Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_pilon, 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: 2056749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 10
Found at i:264057 original size:42 final size:40
Alignment explanation
Indices: 264011--264146 Score: 140
Period size: 40 Copynumber: 3.4 Consensus size: 40
264001 TTTTCAAAAC
*
264011 TATATGTTTTCCAAAAA-ACCATTTTTAAAAA-CAACTATATAT
1 TATATGTTTT-CAAAAATA--ATTTTCAAAAATCAA-TATATAT
* *
264053 TATATGCTTTCAAAAATAATTTTCAAAAATCTATATATAT
1 TATATGTTTTCAAAAATAATTTTCAAAAATCAATATATAT
*
264093 TATATGCTTTTCAAAAAT-ATTTTCAAAAA-C--TATATAG
1 TATATG-TTTTCAAAAATAATTTTCAAAAATCAATATATAT
*
264130 TATATGTTTTTAAAAAT
1 TATATGTTTTCAAAAAT
264147 GCTTTTAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
36 10 0.12
37 12 0.14
39 1 0.01
40 34 0.40
41 18 0.21
42 10 0.12
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (40 bp):
TATATGTTTTCAAAAATAATTTTCAAAAATCAATATATAT
Found at i:264187 original size:48 final size:49
Alignment explanation
Indices: 264096--264206 Score: 147
Period size: 46 Copynumber: 2.3 Consensus size: 49
264086 TATATATTAT
*
264096 ATGCTTTTCAAAAATATTTTCAAAAACTATATAGTATATGTTTTTAAAA
1 ATGCTTTTCAAAAATATTTTCAAAAACTATATAGTATATGTTTTCAAAA
*
264145 ATGCTTTT-AAAAA-ATTTT-AAAAACTATATATTATATACGTTTTCAAAA
1 ATGCTTTTCAAAAATATTTTCAAAAACTATATAGTATAT--GTTTTCAAAA
*
264193 ATGTGTTTTCAAAA
1 ATG-CTTTTCAAAA
264207 CTATATATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
46 17 0.31
47 5 0.09
48 17 0.31
49 12 0.22
50 4 0.07
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.42
Consensus pattern (49 bp):
ATGCTTTTCAAAAATATTTTCAAAAACTATATAGTATATGTTTTCAAAA
Found at i:264232 original size:24 final size:24
Alignment explanation
Indices: 264196--264254 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
264186 TTCAAAAATG
264196 TGTTTT-CAAAACTATATATTATA
1 TGTTTTCCAAAACTATATATTATA
264219 TGTTTTCCAAAACTATATATTATA
1 TGTTTTCCAAAACTATATATTATA
264243 TGTTTTCCAAAA
1 TGTTTTCCAAAA
264255 TCCATTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (24 bp):
TGTTTTCCAAAACTATATATTATA
Found at i:264398 original size:40 final size:39
Alignment explanation
Indices: 264219--264437 Score: 154
Period size: 39 Copynumber: 5.6 Consensus size: 39
264209 ATATATTATA
* *
264219 TGTTTTCCAAAAC--TATATATTATATGTTTTCCAAAATCC
1 TGTTTTCAAAAACTATATATATTATATGTTTT-CAAAA-AC
* * * *
264258 AT-TTTTAAAAGAAC--TATATATTATACGTTTTAAAAAATG
1 -TGTTTTCAAA-AACTATATATATTATATGTTTTCAAAAA-C
* *
264297 TGTTTTCAAAATCT-TAT-TA-TATATATTTTCAAAAAC
1 TGTTTTCAAAAACTATATATATTATATGTTTTCAAAAAC
** *
264333 TGATTTTTTTAAAA--ATATATATTATATGCTTTCAAAAAC
1 TG--TTTTCAAAAACTATATATATTATATGTTTTCAAAAAC
264372 TGTTTTCTAAAAACTATATATATTATATGTTTTTCAAAAA-
1 TGTTTTC-AAAAACTATATATATTATATG-TTTTCAAAAAC
**
264412 TACTTTCAAAAACTATACTATATTAT
1 TGTTTTCAAAAACTATA-TATATTAT
264438 TATATACTAA
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
36 2 0.01
37 20 0.14
38 18 0.13
39 47 0.33
40 47 0.33
41 9 0.06
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (39 bp):
TGTTTTCAAAAACTATATATATTATATGTTTTCAAAAAC
Found at i:270726 original size:20 final size:21
Alignment explanation
Indices: 270689--270727 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
270679 GTTACTTTTA
270689 AATTGAAAAAAAATAATACTT
1 AATTGAAAAAAAATAATACTT
270710 AATT-AAAAATAAA-AATAC
1 AATTGAAAAA-AAATAATAC
270728 ATGATACGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (21 bp):
AATTGAAAAAAAATAATACTT
Found at i:271505 original size:147 final size:146
Alignment explanation
Indices: 271270--271552 Score: 451
Period size: 147 Copynumber: 1.9 Consensus size: 146
271260 TAAATATTAT
*
271270 GTTAATTCATGTTTAGATGAACTTTAAGTCGTATCATCTTGGGTGAATTATTTTTCACCTTTCAA
1 GTTAATTCATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCAA
*
271335 GAACATCTAATTGTAATTCGTAATTATATAAGGTTTGGAGTAAATTACAAAAAGAAGAAGAAGAA
66 GAACATCTAATTGTAATTCGTAATTATATAAGGTTTGGAGTAAATTACAAAAAAAAGAA-AAGAA
271400 ATAATTATGATATTAGG
130 ATAATTATGATATTAGG
* * *
271417 GTTAATTCAAT-TTTGGATGAACTTTAGGTCGGATCATTTTGGGTGAATTATTTTTCACCTTTCA
1 GTTAATTC-ATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCA
* * * * *
271481 CGAACATCTAATTGTAATTTGTAATTGTATAGGGTTTGGAGTAAATTATAAAAAAAAGAAAAGAA
65 AGAACATCTAATTGTAATTCGTAATTATATAAGGTTTGGAGTAAATTACAAAAAAAAGAAAAGAA
271546 ATAATTA
130 ATAATTA
271553 GGAGCTTGTA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
146 12 0.10
147 111 0.89
148 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (146 bp):
GTTAATTCATGTTTAGATGAACTTTAAGTCGGATCATCTTGGGTGAATTATTTTTCACCTTTCAA
GAACATCTAATTGTAATTCGTAATTATATAAGGTTTGGAGTAAATTACAAAAAAAAGAAAAGAAA
TAATTATGATATTAGG
Found at i:272492 original size:13 final size:14
Alignment explanation
Indices: 272474--272534 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
272464 AATATTAAGT
272474 AATATA-ATTTTAA
1 AATATATATTTTAA
272487 AATATATATTTT--
1 AATATATATTTTAA
*
272499 -ATATAT-TTTGAA
1 AATATATATTTTAA
**
272511 AATATATAATTTTTG
1 AATATAT-ATTTTAA
272526 AATATATAT
1 AATATATAT
272535 ATATATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
10 3 0.08
11 6 0.16
13 12 0.32
14 7 0.18
15 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AATATATATTTTAA
Found at i:272512 original size:24 final size:25
Alignment explanation
Indices: 272475--272523 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
272465 ATATTAAGTA
272475 ATATAATTTTAAAATATAT-ATTTT
1 ATATAATTTTAAAATATATAATTTT
272499 ATAT-ATTTTGAAAATATATAATTTT
1 ATATAATTTT-AAAATATATAATTTT
272524 TGAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATAATTTTAAAATATATAATTTT
Found at i:272518 original size:15 final size:15
Alignment explanation
Indices: 272498--272536 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
272488 ATATATATTT
272498 TATATATTTTGAAAA
1 TATATATTTTGAAAA
*
272513 TATATAATTTTTGAATA
1 TATAT-A-TTTTGAAAA
272530 TATATAT
1 TATATAT
272537 ATATAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATATTTTGAAAA
Found at i:272532 original size:2 final size:2
Alignment explanation
Indices: 272527--272631 Score: 91
Period size: 2 Copynumber: 55.5 Consensus size: 2
272517 TAATTTTTGA
*
272527 AT AT AT AT AT AT AT A- AT AT AT -T AT AT AGT AT AT AT GT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
272567 AGT AT -T TT A- AT AT AT AT AT A- AT TT TT AG A- AT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
272606 AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
272632 GTAGGTATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
1 8 0.09
2 76 0.86
3 4 0.05
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279726 original size:100 final size:102
Alignment explanation
Indices: 279454--279858 Score: 595
Period size: 102 Copynumber: 4.0 Consensus size: 102
279444 TCACGAGATG
* * *
279454 ACTCTA-CTTGACTAACTCATGGGTGGAAGGTATGCTCACTTTCACTTAGAGTGTGGGATGGTAG
1 ACTCTACCTT-ACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAG
* *
279518 TGTGATGAGCTGACTCCCTTTAAAGTATTCTTAAAAAA
65 TGTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* * *
279556 ACTCTATCTTACTAGTTCAGGGGTGGAAGGTATGCTCCCTTTCACATAGAGTGTGGGATGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
*
279621 GTGATGAGCTAACTCCCCTTAAAGTATGCTT-AAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* *
279657 ACTCTACCTTACTAGCTC-GGGGTGGAATGTATGCTCCCTTTCACTTAGAGTATGGGATGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
* *
279721 ATGATGAGTTGACTCCCCTTAAAGTATGCTTAAAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
* *
279758 ACTTTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
* * * *
279823 GTGATAAGCTGACCCCCCTT-GAGTATG-ATAAAAAA
66 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
279858 A
1 A
279859 GGTTGAAGTT
Statistics
Matches: 274, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
100 79 0.29
101 49 0.18
102 143 0.52
103 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (102 bp):
ACTCTACCTTACTAGCTCAGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAAAAA
Found at i:279820 original size:202 final size:202
Alignment explanation
Indices: 279474--279842 Score: 603
Period size: 202 Copynumber: 1.8 Consensus size: 202
279464 ACTAACTCAT
* * *
279474 GGGTGGAAGGTATGCTCACTTTCACTTAGAGTGTGGGATGGTAGTGTGATGAGCTGACTCCCTTT
1 GGGTGGAAGGTATGCTCACTTTCACTTAGAGTATGGGATGGTAGTATGATGAGCTGACTCCCCTT
* * * *
279539 AAAGTATTCTTAAAAAAACTCTATCTTACTAGTTCAGGGGTGGAAGGTATGCTCCCTTTCACATA
66 AAAGTATGCTTAAAAAAACTCTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACATA
* *
279604 GAGTGTGGGATGGTAGTGTGATGAGCTAACTCCCCTTAAAGTATGCTTAAAAAACTCTACCTTAC
131 GAGTGTGGGATGGTAGTGTGATAAGCTAACCCCCCTTAAAGTATGCTTAAAAAACTCTACCTTAC
279669 TAGCTCG
196 TAGCTCG
* * *
279676 GGGTGGAATGTATGCTCCCTTTCACTTAGAGTATGGGATGGTAGTATGATGAGTTGACTCCCCTT
1 GGGTGGAAGGTATGCTCACTTTCACTTAGAGTATGGGATGGTAGTATGATGAGCTGACTCCCCTT
* *
279741 AAAGTATGCTTAAAAAAACTTTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACTTA
66 AAAGTATGCTTAAAAAAACTCTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACATA
*
279806 GAGTGTGGGATGGTAGTGTGATAAGCTGACCCCCCTT
131 GAGTGTGGGATGGTAGTGTGATAAGCTAACCCCCCTT
279843 GAGTATGATA
