGCTACAATCTGCC
TCAAGCTCGGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATG
GCTACAATCTGCCCAAGTTCG
Found at i:272006 original size:78 final size:78
Alignment explanation
Indices: 271758--272116 Score: 410
Period size: 78 Copynumber: 4.7 Consensus size: 78
271748 CTAGGCTTGG
* * * * * * * ** *
271758 GGTAAGAGATTGAATGGTTGCATTCTGCCCCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATT-
1 GGTAAGAGATCGAATGGCTACAATCTGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATG-TTC
* *
271822 TGCCCCAGGCTCGG
65 TGCCCCAAGCTCGA
* * * * *
271836 GGTAAGAGATCGAATGGCTGCAATCTGCC-CTAGTCTCGGGGTAAGAGA-TT--GGATGGTGATC
1 GGTAAGAGATCGAATGGCTACAATCTGCCTCAAG-CTCGGGGTAAGAGATTTACTGATGATGTTC
*
271897 TGCCCCAAGCTTG-
65 TGCCCCAAGCTCGA
* *
271910 GGATAAGAGATCGGATGGCTATAATCTGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTC
1 GG-TAAGAGATCGAATGGCTACAATCTGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTC
271975 TGCCCCAAGCTCGA
65 TGCCCCAAGCTCGA
* *
271989 GGTAAGAGATCGAATGGCTACAATCT-NCTCAAGTTCGGGGTAAGAGATTTACTGATGATGTTCT
1 GGTAAGAGATCGAATGGCTACAATCTGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTCT
272053 GCCCCAAGCTCGA
66 GCCCCAAGCTCGA
* *
272066 GGTAAGAGATCGAATGGCTACAATCTG-CTCCATGATCGGGGTAAGAGATTT
1 GGTAAGAGATCGAATGGCTACAATCTGCCT-CAAGCTCGGGGTAAGAGATTT
272117 GCTGGCTGCA
Statistics
Matches: 246, Mismatches: 25, Indels: 20
0.85 0.09 0.07
Matches are distributed among these distances:
74 3 0.01
75 56 0.23
76 5 0.02
77 80 0.33
78 100 0.41
79 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (78 bp):
GGTAAGAGATCGAATGGCTACAATCTGCCTCAAGCTCGGGGTAAGAGATTTACTGATGATGTTCT
GCCCCAAGCTCGA
Found at i:272051 original size:77 final size:77
Alignment explanation
Indices: 271795--272116 Score: 402
Period size: 77 Copynumber: 4.2 Consensus size: 77
271785 CCCCAGGCTT
** * * * *
271795 GGGGTAAGAGATTGGCTGATGGTGATT-TGCCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAA
1 GGGGTAAGAGATTTACTGATGATG-TTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAA
* *
271859 TCTGCCCTAGTCTC
65 TCTGCTCAAGT-TC
* * * * * *
271873 GGGGTAAGAGA-TT--GGATGGTGATCTGCCCCAAGCTTG-GGATAAGAGATCGGATGGCTATAA
1 GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGG-TAAGAGATCGAATGGCTACAA
*
271934 TCTGCCTCAAGCTC
65 TCTG-CTCAAGTTC
271948 GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAAT
1 GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAAT
*
272013 CTNCTCAAGTTC
66 CTGCTCAAGTTC
272025 GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAAT
1 GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAAT
* *
272090 CTGCTCCATGATC
66 CTGCT-CAAGTTC
272103 GGGGTAAGAGATTT
1 GGGGTAAGAGATTT
272117 GCTGGCTGCA
Statistics
Matches: 214, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
74 3 0.01
75 53 0.25
76 6 0.03
77 78 0.36
78 72 0.34
79 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (77 bp):
GGGGTAAGAGATTTACTGATGATGTTCTGCCCCAAGCTCGAGGTAAGAGATCGAATGGCTACAAT
CTGCTCAAGTTC
Found at i:276053 original size:29 final size:29
Alignment explanation
Indices: 276021--276358 Score: 232
Period size: 29 Copynumber: 11.7 Consensus size: 29
276011 AAAATTTAAA
* * *
276021 GGTAAAATGGTGATTTTTGGATGCTCGGG
1 GGTAAAATGGTAATTTTTGGATGTTCGAG
* *
276050 GGTAAAATGGTAA-TTTTGGATATTCAAG
1 GGTAAAATGGTAATTTTTGGATGTTCGAG
* *
276078 GGAAAAATGGTAATTTTTGGATGTTTG-G
1 GGTAAAATGGTAATTTTTGGATGTTCGAG
* * *
276106 GGGAAAACGGTAATTTTTGGATGTTTGAG
1 GGTAAAATGGTAATTTTTGGATGTTCGAG
*
276135 GGTAAAAAT-GTAATTTTTGGATGTTTGAG
1 GGT-AAAATGGTAATTTTTGGATGTTCGAG
*
276164 GGTAAAAAT-GTAATTTTTAGATGTTCG-G
1 GGT-AAAATGGTAATTTTTGGATGTTCGAG
* * *
276192 GTATCAAAAT-GTGATTTTTGGAAGTTCGAAG
1 G-GT-AAAATGGTAATTTTTGGATGTTCG-AG
** *
276223 GCAAAAAT-GTAATTTTTGAGAAGTTCGAAG
1 GGTAAAATGGTAATTTTTG-GATGTTCG-AG
* * * *
276253 GTTGAAAT-GTAATTTTTAGAAAT-TTTGAG
1 GGTAAAATGGTAATTTTT-G-GATGTTCGAG
* *
276282 GGTAAAAT-GTAATTTTAGGAAGTTCGAG
1 GGTAAAATGGTAATTTTTGGATGTTCGAG
** * *
276310 GGTTAAAAT-GTAATTTTTAAAAAGTTTGAG
1 GG-TAAAATGGTAATTTTT-GGATGTTCGAG
276340 GGTTAAAAT-GTAATTTTTG
1 GG-TAAAATGGTAATTTTTG
276359 AAAAGTTTGG
Statistics
Matches: 258, Mismatches: 40, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.00
28 59 0.23
29 135 0.52
30 58 0.22
31 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.38
Consensus pattern (29 bp):
GGTAAAATGGTAATTTTTGGATGTTCGAG
Found at i:276099 original size:57 final size:58
Alignment explanation
Indices: 276024--276180 Score: 196
Period size: 57 Copynumber: 2.7 Consensus size: 58
276014 ATTTAAAGGT
* * *
276024 AAAATGGTGATTTTTGGATGCTCGGGGGTAAAATGGTAATTTTGGATATTCAAGGG-A
1 AAAATGGTAATTTTTGGATGTTTGGGGGTAAAATGGTAATTTTGGATATTCAAGGGTA
* * **
276081 AAAATGGTAATTTTTGGATGTTTGGGGG-AAAACGGTAATTTTTGGATGTTTGAGGGTA
1 AAAATGGTAATTTTTGGATGTTTGGGGGTAAAATGGTAA-TTTTGGATATTCAAGGGTA
*
276139 AAAAT-GTAATTTTTGGATGTTTGAGGGTAAAAAT-GTAATTTT
1 AAAATGGTAATTTTTGGATGTTTGGGGGT-AAAATGGTAATTTT
276181 TAGATGTTCG
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
56 9 0.10
57 64 0.74
58 10 0.11
59 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.29, T:0.38