Statistics
Matches: 152, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
202 152 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (202 bp):
GGGTGGAAGGTATGCTCACTTTCACTTAGAGTATGGGATGGTAGTATGATGAGCTGACTCCCCTT
AAAGTATGCTTAAAAAAACTCTACCTTACTAGCTCAGGGGTGAAAGGTATGCTCCCTTTCACATA
GAGTGTGGGATGGTAGTGTGATAAGCTAACCCCCCTTAAAGTATGCTTAAAAAACTCTACCTTAC
TAGCTCG
Found at i:281055 original size:15 final size:16
Alignment explanation
Indices: 281024--281056 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
281014 TAATGAATGA
*
281024 TTAAGTATGTTTTTTG
1 TTAAGTATGTATTTTG
281040 TTAAGTAT-TATTTTG
1 TTAAGTATGTATTTTG
281055 TT
1 TT
281057 CAATGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (16 bp):
TTAAGTATGTATTTTG
Found at i:288716 original size:653 final size:654
Alignment explanation
Indices: 286820--290082 Score: 5982
Period size: 654 Copynumber: 5.0 Consensus size: 654
286810 AAAATTACAT
*
286820 GCAATGTGAACCGTACATGTGTATTTT----TGGTTTTCTTTAAACATTGGTGAGATTAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
*
286881 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAA
66 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
286946 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
131 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
287011 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
196 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
* *
287076 GGTGACAATTCCTTTGTAAGAGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
261 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
*
287141 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTGTG
326 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
287206 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
391 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
* *
287271 ATTCGTAATTAGTAATTAATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
456 ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
287336 ACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
521 ACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
*
287401 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATATCTGCTTA
586 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTTA
287466 ATTA
651 ATTA
287470 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
*
287535 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTATGAAGAAAATAACTTTAAAATAA
66 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
*
287600 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAACAATAAAAATAGAAACTCC
131 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
287665 CACTAAATCGAATGTGCTTAACTGATATTACACT-ACCATGAGTAGTGTGCTCATGAAAGACCTT
196 CACTAAATCGAATGTGCTTAACTGATATTACACTGA-CATGAGTAGTGTGCTCATGAAAGACCTT
287729 GGGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAA
260 GGGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAA
*
287794 CCACTTTGAATTTTCTTTAACAACTAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCT
325 CCACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCT
* * *
287859 GTTGTATATGGAATAAAGGACTACAACTTATCTTCAACAAAATAACTCAAGTGGTCTTTTTTATC
390 GTTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATC
*
287924 AATCCATAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATA
455 AATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATA
287989 AACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAAT
520 AACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAAT
*
288054 GTATTGTATGAATCAATTTAACTTCTATCGAATGATTCATACCTAAATTGATTAAATACCTGCTT
585 GTATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTT
288119 AATTA
650 AATTA
*
288124 GCAATGTGAACCGTACATGTGTATTTTTAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
288189 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
66 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
288254 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
131 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
* *
288319 CACT-AATCGAATATGCTTAACTGATATTACATTGACATGAGTAGTGTGCTCATGAAAGACCTTG
196 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
*
288383 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTTCCAATATGCTCTATAAACACATAAC
261 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
*
288448 CACTTTGAATTCTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
326 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
*
288513 TTGTATATGAAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
391 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
288578 ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
456 ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
*
288643 ACCTAATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
521 ACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
*
288708 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCCGCTTA
586 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTTA
288773 ATTA
651 ATTA
* * *
288777 GCAATGTGAACCATACATGTTTATTTTCAACTAGTTTTCTTTAAACATTGGTGAGATCAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
288842 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
66 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
288907 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
131 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
* *
288972 CACTAAATCGAATATGCTTAACTGATATTACATTGACATGAGTAGTGTGCTCATGAAAGACCTTG
196 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
*
289037 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTTCCAATATGCTCTATAAACACATAAC
261 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
*
289102 CACTTTGAATTCTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
326 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
*
289167 TTGTATATGAAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
391 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
289232 ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
456 ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
*
289297 ACCTAATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
521 ACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
*
289362 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCCGCTTA
586 TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTTA
289427 ATTA
651 ATTA
* * *
289431 GCAATGTGAACCATACATGTTTATTTTCAACTAGTTTTCTTTAAACATTGGTGAGATCAAATTTT
1 GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
*
289496 ACCAAAACCAGAGCGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
66 ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
289561 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
131 ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
**
289626 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTATTCATGAAAGACCTTG
196 CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
* * *
289691 TGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACTAATATGCTCTATAAACACATAAT
261 GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
* *
289756 CACTTTGAATTTTCTTTAACAACCAGAAATATAATCTCTATGTGTTTAGACTTAAGATGTTTCTG
326 CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
* *
289821 TTGTATATGGAATAAAGGACTACAACTTAGCTGCTACAAAATAACTCAAGTGCTCTTTTTTATCA
391 TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
* * *
289886 ATCTGTAATTAGCAATTCATGTGA-AAATTTTTTGCATCAATATTTCAATAAATCATAGTCTATA
456 ATCCGTAATTAGTAATTCATGTGATAAA-ATTTTGCATCAATATTTCAATAAATCATAGTCTATA
* *
289950 AACCTGATGATCTCTTACTTACTAAACCTCCGATATGTAAGCATATATCATTTTTATTCTTAAAT
520 AACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAAT
*
290015 GTATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCCAAATTGATTAAATACCTGCTT
585 GTATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTT
290080 AAT
650 AAT
290083 ATCCTAAAAT
Statistics
Matches: 2548, Mismatches: 57, Indels: 12
0.97 0.02 0.00
Matches are distributed among these distances:
650 27 0.01
653 638 0.25
654 1883 0.74
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (654 bp):
GCAATGTGAACCGTACATGTGTATTTTCAACTGGTTTTCTTTAAACATTGGTGAGATCAAATTTT
ACCAAAACCAGAGTGTGGATAAACCAAAATAGACTTTATTTCTGAAGAAAATAACTTTAAAATAA
ATATCCTTAAACTGAAGTAACCAAAATTGTGTTTATAATAAATGAGCAATAAAAATAGAAACTCC
CACTAAATCGAATGTGCTTAACTGATATTACACTGACATGAGTAGTGTGCTCATGAAAGACCTTG
GGTGACAGTTCCTTTGTAAGTGTGGAATTATGAGTTTGTACCAATATGCTCTATAAACACATAAC
CACTTTGAATTTTCTTTAACAACCAGAAATATAATGTCTATGTGTTTAGACTTAAGATATTTCTG
TTGTATATGGAATAAAGGACTACAACTTAGCTGCCACAAAATAACTCAAGTGGTCTTTTTTATCA
ATCCGTAATTAGTAATTCATGTGATAAAATTTTGCATCAATATTTCAATAAATCATAGTCTATAA
ACCTGATGATCTCTTACTTACTAAACCTCTGATATGTAAGCATATAACATTTTTATTCTTAAATG
TATTGTATGAATCAATTTAACTTCTATCCAATGATTCATACCTAAATTGATTAAATACCTGCTTA
ATTA
Found at i:298503 original size:43 final size:43
Alignment explanation
Indices: 298456--298660 Score: 272
Period size: 43 Copynumber: 4.8 Consensus size: 43
298446 TTAATTACCG
*
298456 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
298499 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
298542 TTACAGTTCTCCTAGGTTCCTTTGCTGTGTGGAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
298585 TTACAGTT--TCCAAGTTCTTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
298626 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
298661 TATAAGACCT
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
41 36 0.25
43 109 0.75
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:298578 original size:86 final size:84
Alignment explanation
Indices: 298456--298660 Score: 268
Period size: 84 Copynumber: 2.4 Consensus size: 84
298446 TTAATTACCG
* *
298456 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTT--CCCAAGTCCCTT
298521 TGCTGTGTGCAAGGGTAAGCC
64 TGCTGTGTGCAAGGGTAAGCC
* * * * * * *
298542 TTACAGTTCTCCTAGGTTCCTTTGCTGTGTGGAAGGGTAAGCCTTACAGTTTCCAAGTTCTTTTG
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCAAGTCCCTTTG
298607 CTGTGTGCAAGGGTAAGCC
66 CTGTGTGCAAGGGTAAGCC
* * *
298626 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
298661 TATAAGACCT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 56 0.55
86 46 0.45
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (84 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCAAGTCCCTTTG
CTGTGTGCAAGGGTAAGCC
Found at i:303457 original size:43 final size:43
Alignment explanation
Indices: 303407--303673 Score: 396
Period size: 43 Copynumber: 6.3 Consensus size: 43
303397 TTAATTACCG
303407 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
303450 TTACAGTTTCCCCAGGTCCATTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
303493 TTACAGTTCCCCCA-GTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
303535 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGGC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * **
303578 TTACAGTTTCCCCAGTTTCCTTTATTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
303621 TTACAGTT-TCCCAGGTTCTTTTGCTGTGTGCAA-GGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
303662 TTACAGTTCCCC
1 TTACAGTTCCCC
303674 AGGCTCTTTT
Statistics
Matches: 201, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
41 16 0.08
42 61 0.30
43 124 0.62
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:303525 original size:85 final size:85
Alignment explanation
Indices: 303407--303682 Score: 405
Period size: 85 Copynumber: 3.3 Consensus size: 85
303397 TTAATTACCG
*
303407 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
1 TTACAGTTCCCCCA-GTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
*
303472 TGTTGTGTGCAAGGGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCC
* *
303493 TTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGGTCCCTTT
1 TTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATTT
*
303558 GCTGTGTGCAAGGGTAAGGC
66 GCTGTGTGCAAGGGTAAGCC
* * ** * *
303578 TTACAGTTTCCCCAGTTTCCTTTATTGTGTGCAAGGGTAAGCCTTACAGTTT-CCCAGGTTCTTT
1 TTACAGTTCCCCCAGTCT-CTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
303642 TGCTGTGTGCAA-GGTAAGCC
65 TGCTGTGTGCAAGGGTAAGCC
*
303662 TTACAGTT-CCCCAGGCTCTTT
1 TTACAGTTCCCCCAGTCTCTTT
303683 TTCTATGTGC
Statistics
Matches: 174, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
82 4 0.02
83 7 0.04
84 15 0.09
85 104 0.60
86 44 0.25
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (85 bp):
TTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATTT
GCTGTGTGCAAGGGTAAGCC
Found at i:303644 original size:128 final size:127
Alignment explanation
Indices: 303407--303673 Score: 441
Period size: 128 Copynumber: 2.1 Consensus size: 127
303397 TTAATTACCG
303407 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
*
303472 TGTTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAAGGGTAAGCC
66 TATTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAA-GGTAAGCC
* *
303535 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGGCTTACAGTTTCCCCAGTTTCC-T
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAG-GTCCAT
*
303599 TTATTGTGTGCAAGGGTAAGCCTTACAGTT-TCCCAGGT-TCTTTTGCTGTGTGCAAGGTAAGCC
65 TTATTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCA-GTCTC-TTTGCTGTGTGCAAGGTAAGCC
303662 TTACAGTTCCCC
1 TTACAGTTCCCC
303674 AGGCTCTTTT
Statistics
Matches: 132, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
127 26 0.20
128 103 0.78
129 3 0.02
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (127 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCATT
TATTGTGTGCAAGGGTAAGCCTTACAGTTCCCCCAGTCTCTTTGCTGTGTGCAAGGTAAGCC
Found at i:304558 original size:19 final size:20
Alignment explanation
Indices: 304536--304573 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
304526 TTGGTAACAC
304536 AATGAATTTTTT-ATTTTTA
1 AATGAATTTTTTAATTTTTA
*
304555 AATGAGTTTTTTAATTTTT
1 AATGAATTTTTTAATTTTT
304574 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (20 bp):
AATGAATTTTTTAATTTTTA
Found at i:308338 original size:21 final size:21
Alignment explanation
Indices: 308313--308354 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
308303 AGTTTATTTT
308313 TAAACTTTATTTCAATTATTG
1 TAAACTTTATTTCAATTATTG
*
308334 TAAACTTTGTTTCAATTATTG
1 TAAACTTTATTTCAATTATTG
308355 AACTTGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATTG
Found at i:308399 original size:33 final size:33
Alignment explanation
Indices: 308349--308448 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
308339 TTTGTTTCAA
* * *
308349 TTATTGAACTTGTAAGTTTTTATGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
*
308382 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
* *
308415 TTATCGAACTTGAAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
308448 T
1 T
308449 CTCGTAAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (33 bp):
TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
Found at i:309064 original size:19 final size:20
Alignment explanation
Indices: 309025--309064 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
309015 TACTAATAGG
309025 AATAAAAGATTATCAATGGA
1 AATAAAAGATTATCAATGGA
309045 AATAAAAGATTATCAA-GGA
1 AATAAAAGATTATCAATGGA
309064 A
1 A
309065 TAGGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (20 bp):
AATAAAAGATTATCAATGGA
Found at i:309290 original size:37 final size:37
Alignment explanation
Indices: 309217--309291 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
309207 GTTGAAAAAT
* *
309217 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
309254 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
309291 A
1 A
309292 ATGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:310957 original size:137 final size:137
Alignment explanation
Indices: 310799--311085 Score: 332
Period size: 136 Copynumber: 2.1 Consensus size: 137
310789 TCGATAGTTC
* * * *
310799 ATAATTGATTAAAATTAATTAGGATTAAGATTAGAGAGCCT-CATCTTATGCCTAATTTCATATT
1 ATAATTGATTAAAACTAATTAGAATT-A-ATTAGAGAGCCTCCATCTTAGGCCTAATTTCACATT
* * * * **
310863 TAATGCTT-AATTA-TATGAGTTCTTAATTTGGTCTTTGCTTTTGCTCGAGATTCCAATTTAATT
64 TAATCCTTAAATTAGGA-GAATTCTTAATTTGATC-TCACTTTTGCTCGAGATTCCAATTTAATT
310926 ATTTGAAT-CA
127 ATTTGAATGCA
* * ** *
310936 ATAATTGATTAAAGCTGATTAGAATTAATTTTAGAGCCTCCATCTTAGGCCTAATTTCACCTTTA
1 ATAATTGATTAAAACTAATTAGAATTAATTAGAGAGCCTCCATCTTAGGCCTAATTTCACATTTA
* *
311001 GTCCTTAAATTAGGAGAATTCTTAATTTGATCTCACTTTTGCTCGAGATTCCACTTTAATTATTT
66 ATCCTTAAATTAGGAGAATTCTTAATTTGATCTCACTTTTGCTCGAGATTCCAATTTAATTATTT
*
311066 GATTGCA
131 GAATGCA
*
311073 AT-ATTAATTAAAA
1 ATAATTGATTAAAA
311086 ATATTTAAGT
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
135 10 0.08
136 69 0.55
137 46 0.37
138 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.42
Consensus pattern (137 bp):
ATAATTGATTAAAACTAATTAGAATTAATTAGAGAGCCTCCATCTTAGGCCTAATTTCACATTTA
ATCCTTAAATTAGGAGAATTCTTAATTTGATCTCACTTTTGCTCGAGATTCCAATTTAATTATTT
GAATGCA
Found at i:321719 original size:111 final size:111
Alignment explanation
Indices: 321503--321726 Score: 398
Period size: 111 Copynumber: 2.0 Consensus size: 111
321493 ATTAAAAAGA
*
321503 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATTAGAAAATGATTTGGAATATTGTTT
1 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
321568 TGAACTAATTATATAGAAAGATGAATAATAGGGCATTTTGGTCATT
66 TGAACTAATTATATAGAAAGATGAATAATAGGGCATTTTGGTCATT
321614 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
1 TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
*
321679 TGAACTAAATTGTATAGAAAGATGAATAA-AGAGGCA-TTTGGTCATT
66 TGAACT-AATTATATAGAAAGATGAATAATAG-GGCATTTTGGTCATT
321725 TT
1 TT
321727 AGGGGAAAAT
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
111 84 0.77
112 25 0.23
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (111 bp):
TTTCAAATTTGGGGATTGATTCGAATAAATACTAAAAGATGAGAAAATGATTTGGAATATTGTTT
TGAACTAATTATATAGAAAGATGAATAATAGGGCATTTTGGTCATT
Found at i:322814 original size:54 final size:54
Alignment explanation
Indices: 322754--323054 Score: 415
Period size: 54 Copynumber: 5.6 Consensus size: 54
322744 TTACCAAATA
* * *
322754 GCACTAAGTGTTCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
* *
322808 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTTG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
* * * * * *
322862 GCACTAAGTGTTCATTTCACAGAATTTATACTACATGGATGAATAATTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
* * *