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGATGTTTGGGGGTAAAATGGTAATTTTGGATATTCAAGGGTA
Found at i:276187 original size:58 final size:58
Alignment explanation
Indices: 276024--276389 Score: 259
Period size: 58 Copynumber: 6.3 Consensus size: 58
276014 ATTTAAAGGT
* * * * * *
276024 AAAATGGTGATTTTTGGATGCTCGGGGGT-AAAATGGTAA-TTTTGGATA-TTCAAGGG-A
1 AAAAT-GTAATTTTTGGATGTTTGAGGGTAAAAAT-GTAATTTTTAGA-AGTTCGAGGGTA
* ** * * *
276081 AAAATGGTAATTTTTGGATGTTTG-GGGGAAAACGGTAATTTTTGGATGTTTGAGGGTA
1 AAAAT-GTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTCGAGGGTA
*
276139 AAAATGTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTTAGATGTTC--GGGTA
1 AAAATGTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTCGAGGGTA
* * * * * * *
276195 TCAAAATGTGATTTTTGGAAGTTCGAAGGCAAAAATGTAATTTTTGAGAAGTTCGAAGGTT
1 --AAAATGTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTT-AGAAGTTCGAGGGTA
* * *
276256 GAAATGTAATTTTTAGAAAT-TTTGAGGGT-AAAATGTAA-TTTTAGGAAGTTCGAGGGTT
1 AAAATGTAATTTTT-G-GATGTTTGAGGGTAAAAATGTAATTTTTA-GAAGTTCGAGGGTA
** * * * * *
276314 AAAATGTAATTTTTAAAAAGTTTGAGGGTTAAAATGTAATTTTTGAAAAGTTTG-GGGTT
1 AAAATGTAATTTTT-GGATGTTTGAGGGTAAAAATGTAATTTTT-AGAAGTTCGAGGGTA
* *
276373 AAAACGTGATTTTTGGA
1 AAAATGTAATTTTTGGA
276390 AAAATTAGAG
Statistics
Matches: 253, Mismatches: 39, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
56 12 0.05
57 58 0.23
58 107 0.42
59 54 0.21
60 17 0.07
61 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTCGAGGGTA
Found at i:276297 original size:88 final size:87
Alignment explanation
Indices: 276101--276390 Score: 300
Period size: 88 Copynumber: 3.3 Consensus size: 87
276091 TTTTTGGATG
* * * * *
276101 TTTGGGGGAAAACGGTAATTTTTGGATGTTTGAGGGTAAAAATGTAATTTTTG-GATGTTTGAGG
1 TTTGGGGTAAAA-TGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAGAAGTTTGAGG
*
276165 GTAAAAATGTAATTTTTAG--AT
65 GTTAAAATGTAATTTTTAGAAAT
* * * * * *
276186 GTTCGGGTATCAAAATGTGATTTTTGGAAGTTCGAAGGCAAAAATGTAATTTTTGAGAAGTTCGA
1 -TTTGGG-GT-AAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAGAAGTTTGA
* *
276251 AGGTTGAAATGTAATTTTTAGAAAT
63 GGGTTAAAATGTAATTTTTAGAAAT
* * * *
276276 TTTGAGGGTAAAATGTAATTTTAGGAAGTTCGAGGGTTAAAATGTAATTTTTAAAAAGTTTGAGG
1 TTTG-GGGTAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAGAAGTTTGAGG
*
276341 GTTAAAATGTAATTTTT-GAAAAG
65 GTTAAAATGTAATTTTTAG-AAAT
* *
276364 TTTGGGGTTAAAACGTGATTTTTGGAA
1 TTTGGGG-TAAAATGTAATTTTTGGAA
276391 AAATTAGAGA
Statistics
Matches: 166, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
86 5 0.03
87 38 0.23
88 115 0.69
89 4 0.02
90 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (87 bp):
TTTGGGGTAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAGAAGTTTGAGGG
TTAAAATGTAATTTTTAGAAAT
Found at i:276372 original size:29 final size:30
Alignment explanation
Indices: 276081--276387 Score: 253
Period size: 29 Copynumber: 10.5 Consensus size: 30
276071 ATTCAAGGGA
* *
276081 AAAATGGTAATTTTTG-GATGTTTG-GGG-G
1 AAAAT-GTAATTTTTGAGAAGTTTGAGGGTT
* * *
276109 AAAACGGTAATTTTTG-GATGTTTGAGGGTA
1 AAAA-TGTAATTTTTGAGAAGTTTGAGGGTT
* *
276139 AAAATGTAATTTTTG-GATGTTTGAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* *
276168 AAAATGTAATTTTT-AGATG-TT-CGGGTAT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGT-T
* * * **
276196 CAAAATGTGATTTTTG-GAAGTTCGAAGGCA
1 -AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* *
276226 AAAATGTAATTTTTGAGAAGTTCGAAGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* *
276256 GAAATGTAATTTTT-AGAAATTTTGAGGG-T
1 AAAATGTAATTTTTGAG-AAGTTTGAGGGTT
* *
276285 AAAATGTAATTTTAG-GAAGTTCGAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* *
276314 AAAATGTAATTTTTAAAAAGTTTGAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
*
276344 AAAATGTAATTTTTGAAAAGTTTG-GGGTT
1 AAAATGTAATTTTTGAGAAGTTTGAGGGTT
* *
276373 AAAACGTGATTTTTG
1 AAAATGTAATTTTTG
276388 GAAAAATTAG
Statistics
Matches: 235, Mismatches: 30, Indels: 27
0.80 0.10 0.09
Matches are distributed among these distances:
27 4 0.02
28 33 0.14
29 123 0.52
30 73 0.31
31 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTGAGGGTT
Found at i:278231 original size:6 final size:6
Alignment explanation
Indices: 278220--278296 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
278210 TAGATTTGAA
* * *
278220 TAAATT TAAATT TAAA-- TAATTT TAAATT TAAA-A TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
278265 TAAAAT T-AATT TAACTT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
278297 CCTAAAACAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
4 3 0.05
5 12 0.22
6 40 0.73
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:278232 original size:16 final size:16
Alignment explanation
Indices: 278208--278296 Score: 97
Period size: 17 Copynumber: 5.4 Consensus size: 16
278198 CATTATTTAT
* *
278208 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
278224 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
278240 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
* *
278257 TTTAAACTTAAAATTAA
1 TTTAAA-TTTAAATAAA
*
278274 TTTAACTTTAAAATAAA
1 TTTAAATTT-AAATAAA
278291 TTTAAA
1 TTTAAA