322916 ACACTAAGTGTGCATTTCACGGAATTCATCATACGTGGATGAATAA-TCATTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACT-GTTTCG
322970 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
* * * *
323024 GCACTATGTATGCAAATCCACGGAATTCATC
1 GCACTAAGTGTGC-ATTTCACGGAATTCATC
323055 ATGAGTTGAT
Statistics
Matches: 218, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 201 0.92
55 16 0.07
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTCG
Found at i:323514 original size:46 final size:46
Alignment explanation
Indices: 323407--323670 Score: 304
Period size: 46 Copynumber: 5.8 Consensus size: 46
323397 TGTATAACGT
323407 TGTATA-AAGGGCATGAAAGGATGCCATAAATGAAA--TATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * * *
323450 TGTATAGAAGGGCGTGAAAGGGTGCCATAAGTGAAATGTATAATTG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
*
323496 TGTATAGAAGGGCATGAAAGGATGACATAAATGAAATGTATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
** **
323542 CATATAGAAGGGCAT-AAAGGATGCCATAAATGAAACCTATAATAG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * * * ** * *
323587 CGTATAAAAGGGCATGAAAGAATGCCATAAATTAAACATGTAATCG
1 TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
* * *
323633 AT-TATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
1 -TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATG
323671 CATATGGGTG
Statistics
Matches: 189, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
43 6 0.03
44 26 0.14
45 40 0.21
46 117 0.62
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (46 bp):
TGTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAG
Found at i:323592 original size:91 final size:88
Alignment explanation
Indices: 323408--323664 Score: 291
Period size: 91 Copynumber: 2.8 Consensus size: 88
323398 GTATAACGTT
* * *
323408 GTATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAGTGTATAGAAGGGCGTGAAAGGGT
1 GTATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAG-ATATAGAAGGGCATGAAAGGAT
* ** * *
323473 GCCATAAGTGAAATGTATAATTGT
65 GCCATAAATGAAACCTATAATAGC
*
323497 GTATAGAAGGGCATGAAAGGATGACATAAATGAAATGTATAATAGCATATAGAAGGGCAT-AAAG
1 GTATA-AAGGGCATGAAAGGATGCCATAAATGAAA--TATAATAG-ATATAGAAGGGCATGAAAG
323561 GATGCCATAAATGAAACCTATAATAGC
62 GATGCCATAAATGAAACCTATAATAGC
* * * * *
323588 GTATAAAAGGGCATGAAAGAATGCCATAAATTAAACATGTAATCGATTATAAAAGGGCATGAAAG
1 GTAT-AAAGGGCATGAAAGGATGCCATAAA-TGAA-ATATAATAGA-TATAGAAGGGCATGAAAG
*
323653 GATGTCATAAAT
62 GATGCCATAAAT
323665 AAAATGCATA
Statistics
Matches: 143, Mismatches: 17, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
89 5 0.03
90 29 0.20
91 69 0.48
92 39 0.27
93 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (88 bp):
GTATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAGATATAGAAGGGCATGAAAGGATG
CCATAAATGAAACCTATAATAGC
Found at i:323644 original size:137 final size:135
Alignment explanation
Indices: 323409--323670 Score: 348
Period size: 137 Copynumber: 1.9 Consensus size: 135
323399 TATAACGTTG
* * * **
323409 TATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAGTGTATAGAAGGGCGTGAAAGGGTG
1 TATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAGCGTATAAAAGGGCATGAAAGAATG
* ** * * *
323474 CCATAAGTGAAATGTATAATTGTGTATAGAAGGGCATGAAAGGATGACATAAATGAAATGTATAA
66 CCATAAATGAAACATATAATCGTGTATAAAAGGGCATGAAAGGATGACATAAATAAAATGTATAA
323539 TAGCA
131 TAGCA
323544 TATAGAAGGGCAT-AAAGGATGCCATAAATGAAACCTATAATAGCGTATAAAAGGGCATGAAAGA
1 TATA-AAGGGCATGAAAGGATGCCATAAATGAAA--TATAATAGCGTATAAAAGGGCATGAAAGA
* * *
323608 ATGCCATAAATTAAACATGTAATCGAT-TATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
63 ATGCCATAAATGAAACATATAATCG-TGTATAAAAGGGCATGAAAGGATGACATAAATAAAATG
323671 CATATGGGTG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
135 24 0.22
136 8 0.07
137 76 0.70
138 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (135 bp):
TATAAAGGGCATGAAAGGATGCCATAAATGAAATATAATAGCGTATAAAAGGGCATGAAAGAATG
CCATAAATGAAACATATAATCGTGTATAAAAGGGCATGAAAGGATGACATAAATAAAATGTATAA
TAGCA
Found at i:323698 original size:45 final size:45
Alignment explanation
Indices: 323644--323801 Score: 133
Period size: 45 Copynumber: 3.5 Consensus size: 45
323634 TTATAAAAGG
*
323644 GCATGAAAGGATGTC-ATAAATAAAATGCATATGGGTGCATTATCA
1 GCATGAAAGGATGTCAATAAATAAAATGCATAT-GGTGCATTATAA
* * * * *
323689 GCATGAAAGGAT-ACTATAATTGAAATGCATATAGGTGCATTATTA
1 GCATGAAAGGATGTCAATAAATAAAATGCATAT-GGTGCATTATAA
* ** * *
323734 GCATGAAAGAATG-CCGTATATAAAAATTCATAATGGTGCATTATAA
1 GCATGAAAGGATGTCAATAAAT-AAAATGCAT-ATGGTGCATTATAA
* *
323780 GTATGAATGGATGCTCAATAAA
1 GCATGAAAGGATG-TCAATAAA
323802 AATAAAGAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.01
45 53 0.60
46 28 0.32
47 2 0.02
48 4 0.05
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGAAAGGATGTCAATAAATAAAATGCATATGGTGCATTATAA
Found at i:326028 original size:24 final size:24
Alignment explanation
Indices: 325991--326047 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
325981 ATAGGGTTTT
* *
325991 GAAATACTATAGAGCATTGTAACA
1 GAAATACCAAAGAGCATTGTAACA
326015 GAAATACCAAAGAGCATTGTAACA
1 GAAATACCAAAGAGCATTGTAACA
326039 GAAATACCA
1 GAAATACCA
326048 GTGATTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (24 bp):
GAAATACCAAAGAGCATTGTAACA
Found at i:327598 original size:22 final size:22
Alignment explanation
Indices: 327571--327614 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
327561 TGACATAGCA
*
327571 TAGTATCGGTACCATAGTATGG
1 TAGTATCGATACCATAGTATGG
*
327593 TAGTATCGATACCATGGTATGG
1 TAGTATCGATACCATAGTATGG
327615 GTATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (22 bp):
TAGTATCGATACCATAGTATGG
Found at i:327624 original size:20 final size:21
Alignment explanation
Indices: 327580--327624 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
327570 ATAGTATCGG
*
327580 TACCATAGTATGGTAGTATCGA
1 TACCATAGTATGG-AGTATCAA
*
327602 TACCATGGTATGG-GTATCAA
1 TACCATAGTATGGAGTATCAA
327622 TAC
1 TAC
327625 TGAGGAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (21 bp):
TACCATAGTATGGAGTATCAA
Found at i:328012 original size:54 final size:54
Alignment explanation
Indices: 327943--328281 Score: 453
Period size: 54 Copynumber: 6.3 Consensus size: 54
327933 TTACCAAATA
* * * * *
327943 GGCATTAAGTATGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
327997 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* * * * * * *
328051 GGCACTAAGTGTGCATTTTATGGAATTTATCCTACATGGATGAATAATCGTTCC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* ** * * *
328105 GGCATTAAGTGTGCATTTCACATAATTCATCTTACGTGGAGGAATAACCAATTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* * **
328159 GACACTAAGTGTACATTTCACGGAATTCATCCTACGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
* *
328213 GGTACTAAGTGTGCATTTCACGGAATTCATCCTACTTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
*
328267 GGCACTATGTGTGCA
1 GGCACTAAGTGTGCA
328282 AATCCACAGA
Statistics
Matches: 242, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 242 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCATTTC
Found at i:328316 original size:55 final size:55
Alignment explanation
Indices: 328269--328374 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
328259 ACCATTTCGG
* *
328269 CACTATGTGTGCAAATCCAC-AGAATTCATCATGAGTTAATGAGTAACCGTACAGA
1 CACTATGTGTGCAAATCCACGA-AATTCATAATGAGTTAATGAATAACCGTACAGA
* * *
328324 CACTATGTGTGCGAATCCACGAAATTCTTAATGAGTTGATGAACT-ACCGTA
1 CACTATGTGTGCAAATCCACGAAATTCATAATGAGTTAATGAA-TAACCGTA
328375 TAGGTACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 42 0.95
56 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (55 bp):
CACTATGTGTGCAAATCCACGAAATTCATAATGAGTTAATGAATAACCGTACAGA
Found at i:328928 original size:46 final size:46
Alignment explanation
Indices: 328716--328915 Score: 301
Period size: 46 Copynumber: 4.3 Consensus size: 46
328706 ACGTTGTCTA
* *
328716 AAGGGCATGAAAGGATGCCATAAATAAAATGTATAATAACTTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* *
328762 AAGGGCGTGAAAGGATGTCATAAATGAAATGTATAATAACGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* * * * *
328808 AAAGGCATAAAAGAATGCCATAAATAAAATGTATAATAGCGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
* *
328854 AAGGGCATGAAAGGATGCCATAAATGAAATGTGTAATAGCGTATAG
1 AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
328900 AAGGGCATGAAAGGAT
1 AAGGGCATGAAAGGAT
328916 ACAATAATTG
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 138 1.00
ACGTcount: A:0.46, C:0.08, G:0.24, T:0.22
Consensus pattern (46 bp):
AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAACGTATAG
Found at i:332826 original size:177 final size:173
Alignment explanation
Indices: 332530--332877 Score: 579
Period size: 177 Copynumber: 2.0 Consensus size: 173
332520 TGTGTTGTAT
* *
332530 AAATGTTTTAAATACTTGTTTGAATTATCATGTGCACATGCTTGTTATAAGTTTTGAAATATGAT
1 AAATGTTTTAAATACTTGTTTGAATTATCATGTGCACATGATTGTTATAAGTTTTAAAATATGAT
* *
332595 TGTTTTATCAAATTTGACATATGAATGATTTATTTGGTTGAAATCCTGATTCCTGATTTACTAAT
66 TGTTTTATCAAATTTGACATATGAATGATTTATCTGGTTGAAATCCTAATTCCTGATTTACTAAT
* *
332660 TATAAATTATATTGTCTTATTCATGTTCTCTAGTTATTGATAC
131 TATAAAATATATTGTCTTATACATGTTCTCTAGTTATTGATAC