278297 CCTAAAACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
16 24 0.40
17 34 0.57
18 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:278255 original size:17 final size:17
Alignment explanation
Indices: 278218--278313 Score: 122
Period size: 17 Copynumber: 5.7 Consensus size: 17
278208 TTTAGATTTG
278218 AATAAATTTAAATTT-A
1 AATAAATTTAAATTTAA
*
278234 AATAATTTTAAATTTAA
1 AATAAATTTAAATTTAA
*
278251 AATAAATTTAAACTTAA
1 AATAAATTTAAATTTAA
* *
278268 AATTAATTTAACTTTAA
1 AATAAATTTAAATTTAA
**
278285 AATAAATTTAAACCTAA
1 AATAAATTTAAATTTAA
*
278302 AACAAATTTAAA
1 AATAAATTTAAA
278314 AATAAGTTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
16 14 0.21
17 54 0.79
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:278258 original size:11 final size:11
Alignment explanation
Indices: 278242--278296 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
278232 TAAATAATTT
278242 TAAATTTAAAA
1 TAAATTTAAAA
*
278253 TAAATTTAAACT
1 TAAATTTAAA-A
* **
278265 TAAAATTAATT
1 TAAATTTAAAA
*
278276 TAACTTTAAAA
1 TAAATTTAAAA
278287 TAAATTTAAA
1 TAAATTTAAA
278297 CCTAAAACAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 27 0.77
12 8 0.23
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:282821 original size:3 final size:3
Alignment explanation
Indices: 282813--282845 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
282803 AACGGTACTC
282813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
282846 ATTCTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:288370 original size:215 final size:216
Alignment explanation
Indices: 287972--288414 Score: 717
Period size: 215 Copynumber: 2.1 Consensus size: 216
287962 AACCATTCAT
* *
287972 ATAACACTAGCTTGGTCAGAGCTAGGTAACGTAATAAACAACAACGGTTAACTACTCTCAGCTAA
1 ATAAGACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAACAACGGTTAACTACTCTCAGCTAA
* * * * *
288037 ATCCGTGTCTCACTTTATCTTGAGTCTGCAACACATGCAGGATCTCGTTTAGAACGTTTACGCTC
66 ATCCATGTCTCACTTTATCCTGAGTCCGCAACACATGCAGGATCTCGTTCAAAACGTTTACGCTC
* *
288102 ATAAGCTAAACAAATAAAAATATCACGTTTGAAGACTTCTATTAGATCCATCGTAACTTCTTCAA
131 ATAAGCTAAACAAATAAAAATATCACGCTTGAAGACTTCTATTAGACCCATCGTAACTTCTTCAA
288167 AATCACTTATTTACACTTCTA
196 AATCACTTATTTACACTTCTA
* * *
288188 ATAAGACT-GCTTGGCCAGAGCTAGGTAACGTAATAAACAGCAACGGTTAGCTACTCTTAGCTAA
1 ATAAGACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAACAACGGTTAACTACTCTCAGCTAA
288252 ATCCATGTCTCACTTTATCCTGAGTCCGCAACACATGCAGGATCTCGTTCAAAACGTTTACGCTC
66 ATCCATGTCTCACTTTATCCTGAGTCCGCAACACATGCAGGATCTCGTTCAAAACGTTTACGCTC
* * * * *
288317 ATCAGCTAGACAGATAAAAATATCACGCTTGAAGACTTTTGTTAGACCCATCGTAACTTCTTCAA
131 ATAAGCTAAACAAATAAAAATATCACGCTTGAAGACTTCTATTAGACCCATCGTAACTTCTTCAA
288382 AATCACTTATTTACACTTCTA
196 AATCACTTATTTACACTTCTA
*
288403 ATAAGATTAGCT
1 ATAAGACTAGCT
288415 ACTTTCAAAT
Statistics
Matches: 208, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 198 0.95
216 10 0.05
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (216 bp):
ATAAGACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAACAACGGTTAACTACTCTCAGCTAA
ATCCATGTCTCACTTTATCCTGAGTCCGCAACACATGCAGGATCTCGTTCAAAACGTTTACGCTC
ATAAGCTAAACAAATAAAAATATCACGCTTGAAGACTTCTATTAGACCCATCGTAACTTCTTCAA
AATCACTTATTTACACTTCTA
Found at i:294902 original size:21 final size:22
Alignment explanation
Indices: 294877--294923 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
294867 ATCAAACAAG
* *
294877 ATTTACCCAA-TTCAAAATATC
1 ATTTACACAATTTCAAAAGATC
*
294898 ATTTATACAATTTCAAAAGATC
1 ATTTACACAATTTCAAAAGATC
294920 ATTT
1 ATTT
294924 CAAAAACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTTACACAATTTCAAAAGATC
Found at i:295445 original size:50 final size:51
Alignment explanation
Indices: 295364--295459 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 51
295354 AAACATGATT
*
295364 ACAGAACGATTAAGCTCGTCAACTATTCAGAATCAAAATGA-TCGTAACAG
1 ACAGAACGATTAAGCTCGTCAACTATACAGAATCAAAATGACTCGTAACAG
* * * *
295414 ACAGCACGTTTAAGCTCGTTAGCTATACAGAATCAAAATGACTCGT
1 ACAGAACGATTAAGCTCGTCAACTATACAGAATCAAAATGACTCGT
295460 GTCAGGCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 36 0.90
51 4 0.10
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (51 bp):
ACAGAACGATTAAGCTCGTCAACTATACAGAATCAAAATGACTCGTAACAG
Found at i:298024 original size:23 final size:23
Alignment explanation
Indices: 297979--298026 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
297969 ACGCTAGCGC
* ** *
297979 GCTTACTGTTTCGCATTTTGTGT
1 GCTTACTATTTCGCACCTCGTGT
298002 GCTTACTATTTCGCACCTCGTGT
1 GCTTACTATTTCGCACCTCGTGT
298025 GC
1 GC
298027 CTATTGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (23 bp):
GCTTACTATTTCGCACCTCGTGT
Found at i:298058 original size:23 final size:24
Alignment explanation
Indices: 298032--298086 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
298022 TGTGCCTATT
*
298032 GATTTGCGCTATGTGCGCCTAC-G
1 GATTTGCACTATGTGCGCCTACTG
* *
298055 GA-TTGCACTGTGTGTGCCTACTG
1 GATTTGCACTATGTGCGCCTACTG
298078 GA-TTGCACT
1 GATTTGCACT
298087 GTGTTTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.33
Consensus pattern (24 bp):
GATTTGCACTATGTGCGCCTACTG
Found at i:298087 original size:23 final size:23
Alignment explanation
Indices: 298021--298100 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
298011 TTCGCACCTC
* * *
298021 GTGTGCCTA-TTGATTTGCGCTAT
1 GTGTGCCTACTGGA-TTGCACTGT
*
298044 GTGCGCCTAC-GGATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
298066 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
* *
298089 GTTTGCTTACTG
1 GTGTGCCTACTG
298101 TTTTTCCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 16 0.33
23 32 0.67
ACGTcount: A:0.12, C:0.21, G:0.29, T:0.38
Consensus pattern (23 bp):
GTGTGCCTACTGGATTGCACTGT
Found at i:302507 original size:13 final size:11
Alignment explanation
Indices: 302438--302623 Score: 60
Period size: 11 Copynumber: 17.6 Consensus size: 11
302428 AGAATTAATC
302438 ATATTAATATT
1 ATATTAATATT
* **
302449 AAATTAATAAA
1 ATATTAATATT
302460 ATATT-AT-TT
1 ATATTAATATT
* *
302469 AGATAAATATT
1 ATATTAATATT
302480 A-A--AATA-T
1 ATATTAATATT
302487 AT-TTAATATCT
1 ATATTAATAT-T
302498 CATATTAATATT
1 -ATATTAATATT
302510 ATATTAA-ATT
1 ATATTAATATT
* *
302520 AAATTTAGTATCT
1 ATA-TTAATAT-T
*
302533 CATATTATTATT
1 -ATATTAATATT
*
302545 AAATTAATA--
1 ATATTAATATT
* *
302554 A-AATACTATCT
1 ATATTAATAT-T
* *
302565 AGATAAATATT
1 ATATTAATATT
302576 ATATTAA-ATT
1 ATATTAATATT
*
302586 -TAAT-AT-TT
1 ATATTAATATT
302594 ATATTAATATCT
1 ATATTAATAT-T
*
302606 ATATAAATATT
1 ATATTAATATT
*
302617 AAATTAA
1 ATATTAA
302624 ATTTAATATT
Statistics
Matches: 127, Mismatches: 26, Indels: 44
0.64 0.13 0.22
Matches are distributed among these distances:
7 2 0.02
8 12 0.09
9 14 0.11
10 15 0.12
11 47 0.37
12 21 0.17
13 14 0.11
14 2 0.02
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (11 bp):
ATATTAATATT
Found at i:302526 original size:35 final size:35
Alignment explanation
Indices: 302475--302632 Score: 132
Period size: 35 Copynumber: 4.6 Consensus size: 35
302465 ATTTAGATAA
* *
302475 ATATTAAAATATATTTAATATCTCATATTAATATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* *
302510 ATATTAAATTAAATTTAGTATCTCATATTATTATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* * * * *
302545 AAATT-AA-TAAA-ATACTATCT-AGATAAATATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* *
302576 ATATTAAATTTAATATTT-ATAT-TAATATCT-ATATAA
1 ATATTAAA-TTAA-ATTTAATATCTCATAT-TAATAT-T
302612 ATATTAAATTAAATTTAATAT
1 ATATTAAATTAAATTTAATAT
302633 TAAATCATTA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
31 12 0.12
32 9 0.09
33 4 0.04
34 10 0.10
35 54 0.55
36 9 0.09
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (35 bp):
ATATTAAATTAAATTTAATATCTCATATTAATATT
Found at i:302609 original size:96 final size:97
Alignment explanation
Indices: 302436--302621 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 97
302426 TTAGAATTAA
* * *
302436 TCATATTAATATTAAATTAATAAAATATTATTTAGATAAATATTAAAATATATTTAATATCTCAT
1 TCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAATAAATTTAATATCTCAT
*
302501 ATTAATATTATATTAA-ATTAAATTTAGTATC
66 ATTAATATTATATAAATATTAAATTTAGTATC
* * * *
302532 TCATATTATTATTAAATTAATAAAATACTATCTAGATAAATATTATATTAAATTTAATAT-TTAT
1 TCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAATAAATTTAATATCTCAT
302596 ATTAATATCTATATAAATATTAAATT
66 ATTAATAT-TATATAAATATTAAATT
302622 AAATTTAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 11 0.14
96 61 0.76
97 8 0.10
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (97 bp):
TCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAAATAAATTTAATATCTCAT
ATTAATATTATATAAATATTAAATTTAGTATC
Found at i:309781 original size:16 final size:17
Alignment explanation
Indices: 309756--309792 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
309746 CTTTGTTGGG
*
309756 GTTGATTGGAT-TTTCT
1 GTTGAATGGATGTTTCT
309772 GTTGAATGGATGTTTCT
1 GTTGAATGGATGTTTCT
309789 -TTGA
1 GTTGA
309793 TTTGGTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.51
Consensus pattern (17 bp):
GTTGAATGGATGTTTCT
Found at i:315268 original size:50 final size:52
Alignment explanation
Indices: 315212--315340 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 52
315202 GTTAGTGAAC
* * * *
315212 ATAAATAAATATAAATATTTATATTAAAA-CA-AGATTTCAATAAATTTA-AT
1 ATAAATAAATATTAATATTTATATTAAAATCATAGATTTAAACAAA-TCACAT
*
315262 ATAAATAAATATTTATATTTATA-TAAAATCATTAGATTTAAACAAATCACAT
1 ATAAATAAATATTAATATTTATATTAAAATCA-TAGATTTAAACAAATCACAT
*
315314 -TAAATAAATATTCATATTTAT-TTAAAA
1 ATAAATAAATATTAATATTTATATTAAAA
315341 AAATATTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
49 5 0.07
50 23 0.34
51 27 0.40
52 13 0.19
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (52 bp):
ATAAATAAATATTAATATTTATATTAAAATCATAGATTTAAACAAATCACAT
Found at i:318406 original size:20 final size:20
Alignment explanation
Indices: 318347--318408 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
318337 TGAGATGTTA
* *
318347 TGTTATATGTGATTAC-ATGT
1 TGTTAT-TGTGATGACTATAT
*
318367 TGTTGTTGTTGA-GA-TATAT
1 TGTTATTG-TGATGACTATAT
318386 TGTTATTGTGATGACTATAT
1 TGTTATTGTGATGACTATAT
318406 TGT
1 TGT
318409 GATGTAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.09