* * *
332703 AAATGTTTTAAATACTTGTTTGAATTATCATGTGCACGTGATTGTTCTAATCTATTTTTAAAATA
1 AAATGTTTTAAATACTTGTTTGAATTATCATGTGCACATGATTG-T-T-AT-AAGTTTTAAAATA
332768 TGATTGTTTTATCAAATTTGACATATGAATGATTTATCTGGTTGAAATCCTAATTCCTGATTTAC
62 TGATTGTTTTATCAAATTTGACATATGAATGATTTATCTGGTTGAAATCCTAATTCCTGATTTAC
332833 TAATTATAAAATATATTGTCTTATACATGTTCTCTAGTTATTGAT
127 TAATTATAAAATATATTGTCTTATACATGTTCTCTAGTTATTGAT
332878 TTTAATGAAA
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
173 42 0.26
174 1 0.01
175 1 0.01
176 2 0.01
177 116 0.72
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.47
Consensus pattern (173 bp):
AAATGTTTTAAATACTTGTTTGAATTATCATGTGCACATGATTGTTATAAGTTTTAAAATATGAT
TGTTTTATCAAATTTGACATATGAATGATTTATCTGGTTGAAATCCTAATTCCTGATTTACTAAT
TATAAAATATATTGTCTTATACATGTTCTCTAGTTATTGATAC
Found at i:334538 original size:18 final size:19
Alignment explanation
Indices: 334515--334563 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
334505 AATTTTGGTT
334515 TCGATACTCATGG-GAGTA
1 TCGATACTCATGGAGAGTA
* *
334533 TCGATACTGAGGGTAGAGTA
1 TCGATACTCATGG-AGAGTA
334553 TCGATACTCAT
1 TCGATACTCAT
334564 AGTATGGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (19 bp):
TCGATACTCATGGAGAGTA
Found at i:336033 original size:51 final size:51
Alignment explanation
Indices: 335957--336058 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
335947 GTGTATTTTG
*
335957 CACCACTTAACGTTAAACTTGTCATTTTTCTCACTTATTAACCACTTGTGA
1 CACCACTTAACGTTAAACTTGTCATTTTTCTCACTTATCAACCACTTGTGA
*
336008 CACCACTTAACGTTAAACTTGTCATTTTTCTCACTTGTCAACCACTTGTGA
1 CACCACTTAACGTTAAACTTGTCATTTTTCTCACTTATCAACCACTTGTGA
336059 AATGTTTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (51 bp):
CACCACTTAACGTTAAACTTGTCATTTTTCTCACTTATCAACCACTTGTGA
Found at i:336237 original size:42 final size:42
Alignment explanation
Indices: 336186--336501 Score: 192
Period size: 41 Copynumber: 7.7 Consensus size: 42
336176 CACCATAAAA
*
336186 TAGTAACTTTAGTGGCGTTTTTATACAAAATGCCGTAACAGAG
1 TAGT-ACTTTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
* * **
336229 TAGTACTTTAGTGGCGTTTTTATAC-AAACGCCGCAATAGTT
1 TAGTACTTTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
** * * * * *
336270 TCA-T-CCATAGTGGCATTTTT-TAAACAAACTCCGTGACATAG
1 T-AGTACTTTAGTGGCGTTTTTATACA-AAACGCCGTAACAGAG
* * * *
336311 TAGTACTTTAGCGGCGTTTTTATA-AAAATGCCGTAATAGGG
1 TAGTACTTTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
* *
336352 TTCA-TA-TATTA-T-GCGTTTTTA-AC-AAACGACGCAACAGAG
1 -T-AGTACT-TTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
* * * *
336391 TAGTACTTTAGCGGCGTTTTTTATAC-AAACACCGCAAAAGAG
1 TAGTACTTTAGTGGCG-TTTTTATACAAAACGCCGTAACAGAG
* * * * * *
336433 TAGTAATTTAGCGGTGTTTTTATAC-AAACGCCATTATAGA-
1 TAGTACTTTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
* *
336473 CACGTACTTTAGTGGCGTTTTTATTCAAA
1 TA-GTACTTTAGTGGCGTTTTTATACAAA
336502 CACCACTATA
Statistics
Matches: 207, Mismatches: 48, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
37 1 0.00
38 6 0.03
39 15 0.07
40 27 0.13
41 79 0.38
42 72 0.35
43 7 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
TAGTACTTTAGTGGCGTTTTTATACAAAACGCCGTAACAGAG
Found at i:336313 original size:82 final size:80
Alignment explanation
Indices: 336195--336427 Score: 254
Period size: 82 Copynumber: 2.9 Consensus size: 80
336185 ATAGTAACTT
* * *
336195 TAGTGGCGTTTTTATACAAAATGCCGTAACAGAGTAGTACTTTAGTGGCGTTTTTATACAAACGC
1 TAGTGGCGTTTTTAAACAAACT-CCGTAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGC
*
336260 CGCAATA-GTTTCATCCA
65 CGCAATAGGGTTCAT--A
* * * * *
336277 TAGTGGCATTTTTTAAACAAACTCCGTGACATAGTAGTACTTTAGCGGCGTTTTTATAAAAATGC
1 TAGTGGC-GTTTTTAAACAAACTCCGTAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGC
*
336342 CGTAATAGGGTTCATA
65 CGCAATAGGGTTCATA
* * ** * *
336358 TATTATGCGTTTTT-AACAAACGACGCAACAGAGTAGTACTTTAGCGGCGTTTTTTATACAAACA
1 TAGT-GGCGTTTTTAAACAAACTCCGTAACAGAGTAGTACTTTAGCGGCG-TTTTTATACAAACG
336422 CCGCAA
64 CCGCAA
336428 AAGAGTAGTA
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
80 30 0.24
81 25 0.20
82 52 0.42
83 18 0.14
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (80 bp):
TAGTGGCGTTTTTAAACAAACTCCGTAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCC
GCAATAGGGTTCATA
Found at i:336331 original size:41 final size:42
Alignment explanation
Indices: 336186--336461 Score: 141
Period size: 42 Copynumber: 6.7 Consensus size: 42
336176 CACCATAAAA
* *
336186 TAGTAACTTTAGTGGCGTTTTTATACAAAATGCCGTAACAGAG
1 TAGTAACTTTAGTGGCGTTTTTATACAAACT-CCGTAACATAG
* *
336229 TAGT-ACTTTAGTGGCGTTTTTATACAAACGCCG-CA-ATAG
1 TAGTAACTTTAGTGGCGTTTTTATACAAACTCCGTAACATAG
* * ** * * *
336268 T-TTCATCCATAGTGGCATTTTTTAAACAAACTCCGTGACATAG
1 TAGT-AACTTTAGTGGC-GTTTTTATACAAACTCCGTAACATAG
* *
336311 TAGT-ACTTTAGCGGCGTTTTTATA-AAAATGCCGT-A-ATAG
1 TAGTAACTTTAGTGGCGTTTTTATACAAACT-CCGTAACATAG
* ** * *
336350 -GGTTCATA-TATTA-T-GCGTTTTTA-ACAAACGACGCAACAGAG
1 TAG-T-A-ACT-TTAGTGGCGTTTTTATACAAACTCCGTAACATAG
* * * * *
336391 TAGT-ACTTTAGCGGCGTTTTTTATACAAACACCGCAAAAGAG
1 TAGTAACTTTAGTGGCG-TTTTTATACAAACTCCGTAACATAG
* *
336433 TAGTAA-TTTAGCGGTGTTTTTATACAAAC
1 TAGTAACTTTAGTGGCGTTTTTATACAAAC
336462 GCCATTATAG
Statistics
Matches: 178, Mismatches: 33, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
38 6 0.03
39 13 0.07
40 30 0.17
41 53 0.30
42 65 0.37
43 10 0.06
44 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (42 bp):
TAGTAACTTTAGTGGCGTTTTTATACAAACTCCGTAACATAG
Found at i:336484 original size:41 final size:41
Alignment explanation
Indices: 336439--336566 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
336429 AGAGTAGTAA
336439 TTTAGCGGTGTTTTTATACAAACGCCATTATAGACACGTAC
1 TTTAGCGGTGTTTTTATACAAACGCCATTATAGACACGTAC
* * * * * * * *
336480 TTTAGTGGCGTTTTTATTCAAACACCACTATAAATACGTTC
1 TTTAGCGGTGTTTTTATACAAACGCCATTATAGACACGTAC
* * *
336521 TTTAGCGGTATTTTTATACAAACGCC-TCTATAGACTCATAC
1 TTTAGCGGTGTTTTTATACAAACGCCAT-TATAGACACGTAC
336562 TTTAG
1 TTTAG
336567 TGGCGTTTGT
Statistics
Matches: 67, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (41 bp):
TTTAGCGGTGTTTTTATACAAACGCCATTATAGACACGTAC
Found at i:340328 original size:42 final size:41
Alignment explanation
Indices: 340278--340570 Score: 268
Period size: 42 Copynumber: 7.0 Consensus size: 41
340268 GGCGTTTGCA
** *
340278 TCCAAAAACGCCGCTATAGATCTGAATTTTTACGGCGTTTAT
1 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTT-T
* * * *
340320 TCCAAAAACGTCGCTATATATCTCGACCTTCTGCAGCGTTTGT
1 TCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTT-T
* * *
340363 TCCTAAAACGCCACTATAGATCTGACCTTTTGCGGCATTTT
1 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTT
** * ** *
340404 T---GGAACGCCGCTATAGATCCGACAATTTGTGGCGTTTT
1 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTT
** * *
340442 CTATAAAAACGCCGTTATAGATCTCGACCTATTGCGGCGTTTGT
1 -TCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTT-T
*
340486 TCCAAAAACGCCGCTATAGATCAGACCTTTTGCGGCGTTTT
1 TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTT
* * * *
340527 CTCAAAAAATGCCGCTATAGATTTCGACCTATTGCGGCGTTTT
1 -TCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTT
340570 T
1 T
340571 TTTTCCACAA
Statistics
Matches: 201, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
38 29 0.14
39 1 0.00
41 3 0.01
42 86 0.43
43 81 0.40
44 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (41 bp):
TCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTT
Found at i:340523 original size:85 final size:84
Alignment explanation
Indices: 340281--340570 Score: 288
Period size: 85 Copynumber: 3.5 Consensus size: 84
340271 GTTTGCATCC
** * * * *
340281 AAAAACGCCGCTATAGATCTGAATTTTTACGGCGTTTATTCCAAAAACGTCGCTATATATCTCGA
1 AAAAACGCCGCTATAGATCTGACCTATTGCGGCGTTT-TTCCAAAAACGCCGCTATAGATC-CGA
* * *
340346 CCTTCTGCAGCGTTTGT-TCCT
64 CCTTTTGCGGCGTTT-TCTCAT
* * * ** *
340367 -AAAACGCCACTATAGATCTGACCTTTTGCGGCATTTTT---GGAACGCCGCTATAGATCCGACA
1 AAAAACGCCGCTATAGATCTGACCTATTGCGGCGTTTTTCCAAAAACGCCGCTATAGATCCGACC
* *
340428 ATTTGTGGCGTTTTCT-AT
66 TTTTGCGGCGTTTTCTCAT
* *
340446 AAAAACGCCGTTATAGATCTCGACCTATTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATCAGA
1 AAAAACGCCGCTATAGATCT-GACCTATTGCGGCGTTT-TTCCAAAAACGCCGCTATAGATCCGA
340511 CCTTTTGCGGCGTTTTCTCA-
64 CCTTTTGCGGCGTTTTCTCAT
* *
340531 AAAAATGCCGCTATAGATTTCGACCTATTGCGGCGTTTTT
1 AAAAACGCCGCTATAGATCT-GACCTATTGCGGCGTTTTT
340571 TTTTCCACAA
Statistics
Matches: 168, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 31 0.18
81 29 0.17
82 2 0.01
84 4 0.02
85 99 0.59
86 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (84 bp):
AAAAACGCCGCTATAGATCTGACCTATTGCGGCGTTTTTCCAAAAACGCCGCTATAGATCCGACC
TTTTGCGGCGTTTTCTCAT
Found at i:340712 original size:22 final size:23
Alignment explanation
Indices: 340665--340722 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
340655 AGCGGCGCTT
340665 AAAAACGCCGCTATAATACTTAA
1 AAAAACGCCGCTATAATACTTAA
340688 AAAAACGCCGCTATAATACTT-A
1 AAAAACGCCGCTATAATACTTAA
340710 AAAAACGCCGCTA
1 AAAAACGCCGCTA
340723 AAGAACATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.47, C:0.24, G:0.10, T:0.19
Consensus pattern (23 bp):