19 15 0.44
20 16 0.47
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.52
Consensus pattern (20 bp):
TGTTATTGTGATGACTATAT
Found at i:334482 original size:12 final size:11
Alignment explanation
Indices: 334455--334481 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
334445 TTTCTAAAAG
334455 TTTTTATGAAC
1 TTTTTATGAAC
334466 TTTTTATGAAC
1 TTTTTATGAAC
334477 TTTTT
1 TTTTT
334482 TTTTTAAATA
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:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TTTTTATGAAC
Found at i:336993 original size:107 final size:107
Alignment explanation
Indices: 336782--336980 Score: 391
Period size: 107 Copynumber: 1.9 Consensus size: 107
336772 TAAACACAAC
336782 TTTTGCATACTTTTATTCTCCAATTGACTCTCCACATCTACATACACTATGCAATATTTTTTTTA
1 TTTTGCATACTTTTATTCTCCAATTGACTCTCCACATCTACATACACTATGCAATATTTTTTTTA
336847 TGAAGAAATTATTAATTATTATAAATTTAAAAAAAAAAAAAG
66 TGAAGAAATTATTAATTATTATAAATTTAAAAAAAAAAAAAG
336889 TTTTGCATACTTTTATTCTCCAATTGACTCTCCACATCTACATACACTATGCAATA-TTTTTTTA
1 TTTTGCATACTTTTATTCTCCAATTGACTCTCCACATCTACATACACTATGCAATATTTTTTTTA
336953 TGAAGAAATTATTAATTATTATAAATTT
66 TGAAGAAATTATTAATTATTATAAATTT
336981 TTTTTTAAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 36 0.39
107 56 0.61
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.43
Consensus pattern (107 bp):
TTTTGCATACTTTTATTCTCCAATTGACTCTCCACATCTACATACACTATGCAATATTTTTTTTA
TGAAGAAATTATTAATTATTATAAATTTAAAAAAAAAAAAAG
Found at i:343279 original size:27 final size:27
Alignment explanation
Indices: 343249--343308 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
343239 AAACATTTGG
343249 AAATGATTATGATTTTCTAAAAAATGA
1 AAATGATTATGATTTTCTAAAAAATGA
* *
343276 AAATTATTATGATTTTCTACAAAATGA
1 AAATGATTATGATTTTCTAAAAAATGA
343303 AAATGA
1 AAATGA
343309 AAATGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (27 bp):
AAATGATTATGATTTTCTAAAAAATGA
Found at i:343314 original size:27 final size:27
Alignment explanation
Indices: 343257--343314 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
343247 GGAAATGATT
* **
343257 ATGATTTTCTAAAAAATGAAAATTATT
1 ATGATTTTCTAAAAAATGAAAATGAAA
*
343284 ATGATTTTCTACAAAATGAAAATGAAA
1 ATGATTTTCTAAAAAATGAAAATGAAA
343311 ATGA
1 ATGA
343315 AAATGGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.34
Consensus pattern (27 bp):
ATGATTTTCTAAAAAATGAAAATGAAA
Found at i:356432 original size:36 final size:36
Alignment explanation
Indices: 356383--356451 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
356373 ATAGGACTTC
* * *
356383 GGCCTCGTTTTCATGTGCACGTTGGGGTTGATCTTT
1 GGCCTCGTCTTCATGTGCACCTCGGGGTTGATCTTT
*
356419 GGCCTTGTCTTCATGTGCACCTCGGGGTTGATC
1 GGCCTCGTCTTCATGTGCACCTCGGGGTTGATC
356452 GCTGACCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.30, T:0.38
Consensus pattern (36 bp):
GGCCTCGTCTTCATGTGCACCTCGGGGTTGATCTTT
Found at i:358457 original size:52 final size:52
Alignment explanation
Indices: 358385--358484 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
358375 ATCTAAATAA
* *
358385 CATAATAATTAACTATTTAAA-ATTAAATAATTTAATAATATTTTCTTAACAT
1 CATAATAATTAACGAATTAAACA-TAAATAATTTAATAATATTTTCTTAACAT
*
358437 CATAATTATTAACGAATTAAACATAAATAATTTAATAATATTTTCTTA
1 CATAATAATTAACGAATTAAACATAAATAATTTAATAATATTTTCTTA
358485 TCATTTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 43 0.98
53 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (52 bp):
CATAATAATTAACGAATTAAACATAAATAATTTAATAATATTTTCTTAACAT
Found at i:359987 original size:24 final size:24
Alignment explanation
Indices: 359959--360004 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
359949 AATTATCAAT
359959 TTGAGTTTTAAATATTAATGGGCA
1 TTGAGTTTTAAATATTAATGGGCA
*
359983 TTGAGTTTTAAATTTTAATGGG
1 TTGAGTTTTAAATATTAATGGG
360005 TCTAGACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (24 bp):
TTGAGTTTTAAATATTAATGGGCA
Found at i:360015 original size:24 final size:24
Alignment explanation
Indices: 359964--360018 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
359954 TCAATTTGAG
* *
359964 TTTTAAATATTAATGGGCATTGAG
1 TTTTAAATATTAATGGGCATAGAC
*
359988 TTTTAAATTTTAATGGGTC-TAGAC
1 TTTTAAATATTAATGGG-CATAGAC
360012 TTTTAAA
1 TTTTAAA
360019 AATATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (24 bp):
TTTTAAATATTAATGGGCATAGAC
Found at i:360304 original size:22 final size:22
Alignment explanation
Indices: 360265--360319 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
360255 TACTGAAATT
360265 AAAAGCAAAAACAATAAAGCA-A
1 AAAAG-AAAAACAATAAAGCAGA
* *
360287 AACAGAAAAACCATTAAAGCAGA
1 AAAAGAAAAA-CAATAAAGCAGA
360310 AAAAGAAAAA
1 AAAAGAAAAA
360320 GAAAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 10 0.36
ACGTcount: A:0.71, C:0.13, G:0.11, T:0.05
Consensus pattern (22 bp):
AAAAGAAAAACAATAAAGCAGA
Found at i:369631 original size:28 final size:28
Alignment explanation
Indices: 369590--369663 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
369580 CAAACGGGAT
* *
369590 AAAACATAATTTTTTGATTCTT-GAGGGC
1 AAAACATAATTTTTGGATGCTTCG-GGGC
369618 AAAACGATAA-TTTTGGATGCTTCGGGGC