AAAAACGCCGCTATAATACTTAA
Found at i:343416 original size:21 final size:21
Alignment explanation
Indices: 343374--343417 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
343364 GGTAAAAAAA
***
343374 TTACCTAAAACATTGTTATTT
1 TTACCTAAAACATCAATATTT
*
343395 TTACCTAAAACATCAATGTTT
1 TTACCTAAAACATCAATATTT
343416 TT
1 TT
343418 TAACATTTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (21 bp):
TTACCTAAAACATCAATATTT
Found at i:346010 original size:20 final size:20
Alignment explanation
Indices: 345977--346016 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
345967 TTGTAAGGTA
345977 ATTTTTTTAAATAT-ATTAT
1 ATTTTTTTAAATATGATTAT
*
345996 ATTTATTTTATATATGATTAT
1 ATTT-TTTTAAATATGATTAT
346017 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTTTAAATATGATTAT
Found at i:353334 original size:43 final size:43
Alignment explanation
Indices: 353287--353424 Score: 222
Period size: 43 Copynumber: 3.2 Consensus size: 43
353277 TGTTCACTTA
* * **
353287 TGGTTGTTCGCGGGGTCATAGTTGATCGACACATGATCATGGG
1 TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCATGGG
353330 TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCATGGG
1 TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCATGGG
* *
353373 TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCTTTGG
1 TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCATGGG
353416 TGGTTGCTC
1 TGGTTGCTC
353425 ACCTGAAACA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.15, C:0.17, G:0.34, T:0.34
Consensus pattern (43 bp):
TGGTTGCTCGCTGGGTTGTAGTTGATCGACACATGATCATGGG
Found at i:354088 original size:60 final size:60
Alignment explanation
Indices: 353977--354102 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 60
353967 ATGATACCTA
* **
353977 AACTATATGACATTATTTTGTTGAGTCTCACGATTATTGAAAATTACAAAATAGTC-CTC
1 AACTATAAGACATTATTTTGTTGAGTCTCACGAGAATTGAAAATTACAAAATAGTCACTC
** * *
354036 TAACTATAAGACATTATTTTGTTGAGT-TCGTTGAGAATT-AAAAGTTATAAAATGGTCACTC
1 -AACTATAAGACATTATTTTGTTGAGTCTC-ACGAGAATTGAAAA-TTACAAAATAGTCACTC
354097 AACTAT
1 AACTAT
354103 TCATATATTC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 6 0.11
60 47 0.84
61 3 0.05
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (60 bp):
AACTATAAGACATTATTTTGTTGAGTCTCACGAGAATTGAAAATTACAAAATAGTCACTC
Found at i:355641 original size:30 final size:31
Alignment explanation
Indices: 355598--355680 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 31
355588 AAAAAATGTT
*
355598 TAAAA-TTACAAGGACCAAAATGAG-AAGAA-
1 TAAAACTTA-AAGGACCAAAATGAGCAAAAAC
*
355627 TAGCAACTTAAAGGACCAAAAT-AGCAAAAAC
1 TA-AAACTTAAAGGACCAAAATGAGCAAAAAC
*
355658 TAAAACTTAAAGGACTAAAATGA
1 TAAAACTTAAAGGACCAAAATGA
355681 CACATACAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 4 0.09
30 35 0.78
31 6 0.13
ACGTcount: A:0.57, C:0.13, G:0.14, T:0.16
Consensus pattern (31 bp):
TAAAACTTAAAGGACCAAAATGAGCAAAAAC
Found at i:355727 original size:30 final size:29
Alignment explanation
Indices: 355634--355738 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
355624 GAATAGCAAC
* * *
355634 TTAAAGGACCAAAATAGCAAAAACTAAAAC
1 TTAAAGGACTAAAATAG-AAAAACAAAAAT
* * *
355664 TTAAAGGACTAAAAT-GACACATACAGAATT
1 TTAAAGGACTAAAATAGA-A-AAACAAAAAT
*
355694 TTAAAGGGCTAAAATAGTAAAAACAAAAAT
1 TTAAAGGACTAAAATAG-AAAAACAAAAAT
* *
355724 TTAAGGGTCTAAAAT
1 TTAAAGGACTAAAAT
355739 GGTATTAACA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 53 0.90
31 2 0.03
32 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.21
Consensus pattern (29 bp):
TTAAAGGACTAAAATAGAAAAACAAAAAT
Found at i:357174 original size:3 final size:3
Alignment explanation
Indices: 357160--357196 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
357150 ATATTTATGT
357160 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
357197 TATTTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:357603 original size:134 final size:132
Alignment explanation
Indices: 357391--357741 Score: 361
Period size: 130 Copynumber: 2.7 Consensus size: 132
357381 AGTCGTCTAA
* * * *
357391 AGGTGACACGACTCCTACGTGATTAGGAGATATGGTC-AGTGGATGACACGGCTCATACGTGATG
1 AGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGA-TGGATGACACGGTTCATACGTGATG
* * * * * *
357455 AAGAGTTCTGGCCATCTTTAGGAAGGATGATAACACGGTTCCTACGCGATGAAGACAGTTGGTTA
65 AGGAG-ACAGGCCATCTTTAGGAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTGGTTA
357520 TCTAG
129 TCT-G
* * * * *
357525 GGGTGACACGGCTCCTACATGATAAGGAGGTCTGGTCGATGGATGACACGGTTCGTATGTGATGA
1 AGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGATGGATGACACGGTTCATACGTGATGA
* * * ** *
357590 GGACGACAGGCCATCTTT---AAGAATGATAACATGATTCCTACGTGATGAGGATGGCTGGTTTT
66 GGA-GACAGGCCATCTTTAGGAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTGGTTAT
357652 CTG
130 CTG
* * ** * *
357655 AGGTGACACGACTCCTACGTGATGAGGAGGTCTGATCGGGGGATGACACGGTTCCTACATGATGA
1 AGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGATGGATGACACGGTTCATACGTGATGA
* *
357720 GGATGGCAGACCATC-TTAGGAA
66 GGA-GACAGGCCATCTTTAGGAA
357742 TTATGGTTTC
Statistics
Matches: 178, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
129 2 0.01
130 68 0.38
131 37 0.21
132 2 0.01
134 67 0.38
135 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (132 bp):
AGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGATGGATGACACGGTTCATACGTGATGA
GGAGACAGGCCATCTTTAGGAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTGGTTATC
TG
Found at i:357699 original size:130 final size:131
Alignment explanation
Indices: 357386--357736 Score: 364
Period size: 134 Copynumber: 2.7 Consensus size: 131
357376 GGTCTAGTCG
* * * * * *
357386 TCTAAAGGTGACACGACTCCTACGTGATTAGGAGATATGGTCAGTGGATGACACGGCTCATACGT
1 TCTAGAGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGGTGGATGACACGGTTCATACGT
* * * * * *
357451 GATGAAGAGTTCTGGCCATCTTTAGGAAGGATGATAACACGGTTCCTACGCGATGAAGACAGTTG
66 GATGAGGAG-ACAGGCCATCTTT--GAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTG
357516 GTTA
128 GTTA
* * * * * *
357520 TCTAGGGGTGACACGGCTCCTACATGATAAGGAGGTCTGGTCGATGGATGACACGGTTCGTATGT
1 TCTAGAGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGGTGGATGACACGGTTCATACGT
* * * **
357585 GATGAGGACGACAGGCCATCTTT-AAGAATGATAACATGATTCCTACGTGATGAGGATGGCTGGT
66 GATGAGGA-GACAGGCCATCTTTGAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTGGT
*
357649 TT
130 TA
* * * * *
357651 TCT-GAGGTGACACGACTCCTACGTGATGAGGAGGTCTGATCGGGGGATGACACGGTTCCTACAT
1 TCTAGAGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGGTGGATGACACGGTTCATACGT
* *
357715 GATGAGGATGGCAGACCATCTT
66 GATGAGGA-GACAGGCCATCTT
357737 AGGAATTATG
Statistics
Matches: 179, Mismatches: 37, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
130 70 0.39
131 37 0.21
134 71 0.40
135 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (131 bp):
TCTAGAGGTGACACGACTCCTACGTGATAAGGAGGTCTGGTCGGTGGATGACACGGTTCATACGT
GATGAGGAGACAGGCCATCTTTGAAGAATGATAACACGATTCCTACGCGATGAAGACAGCTGGTT
A
Found at i:357787 original size:28 final size:28
Alignment explanation
Indices: 357747--357843 Score: 117
Period size: 28 Copynumber: 3.4 Consensus size: 28
357737 AGGAATTATG
*
357747 GTTTCAAGAGAAATC-GACTCAAAGATTT
1 GTTTCAAAAGAAA-CAGACTCAAAGATTT
357775 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
*
357803 GTTTCAAGAA-AAACAAACTCAAAGATGATGT
1 GTTTCAA-AAGAAACAGACTCAAAGAT--T-T
357834 GTTTCAAAAG
1 GTTTCAAAAG
357844 CAACTGTCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
27 1 0.02
28 47 0.77
29 2 0.03
30 3 0.05
31 8 0.13
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:358406 original size:96 final size:95
Alignment explanation
Indices: 358296--358473 Score: 225
Period size: 96 Copynumber: 1.9 Consensus size: 95
358286 TTTGTTTTAA
* * * * * *
358296 GAGAAATTGTCTCAAGAGAGATAAAATTCGTTTCAAGGGAAATGA-CTCAAAGATGGCTTTGTTT
1 GAGAAACTGCCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACGATCTCAAAGATGG--GTGTTT
358360 CAAGTA-AAACAGACTCAAATATTGTGTTTCCC
64 CAAG-AGAAACAGACTCAAATATTGTGTTTCCC
* * * *
358392 GAGAAACTGCCTCAAGGGAGACAAAATTTGTTTCAATAGAAACGATCTCAAAGGTGGGTGTTTCA
1 GAGAAACTGCCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACGATCTCAAAGATGGGTGTTTCA
358457 AGAGAAACAGACTCAAA
66 AGAGAAACAGACTCAAA
358474 GACTATAAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
94 1 0.01
95 22 0.31
96 37 0.53
97 10 0.14
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (95 bp):
GAGAAACTGCCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACGATCTCAAAGATGGGTGTTTCA
AGAGAAACAGACTCAAATATTGTGTTTCCC
Found at i:359171 original size:14 final size:15
Alignment explanation
Indices: 359145--359176 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
359135 TGTAAATTTC
359145 ATGTGTCATGTATGT
1 ATGTGTCATGTATGT
359160 ATGTGT-ATGTATGT
1 ATGTGTCATGTATGT
359174 ATG
1 ATG
359177 ATTTCTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (15 bp):
ATGTGTCATGTATGT
Found at i:359322 original size:22 final size:21
Alignment explanation
Indices: 359287--359329 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
359277 GACCTGAGAC
*
359287 AATTTGTTTTCCTTGCCCCAA
1 AATTTGTTTCCCTTGCCCCAA
359308 AATTTAGTTTCCCTTGCCCCAA