1 AAAAC-ATAATTTTTGGATGCTTCGGGGC
*
369646 AAAATAGTAATTTTTGGA
1 AAAACA-TAATTTTTGGA
369664 CATTCAGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 1 0.03
28 26 0.67
29 12 0.31
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (28 bp):
AAAACATAATTTTTGGATGCTTCGGGGC
Found at i:369719 original size:30 final size:30
Alignment explanation
Indices: 369684--369934 Score: 96
Period size: 30 Copynumber: 8.4 Consensus size: 30
369674 AAAATGGTAG
369684 TTTTTGGAAAGTTCGGGATCAAAAATGAAA
1 TTTTTGGAAAGTTCGGGATCAAAAATGAAA
* * * *
369714 TTTTTGGATA-TCCGAGAGT--AAAATGGTAA
1 TTTTTGGAAAGTTCGGGA-TCAAAAAT-GAAA
*** * *
369743 TTTTCAAAAATTTCGTGG-TCAAACATGAAA
1 TTTTTGGAAAGTTCG-GGATCAAAAATGAAA
* * * *
369773 -TTTTAGAAAGTTCGAGAGT-GAAAATGTAA
1 TTTTTGGAAAGTTCGGGA-TCAAAAATGAAA
* * * *
369802 -TTTTGGAGAAATTTGGGGTCAAATATGAAA
1 TTTTTGGA-AAGTTCGGGATCAAAAATGAAA
*
369832 -TTTTGGAAAGCTT-GGAGA-CAAAAATGTAAT
1 TTTTTGGAAAG-TTCGG-GATCAAAAATG-AAA
*
369862 TTTTTGGAAAGTTCGAGGGTCAAAATATG--A
1 TTTTTGGAAAGTTCG-GGATCAAAA-ATGAAA
* * * * *
369892 TTTTTGAAAAATTTAGGGGTC-AAAATGTAA
1 TTTTTG-GAAAGTTCGGGATCAAAAATGAAA
369922 TTTTTGGAAAGTT
1 TTTTTGGAAAGTT
369935 TAATGGTCAA
Statistics
Matches: 162, Mismatches: 38, Indels: 43
0.67 0.16 0.18
Matches are distributed among these distances:
28 9 0.06
29 59 0.36
30 62 0.38
31 23 0.14
32 6 0.04
33 3 0.02
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (30 bp):
TTTTTGGAAAGTTCGGGATCAAAAATGAAA
Found at i:369744 original size:29 final size:29
Alignment explanation
Indices: 369646--369746 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 29
369636 GCTTCGGGGC
* * *
369646 AAAATAGTAATTTTTGGACATTC-AGGGT
1 AAAATGGTAATTTTTGGAAATTCGAGAGT
* *
369674 AAAATGGTAGTTTTTGGAAAGTTCGGGA-T
1 AAAATGGTAATTTTTGGAAA-TTCGAGAGT
* * *
369703 CAAAAAT-GAAATTTTTGGATATCCGAGAGT
1 --AAAATGGTAATTTTTGGAAATTCGAGAGT
369733 AAAATGGTAATTTT
1 AAAATGGTAATTTT
369747 CAAAAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
28 22 0.39
29 16 0.29
30 13 0.23
31 5 0.09
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAATTCGAGAGT
Found at i:369765 original size:59 final size:58
Alignment explanation
Indices: 369654--369840 Score: 175
Period size: 59 Copynumber: 3.2 Consensus size: 58
369644 GCAAAATAGT
* * * ** *
369654 AATTTTTGGACATTC-AGGGTAAAATGGTAGTTTTTGGAAAGTTCGGGATCAAAAATGA
1 AATTTTTGGAAATTCGAGAGTAAAATGGTAATTTTCAGAAATTTCGGG-TCAAAAATGA
* * * *
369712 AATTTTTGGATATCCGAGAGTAAAATGGTAATTTTCAAAAATTTCGTGGTCAAACATGA
1 AATTTTTGGAAATTCGAGAGTAAAATGGTAATTTTCAGAAATTTCG-GGTCAAAAATGA
* * * *
369771 AA-TTTTAGAAAGTTCGAGAGTGAAAAT-GTAATTTTGGAGAAATTTGGGGTCAAATATGA
1 AATTTTTGGAAA-TTCGAGAGT-AAAATGGTAATTTT-CAGAAATTTCGGGTCAAAAATGA
369830 AA-TTTTGGAAA
1 AATTTTTGGAAA
369841 GCTTGGAGAC
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
58 20 0.19
59 72 0.67
60 15 0.14
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (58 bp):
AATTTTTGGAAATTCGAGAGTAAAATGGTAATTTTCAGAAATTTCGGGTCAAAAATGA
Found at i:369803 original size:29 final size:29
Alignment explanation
Indices: 369726--369805 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
369716 TTTGGATATC
*
369726 CGAGAGTAAAATGGTAATTTTCAAAAATTT
1 CGAGAGTAAAAT-GTAATTTTCAAAAAGTT
* * *
369756 CGTG-GTCAAACATGAAATTTT-AGAAAGTT
1 CGAGAGT-AAA-ATGTAATTTTCAAAAAGTT
369785 CGAGAGTGAAAATGTAATTTT
1 CGAGAGT-AAAATGTAATTTT
369806 GGAGAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
29 20 0.50
30 18 0.45
31 2 0.05
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (29 bp):
CGAGAGTAAAATGTAATTTTCAAAAAGTT
Found at i:369841 original size:59 final size:57
Alignment explanation
Indices: 369685--370078 Score: 176
Period size: 59 Copynumber: 6.6 Consensus size: 57
369675 AAATGGTAGT
* * * * *
369685 TTTTGGAAAGTTCGGGATCAAAAATGAAATTTTTGGATA-TCCGAGAGTAAAATGGTAA
1 TTTTGGAAAATTTGGGGTCAAAAATGAAA-TTTTGGAAAGTTCGAGAGTAAAAT-GTAA
** * * *
369743 TTTTCAAAAATTTCGTGGTCAAACATGAAATTTTAGAAAGTTCGAGAGTGAAAATGTAA
1 TTTTGGAAAATTT-GGGGTCAAAAATGAAATTTTGGAAAGTTCGAGAGT-AAAATGTAA
* * **
369802 TTTTGGAGAAATTTGGGGTCAAATATGAAATTTTGGAAAGCTTGGAGACAAAAATGTAA
1 TTTTGGA-AAATTTGGGGTCAAAAATGAAATTTTGGAAAG-TTCGAGAGTAAAATGTAA
* * * * * * *
369861 TTTTTTGGAAAGTTCGAGGGTCAAAATATG-ATTTTTGAAAAATT-TAGGGGTCAAAATGTAA
1 --TTTTGGAAAATTTG-GGGTCAAAA-ATGAAATTTTGGAAAGTTCGA-GAGT-AAAATGTAA
* ** * ** *
369922 TTTTTGGAAAGTTTAATGGTC-AAAATGTAATTTTTGG-AAGTTTAAGGGTAAAAATGTAA
1 -TTTTGGAAAATTT-GGGGTCAAAAATG-AAATTTTGGAAAGTTCGAGAGT-AAAATGTAA
* * * * *
369981 TTTTTGTG-AAGTTTAGGGGT--AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATATAA
1 -TTTTG-GAAAATTT-GGGGTCAAAAATG-AAATTTTGGAAAGTTCGAGAGT-AAAATGTAA
* * * *
370040 TTTTTAGATAGTTTAGGGGTC-AAAATGTAATTTTTGGAA
1 -TTTTGGAAAATTT-GGGGTCAAAAATG-AAATTTTGGAA
370079 GTTTAGAGGT
Statistics
Matches: 275, Mismatches: 42, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
58 36 0.13
59 134 0.49
60 69 0.25
61 33 0.12
62 3 0.01
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.36
Consensus pattern (57 bp):
TTTTGGAAAATTTGGGGTCAAAAATGAAATTTTGGAAAGTTCGAGAGTAAAATGTAA
Found at i:369897 original size:61 final size:60
Alignment explanation