1 AATTT-GTTTCCCTTGCCCCAA
359330 CTTCTATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (21 bp):
AATTTGTTTCCCTTGCCCCAA
Found at i:360170 original size:2 final size:2
Alignment explanation
Indices: 360163--360199 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
360153 AGCTTTATTG
360163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
360200 TATGGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:360795 original size:25 final size:26
Alignment explanation
Indices: 360766--360815 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
360756 AAAAATGTAA
*
360766 ATATTTATGTTAATAATAA-AATAAG
1 ATATTAATGTTAATAATAATAATAAG
* *
360791 ATATTAATTTTTATAATAATAATAA
1 ATATTAATGTTAATAATAATAATAA
360816 TAATATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
ATATTAATGTTAATAATAATAATAAG
Found at i:361083 original size:2 final size:2
Alignment explanation
Indices: 361076--361102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
361066 AATTTATGCA
361076 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
361103 ATCTGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:361610 original size:6 final size:6
Alignment explanation
Indices: 361601--361705 Score: 53
Period size: 6 Copynumber: 18.2 Consensus size: 6
361591 AATTAAGTAG
* * *
361601 AATTAT AATTAT AATTA- AA-TAT -ATTAG AATTAT AATTAAA AATTAA
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATT-AT AATTAT
* * * * *
361647 AATTA- AA-TGT AATTAG AATTAT AGAATTGT AATTAG CATTA- AA-TAT
1 AATTAT AATTAT AATTAT AATTAT --AATTAT AATTAT AATTAT AATTAT
*
361693 AATTAA AATTAT A
1 AATTAT AATTAT A
361706 GAATTATATG
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
4 6 0.08
5 11 0.15
6 48 0.64
7 5 0.07
8 5 0.07
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (6 bp):
AATTAT
Found at i:361703 original size:16 final size:16
Alignment explanation
Indices: 361604--361703 Score: 58
Period size: 16 Copynumber: 5.9 Consensus size: 16
361594 TAAGTAGAAT
*
361604 TATAATTATAATTAAA
1 TATAATTAAAATTAAA
*
361620 TAT-ATTAGAATTATAA
1 TATAATTAAAATTA-AA
*
361636 TTAAAAATTAAAATTAAA
1 -T-ATAATTAAAATTAAA
* *
361654 TGTAATTAGAATTATAGAA
1 TATAATTA-AAAT-TA-AA
* **
361673 TTGTAATTAGCATTAAA
1 -TATAATTAAAATTAAA
361690 TATAATTAAAATTA
1 TATAATTAAAATTA
361704 TAGAATTATA
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
15 9 0.14
16 21 0.33
17 7 0.11
18 7 0.11
19 12 0.19
20 8 0.12
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (16 bp):
TATAATTAAAATTAAA
Found at i:361892 original size:39 final size:39
Alignment explanation
Indices: 361839--361933 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
361829 TATGCCAATC
* *
361839 TATACTGAAAAGCACATTATTATTTGTCTAAACCAATAAA
1 TATA-TGAACAGCACATTAGTATTTGTCTAAACCAATAAA
361879 TATATGAACAGCACATTAGTATTTGTCTAAACCAATAAA
1 TATATGAACAGCACATTAGTATTTGTCTAAACCAATAAA
361918 TATATGAACAGCACAT
1 TATATGAACAGCACAT
361934 AAGTGATCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 49 0.92
40 4 0.08
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (39 bp):
TATATGAACAGCACATTAGTATTTGTCTAAACCAATAAA
Found at i:370293 original size:64 final size:64
Alignment explanation
Indices: 370210--370367 Score: 171
Period size: 63 Copynumber: 2.5 Consensus size: 64
370200 TTCAAGGTGT
* ** *
370210 ATCGATGCA-CATGAAGTGCATCGATGCACTCTGATAAAACAAAAACATCGAATGCCATT-AGTG
1 ATCGATGCATAATGAAGTGCATCGATGCAC-CCCATAAAACAAAAACATCGAATACCATTCA-TG
370273 C
64 C
* * * **
370274 ATCGATGCATAATG-AGTGCATCGATGCACCCCATTAAATACAAACATCGAATATGATTCATGC
1 ATCGATGCATAATGAAGTGCATCGATGCACCCCATAAAACAAAAACATCGAATACCATTCATGC
* *
370337 ACCGATGCATAA-GTAGTGCATCGATGCACCC
1 ATCGATGCATAATGAAGTGCATCGATGCACCC
370368 GTTAAGGAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
62 1 0.01
63 52 0.64
64 25 0.31
65 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (64 bp):
ATCGATGCATAATGAAGTGCATCGATGCACCCCATAAAACAAAAACATCGAATACCATTCATGC
Found at i:370887 original size:22 final size:22
Alignment explanation
Indices: 370863--370944 Score: 130
Period size: 22 Copynumber: 3.7 Consensus size: 22
370853 TCGAGGGTAT
* *
370863 AGTGGTCATTCGGGATGTATTT
1 AGTGGTCATTCGGGACGTATTC
370885 AGTGGTCATTCGGGACGTATTC
1 AGTGGTCATTCGGGACGTATTC
370907 AGTGGTCATTCGGGACGTATTC
1 AGTGGTCATTCGGGACGTATTC
370929 AGTGGT-ACTTCGGGAC
1 AGTGGTCA-TTCGGGAC
370945 ATAGTGGTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 1 0.02
22 56 0.98
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTGGTCATTCGGGACGTATTC
Found at i:370952 original size:18 final size:18
Alignment explanation
Indices: 370929--370963 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
370919 GGACGTATTC
*
370929 AGTGGTACTTCGGGACAT
1 AGTGGTACATCGGGACAT
*
370947 AGTGGTCCATCGGGACA
1 AGTGGTACATCGGGACA
370964 AATACTGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (18 bp):
AGTGGTACATCGGGACAT
Found at i:376531 original size:31 final size:31
Alignment explanation
Indices: 376493--376556 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
376483 AAAATAAAAA
* *
376493 ATATAACTATTAAATTAAATTTAACTAATTT
1 ATATAACTATCAAATTAAATATAACTAATTT
376524 ATATAACTATCAAATTAAATATAACTAATTT
1 ATATAACTATCAAATTAAATATAACTAATTT
376555 AT
1 AT
376557 CCACTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (31 bp):
ATATAACTATCAAATTAAATATAACTAATTT
Found at i:376547 original size:18 final size:17
Alignment explanation
Indices: 376491--376550 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
376481 GAAAAATAAA
376491 AAATATAACTATTAAATT
1 AAATATAACTA-TAAATT
*
376509 AAATTTAAC--T-AATT
1 AAATATAACTATAAATT
*
376523 -TATATAACTATCAAATT
1 AAATATAACTAT-AAATT
376540 AAATATAACTA
1 AAATATAACTA
376551 ATTTATCCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
13 6 0.18
14 4 0.12
15 2 0.06
17 4 0.12
18 17 0.52
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATAACTATAAATT
Found at i:378047 original size:21 final size:21
Alignment explanation
Indices: 378023--378062 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
378013 TTAATAAAAA
378023 TTTACTAAAAATATTATTATT
1 TTTACTAAAAATATTATTATT
*
378044 TTTATTAAAAATATTATTA
1 TTTACTAAAAATATTATTA
378063 AGCACTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTACTAAAAATATTATTATT
Found at i:378381 original size:28 final size:28
Alignment explanation
Indices: 378344--378409 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
378334 GTTTAACAAA
* *
378344 ATATAAATATTTATAATTTATAATTCAT
1 ATATAAATATATATAAGTTATAATTCAT
* *
378372 ATATATATATATATAAGTTATAATTTAT
1 ATATAAATATATATAAGTTATAATTCAT
*
378400 ATATTAATAT
1 ATATAAATAT
378410 GTTTAGTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
ATATAAATATATATAAGTTATAATTCAT
Found at i:378751 original size:32 final size:32
Alignment explanation
Indices: 378715--378779 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
378705 CCGTGTTCCG
*
378715 ATCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ATCCGGATGTTACGGGTACCCGATAATCGGGT
* *
378747 ATCCGGATTTTGCGGGTACCCGATAATCGGGT
1 ATCCGGATGTTACGGGTACCCGATAATCGGGT
378779 A
1 A
378780 CCCGATACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (32 bp):
ATCCGGATGTTACGGGTACCCGATAATCGGGT
Found at i:378784 original size:15 final size:15
Alignment explanation
Indices: 378727--378786 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
378717 CCGGATGTTA
*
378727 CGGGTACCCGGTAAT
1 CGGGTACCCGATAAT
* **
378742 CGGGTATCCGGATTTT
1 CGGGTA-CCCGATAAT
378758 GCGGGTACCCGATAAT
1 -CGGGTACCCGATAAT
378774 CGGGTACCCGATA
1 CGGGTACCCGATA
378787 CCTGGTTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
15 19 0.53
16 11 0.31
17 6 0.17
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGATAAT
Found at i:379135 original size:14 final size:14
Alignment explanation
Indices: 379116--379151 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
379106 CGAGTCGACG
379116 GGTCGGGTCAACCA
1 GGTCGGGTCAACCA
*
379130 GGTCGGGTCAACCG
1 GGTCGGGTCAACCA
379144 GGTCGGGT
1 GGTCGGGT
379152 AATTTTGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.25, G:0.44, T:0.17
Consensus pattern (14 bp):
GGTCGGGTCAACCA
Found at i:379963 original size:22 final size:23
Alignment explanation
Indices: 379932--379976 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
379922 ATTTTTATAA
*
379932 CTCTACTTTT-TGACATGTTTTT
1 CTCTACTTTTATGACATATTTTT
*
379954 CTCTATTTTTATGACATATTTTT
1 CTCTACTTTTATGACATATTTTT
379977 TTGCGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.18, C:0.16, G:0.07, T:0.60
Consensus pattern (23 bp):
CTCTACTTTTATGACATATTTTT
Found at i:382330 original size:19 final size:20
Alignment explanation
Indices: 382285--382339 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
382275 CTCAAAATCA
***
382285 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCAAATTTTG
382305 TTTTTCAAAATCAAATTTTG
1 TTTTTCAAAATCAAATTTTG
382325 -TTTTCAAAATCAAAT
1 TTTTTCAAAATCAAAT
382340 CATTTTTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTTCAAAATCAAATTTTG
Found at i:384085 original size:14 final size:14
Alignment explanation
Indices: 384066--384094 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
384056 AAAGAGTCTT