Indices: 369793--370078 Score: 182
Period size: 59 Copynumber: 4.8 Consensus size: 60
369783 TTCGAGAGTG
* * *
369793 AAAATGTAA-TTTTGGAGAAATTTG-GGGTC-AAATATGAAATTTTGGAAAGCTT-GGAGAC
1 AAAATGTAATTTTTGGA-AAGTTTGAGGGTCAAAATATG-ATTTTTGGAAAACTTAGGAGAC
* * * * *
369851 AAAAATGTAATTTTTTGGAAAGTTCGAGGGTCAAAATATGATTTTTGAAAAATTTAGGGGTC
1 -AAAATGTAA-TTTTTGGAAAGTTTGAGGGTCAAAATATGATTTTTGGAAAACTTAGGAGAC
* * * * **
369913 AAAATGTAATTTTTGGAAAGTTTAATGGTCAAAATGTAATTTTTGG-AAGTTTAAGG-GTA-
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATATGATTTTTGGAAAACTT-AGGAG-AC
* * ** *
369972 AAAATGTAATTTTTGTG-AAGTTT-AGGGGT-AAAATGTAATTTTTGGAAAGTTTGAGG-GTC
1 AAAATGTAATTTTTG-GAAAGTTTGA-GGGTCAAAATATGATTTTTGGAAAACTT-AGGAGAC
* * * * *
370031 AAAATATAATTTTTAGATAGTTT-AGGGGTCAAAATGTAATTTTTGGAA
1 AAAATGTAATTTTTGGAAAGTTTGA-GGGTCAAAATATGATTTTTGGAA
370079 GTTTAGAGGT
Statistics
Matches: 192, Mismatches: 22, Indels: 25
0.80 0.09 0.10
Matches are distributed among these distances:
58 18 0.09
59 73 0.38
60 58 0.30
61 32 0.17
62 11 0.06
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATATGATTTTTGGAAAACTTAGGAGAC
Found at i:369943 original size:30 final size:30
Alignment explanation
Indices: 369793--370111 Score: 298
Period size: 30 Copynumber: 10.7 Consensus size: 30
369783 TTCGAGAGTG
* *
369793 AAAATGTAA-TTTTGGAGAAATTT-GGGGTC
1 AAAATGTAATTTTTGGA-AAGTTTAAGGGTC
* * *
369822 AAATATG-AAATTTTGGAAAGCTT--GGAGAC
1 AAA-ATGTAATTTTTGGAAAGTTTAAGG-GTC
**
369851 AAAAATGTAATTTTTTGGAAAGTTCGAGGGTC
1 -AAAATGTAA-TTTTTGGAAAGTTTAAGGGTC
* * * * *
369883 AAAATATGATTTTTGAAAAATTTAGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
*
369913 AAAATGTAATTTTTGGAAAGTTTAATGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
*
369943 AAAATGTAATTTTTGG-AAGTTTAAGGGTA
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
*
369972 AAAATGTAATTTTTGTG-AAGTTTAGGGGT-
1 AAAATGTAATTTTTG-GAAAGTTTAAGGGTC
*
370001 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
* * * *
370031 AAAATATAATTTTTAGATAGTTTAGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTC
370061 AAAATGTAATTTTTGG-AAGTTT-AGAGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAG-GGTC
* * *
370090 AAAGTATAATTTTTGGACAGTT
1 AAAATGTAATTTTTGGAAAGTT
370112 CAGGGATCTT
Statistics
Matches: 240, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
28 4 0.02
29 88 0.37
30 126 0.52
31 18 0.08
32 2 0.01
33 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTAAGGGTC
Found at i:370081 original size:59 final size:57
Alignment explanation
Indices: 369878--370103 Score: 256
Period size: 59 Copynumber: 3.8 Consensus size: 57
369868 GAAAGTTCGA
* * * * * * *
369878 GGGTCAAAATATGATTTTTGAAAAATTTAGGGGTCAAAATGTAATTTTTGGAAAGTTTAA
1 GGGTCAAAATGTAATTTTTG-GAAGTTTA-GGGTCAAAATATAATTTTTAG-AAGTTTAG
* * * *
369938 TGGTCAAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTAATTTTTGTGAAGTTTAG
1 GGGTCAAAATGTAATTTTTGGAAGTTT-AGGGTCAAAATATAATTTTT-AGAAGTTTAG
369997 GGGT-AAAATGTAATTTTTGGAAAGTTTGAGGGTCAAAATATAATTTTTAGATAGTTTAG
1 GGGTCAAAATGTAATTTTTGG-AAGTTT-AGGGTCAAAATATAATTTTTAGA-AGTTTAG
*
370056 GGGTCAAAATGTAATTTTTGGAAGTTTAGAGGTCAAAGTATAATTTTT
1 GGGTCAAAATGTAATTTTTGGAAGTTTAG-GGTCAAAATATAATTTTT
370104 GGACAGTTCA
Statistics
Matches: 146, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
58 20 0.14
59 91 0.62
60 35 0.24
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (57 bp):
GGGTCAAAATGTAATTTTTGGAAGTTTAGGGTCAAAATATAATTTTTAGAAGTTTAG
Found at i:371799 original size:11 final size:10
Alignment explanation
Indices: 371763--371855 Score: 68
Period size: 11 Copynumber: 8.9 Consensus size: 10
371753 TGGACTTTTT
371763 AATTTAAATA
1 AATTTAAATA
371773 AATTTAAACTTA
1 AATTTAAA--TA
371785 AATTTATAATA
1 AATTTA-AATA
371796 AATTTAAAT-
1 AATTTAAATA
*
371805 --TTAAAATA
1 AATTTAAATA
371813 AATTTAAACCTA
1 AATTTAAA--TA
*
371825 AA-ATAAATTTA
1 AATTTAAA--TA
371836 AATTTAAAATA
1 AATTT-AAATA
371847 AATTTAAAT
1 AATTTAAAT
371856 TTTGTTGGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
7 6 0.09
10 20 0.30
11 23 0.34
12 13 0.19
13 5 0.07
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTAAATA
Found at i:371802 original size:17 final size:17
Alignment explanation
Indices: 371777--371857 Score: 126
Period size: 17 Copynumber: 4.8 Consensus size: 17
371767 TAAATAAATT
* *
371777 TAAACTTAAATTTATAA
1 TAAATTTAAATTTAAAA
371794 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
**
371811 TAAATTTAAACCTAAAA
1 TAAATTTAAATTTAAAA
371828 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
371845 TAAATTTAAATTT
1 TAAATTTAAATTT
371858 TGTTGGGCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:371803 original size:6 final size:6
Alignment explanation
Indices: 371763--371857 Score: 78
Period size: 6 Copynumber: 16.8 Consensus size: 6
371753 TGGACTTTTT
*
371763 AATTTA AA--TA AATTTA AACTTA AATTTA TAA--TA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTTA
* ** * *
371808 AA-ATA AATTTA AACCTA AA-ATA AATTTA AATTTA AA-ATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
371853 AATTT
1 AATTT
371858 TGTTGGGCCT
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
4 6 0.08
5 14 0.20
6 49 0.69
7 2 0.03
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:371857 original size:23 final size:22
Alignment explanation
Indices: 371763--371809 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
371753 TGGACTTTTT
371763 AATTTAAATAAATTTAAACTTA
1 AATTTAAATAAATTTAAACTTA
*
371785 AATTTATAATAAATTTAAATTTA
1 AATTTA-AATAAATTTAAACTTA
371808 AA
1 AA
371810 ATAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTAAATAAATTTAAACTTA
Found at i:372564 original size:209 final size:209
Alignment explanation
Indices: 372135--372803 Score: 959
Period size: 209 Copynumber: 3.2 Consensus size: 209
372125 TGGTTTGATG
* * * * ** *
372135 TCATTGATTTGGTCCACTTCTCAATGTCTTATCAGGAAGATGACCGCATCACTTGTTTTGATTCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCA
* * * * * *
372200 CTTCTCTGTGTCTCATCAAGAAGACGAATCTGGT-TCACTTCTCTGTATCTCATCAGGAAGGTAA
66 CTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCT-ACTTCTCAGTATCTCATCAGGAAGCTAA
* * * * *
372264 CCA-CTTATTGCTTCGACCTGTTTCTCAGTATCTCATCAAGAAGCTGAGGTTCGAAGATTTGCTC
130 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCAGGGGTTCGAAGATTTGCTC
372328 ACTTTGAGCCTGGCT
195 ACTTTGAGCCTGGCT
* * *
372343 TCATTGATTTGGTCTACTTCTCAGTATCTCATTAGGAAGATGACCACATCACTTGTTTCAATCCG
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCA
* *
372408 CTTTTCTGTATCTCATCAGGAAGATGAATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTAAC
66 CTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAAC
* *
372473 CATTTTATTGCTTCGACCTGCTTATCAGTATCTCATCAGGAAGCAGGGGTTCGAAGATTTCCTCA
131 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCAGGGGTTCGAAGATTTGCTCA
* *
372538 CTTTGAACCTGACT
196 CTTTGAGCCTGGCT
372552 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCA
* * *
372617 CTTCTT-TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATTAGGACGCTAA
66 CTT-TTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAA
* * *
372681 TCATTTTATTGCTTCGACCTGCTGCTTAGTATCTCATCAGGAAGCTA-GGGTTCGAAGATTTGCT
130 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGC-AGGGGTTCGAAGATTTGCT
*
372745 CACTTTGAGCTTGGCT
194 CACTTTGAGCCTGGCT
* *
372761 TCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA
1 TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGA
372804 TCAGCTCACT
Statistics
Matches: 412, Mismatches: 45, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
208 112 0.27
209 297 0.72
210 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (209 bp):
TCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCA
CTTTTCTGTATCTCATCAGGAAGACGAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGCTAAC
CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCAGGGGTTCGAAGATTTGCTCA
CTTTGAGCCTGGCT
Found at i:382997 original size:29 final size:29
Alignment explanation
Indices: 382964--383031 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
382954 AGATAAAACG
*
382964 TAATTTTTGGATTCTCGAGGGCAAAACAA
1 TAATTTTTGGATGCTCGAGGGCAAAACAA
* * *
382993 TAA-TTTTGGATGCTTGGGGGCAAAATAA
1 TAATTTTTGGATGCTCGAGGGCAAAACAA
383021 TAATTTTTGGA
1 TAATTTTTGGA
383032 GGTTCGGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (29 bp):
TAATTTTTGGATGCTCGAGGGCAAAACAA
Found at i:383040 original size:29 final size:29
Alignment explanation
Indices: 382964--383040 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
382954 AGATAAAACG
* *
382964 TAATTTTTGGA-TTCTCGAGGGCAAAACAA
1 TAATTTTTGGAGCT-TCGGGGGCAAAACAA
*
382993 TAA-TTTTGGATGCTT-GGGGGCAAAATAA
1 TAATTTTTGGA-GCTTCGGGGGCAAAACAA
*
383021 TAATTTTTGGAGGTTCGGGG
1 TAATTTTTGGAGCTTCGGGG
383041 TTGAAAATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 24 0.60
29 15 0.38
30 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAATTTTTGGAGCTTCGGGGGCAAAACAA
Found at i:383075 original size:57 final size:58
Alignment explanation
Indices: 383014--383122 Score: 130
Period size: 58 Copynumber: 1.9 Consensus size: 58
383004 GCTTGGGGGC
* * * ** *
383014 AAAATAATAATTTTTGG-AGGTTCGGGGTTGAAAATGGAATTTTTGGACATTCAAGGT
1 AAAATAATAATTTTTGGAAAGTTCGAGATCAAAAATGAAATTTTTGGACATTCAAGGT
** *
383071 AAAATGGTAGTTTTTGGAAAGTTCGAGATCAAAAATGAAATTTTTGGACATT
1 AAAATAATAATTTTTGGAAAGTTCGAGATCAAAAATGAAATTTTTGGACATT
383123 TGAGGGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 14 0.33
58 28 0.67
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (58 bp):
AAAATAATAATTTTTGGAAAGTTCGAGATCAAAAATGAAATTTTTGGACATTCAAGGT
Found at i:383141 original size:29 final size:29
Alignment explanation
Indices: 383044--383144 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 29
383034 TTCGGGGTTG
* * *
383044 AAAATGG-AATTTTTGGACA-TTCAAGGT
1 AAAATGGTAATTTTTGGACATTTGAGGGA
* * * **
383071 AAAATGGTAGTTTTTGGAAAGTTCGAGATCA
1 AAAATGGTAATTTTTGGACA-TTTGAG-GGA
*
383102 AAAAT-GAAATTTTTGGACATTTGAGGGA
1 AAAATGGTAATTTTTGGACATTTGAGGGA
383130 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
383145 AAAAATTTCA
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
27 7 0.13
28 16 0.30
29 13 0.24
30 13 0.24
31 5 0.09
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGACATTTGAGGGA
Done.