384066 AACAACACAATAAA
1 AACAACACAATAAA
384080 AACAACACAATAAA
1 AACAACACAATAAA
384094 A
1 A
384095 CAAATAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.21, G:0.00, T:0.07
Consensus pattern (14 bp):
AACAACACAATAAA
Found at i:386516 original size:30 final size:30
Alignment explanation
Indices: 386418--386522 Score: 158
Period size: 30 Copynumber: 3.4 Consensus size: 30
386408 GCAAGCAAGA
*
386418 AAAAAAATCAGATTCATTTGATATAAAGCAAT
1 AAAAAAATCAGATTCAGTT-ATATAAA-CAAT
386450 AAAAAAATCAGATTCAGTTATATAAAACAAT
1 AAAAAAATCAGATTCAGTTATAT-AAACAAT
386481 -AAAAAATCAGATTCAGTTATATAAACAAT
1 AAAAAAATCAGATTCAGTTATATAAACAAT
386510 AAAAAAAATCAGA
1 -AAAAAAATCAGA
386523 ATTGACTATT
Statistics
Matches: 69, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
29 7 0.10
30 22 0.32
31 19 0.28
32 21 0.30
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.25
Consensus pattern (30 bp):
AAAAAAATCAGATTCAGTTATATAAACAAT
Found at i:387215 original size:3 final size:3
Alignment explanation
Indices: 387207--387249 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
387197 ATATTTTTTC
* * *
387207 TAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
387250 ATTTACAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:394539 original size:4 final size:4
Alignment explanation
Indices: 394530--394575 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
394520 GATCGAGAAA
*
394530 ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
394575 A
1 A
394576 AAATTTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:394561 original size:18 final size:17
Alignment explanation
Indices: 394538--394573 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
394528 AAACATACAT
394538 ACATACATACATATATAC
1 ACATACATACATA-ATAC
394556 ACATACATACATAATAC
1 ACATACATACATAATAC
394573 A
1 A
394574 TAAAATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:395168 original size:105 final size:105
Alignment explanation
Indices: 394985--395181 Score: 263
Period size: 105 Copynumber: 1.9 Consensus size: 105
394975 TTGAGACAAA
* * * *
394985 TTCTTTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTCG
1 TTCTTTCAAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
395050 ATTCACTTAAAACAGAA-TTAATCTCACCTTAGATTGTTGT
66 ATTCACTTAAAACA-AAGTTAATCTCACCTTAGATTGTTGT
* * * *
395090 TTCTTTCAAAACAAATTTCATCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTG
1 TTCTTTCAAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
* * *
395155 TTTCA-TATTAAACAAAGTTGATCTCAC
66 ATTCACT-TAAAACAAAGTTAATCTCAC
395182 TTGGGATTGT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
104 3 0.04
105 76 0.96
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (105 bp):
TTCTTTCAAAACAAACTTCATCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTCG
ATTCACTTAAAACAAAGTTAATCTCACCTTAGATTGTTGT
Found at i:395273 original size:29 final size:29
Alignment explanation
Indices: 395235--395389 Score: 228
Period size: 29 Copynumber: 5.5 Consensus size: 29
395225 ATTTCTCTTA
395235 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
395264 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
395293 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
* * *
395322 AAAAATATTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
* * *
395351 AAATATCTTTGAG-TTGTTTCTTTT---G
1 AAAAATCTTTGAGTTTGTTCCTTTTAAAT
395376 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
395390 CTATTTATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.10
28 10 0.09
29 94 0.81
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTAAAT
Found at i:395404 original size:26 final size:25
Alignment explanation
Indices: 395355--395404 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
395345 TTGAATAAAT
* *
395355 ATCTTTGAGTTGTTTCTTTTGAAAA
1 ATCTTTGAGTTATTTATTTTGAAAA
395380 ATCTTTGAGTCTATTTATTTTGAAA
1 ATCTTTGAGT-TATTTATTTTGAAA
395405 CGAAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (25 bp):
ATCTTTGAGTTATTTATTTTGAAAA
Found at i:395472 original size:61 final size:59
Alignment explanation
Indices: 395374--395491 Score: 164
Period size: 61 Copynumber: 2.0 Consensus size: 59
395364 TTGTTTCTTT
* *
395374 TGAAAAATCTTTGAGTCTATTTATTTTGAAACGAAGTTTTGTCTCGCTTGAGACAATTTCG
1 TGAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTTGTCT--CTTGAGACAATTTCG
* * * *
395435 TGAAAAATCTTTGATTTTGTTTCTTTGGAAACAAAGTTTTGTCTCTTGAGACAATTT
1 TGAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTTGTCTCTTGAGACAATTT
395492 TGTGGAAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 13 0.25
61 38 0.75
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (59 bp):
TGAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTTGTCTCTTGAGACAATTTCG
Found at i:395525 original size:59 final size:60
Alignment explanation
Indices: 395374--395529 Score: 154
Period size: 59 Copynumber: 2.6 Consensus size: 60
395364 TTGTTTCTTT
* * *
395374 TGAAAAATCTTTGAG-TCTATTTATTTTGAAACGAAGTTTTGTCTCGCTTGAGACAATTTCG
1 TGAAAAATCTTTAAGAT-AATTTATTTTGAAACAAAGTTTTGTCTC-CTTGAGACAATTTCG
* ** ** * * *
395435 TGAAAAATCTTTGATTTTGTTTCTTTGGAAACAAAGTTTTGTCT-CTTGAGACAATTTTG
1 TGAAAAATCTTTAAGATAATTTATTTTGAAACAAAGTTTTGTCTCCTTGAGACAATTTCG
* * *
395494 TGGAAATTTTTTAAGATAATTTATTTTGAAACAAAG
1 TGAAAAATCTTTAAGATAATTTATTTTGAAACAAAG
395530 ATCTTTGAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 40 0.51
61 37 0.47
62 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (60 bp):
TGAAAAATCTTTAAGATAATTTATTTTGAAACAAAGTTTTGTCTCCTTGAGACAATTTCG
Found at i:396037 original size:35 final size:35
Alignment explanation
Indices: 395991--396086 Score: 176
Period size: 35 Copynumber: 2.7 Consensus size: 35
395981 CAAAATTTAC
395991 CATCTTTGAATCTGTTTCCCTTGAAACAAAACAAA
1 CATCTTTGAATCTGTTTCCCTTGAAACAAAACAAA
396026 CATCTTTGAATCTGTTTCCCTTGAAACAAAACAAA
1 CATCTTTGAATCTGTTTCCCTTGAAACAAAACAAA
396061 CATCTTTGAGATC-GTTTCCCTTGAAA
1 CATCTTTGA-ATCTGTTTCCCTTGAAA
396087 TGAATTTTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
35 57 0.95
36 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (35 bp):
CATCTTTGAATCTGTTTCCCTTGAAACAAAACAAA
Found at i:396182 original size:66 final size:65
Alignment explanation
Indices: 396061--396199 Score: 154
Period size: 66 Copynumber: 2.1 Consensus size: 65
396051 ACAAAACAAA
* * ** * **
396061 CATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGGGACAATTTCCCATGAAACGC
1 CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAACGC
* * * *
396126 CGATCTTTGAGAACGTTTCCCTTAAAAACAAATTTTGTCTCGCTTAAGACAA-TTCCCTTTAAAT
1 C-ATCTTTGAGAACGTTTCCCTT-AAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAAC
396190 GC
64 GC
396192 CATCTTTG
1 CATCTTTG
396200 GGTTGTTTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
65 8 0.13
66 32 0.52
67 21 0.34
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (65 bp):
CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTAAGACAATTTCCCATGAAACGC
Found at i:396493 original size:46 final size:46
Alignment explanation
Indices: 396440--396634 Score: 194
Period size: 46 Copynumber: 4.4 Consensus size: 46
396430 CCAGCCGTCC
* *
396440 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
* *
396486 TCATCACGTATGAGCCGTGTCATC-CC--CAGA---CCAGAACTCT
1 TCATCACGTATGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
* ** ** * *
396526 TCATCACGTATGAGCCGTG---TCAACAATAGATAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTTATCACCTTTAGATGGCCAGAAC-TCT
* *
396569 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
396615 TCATCACGTATGAGCCGTGT
1 TCATCACGTATGAGCCGTGT
396635 CATTCCCCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
40 32 0.27
42 1 0.01
43 26 0.22
45 2 0.02
46 54 0.45
47 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
TCATCACGTATGAGCCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:396531 original size:40 final size:40
Alignment explanation
Indices: 396476--396676 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
396466 CTTTAGATGG
396476 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
* ***
396516 CCAGAACTCTTCATCACGTATGAGCCGTGTCAACAATAGATAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
* * * * * *
396559 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCATC-CC--CAGA
396602 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 ---CCAGAACTCTTCATCACGTATGAGCCGTGTCA-TCCCCAGA
*
396645 CCAGATCTCTTCATCACGTATGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA
396677 ACCATAGATA
Statistics
Matches: 130, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
40 66 0.51
42 1 0.01
43 30 0.23
46 30 0.23
47 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
Found at i:396576 original size:43 final size:42
Alignment explanation
Indices: 396476--396707 Score: 129
Period size: 40 Copynumber: 5.5 Consensus size: 42
396466 CTTTAGATGG
* * * **
396476 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---A
1 CCAGACCTCCTCATCACGTATGAGCCGTGTCA-ACATAGATAA
* *
396516 CCAGAACTCTTCATCACGTATGAGCCGTGTCAACAATAGATAA
1 CCAGACCTCCTCATCACGTATGAGCCGTGTCAAC-ATAGATAA
* * * * **
396559 CCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGG
1 CCAGACC-TCCTCATCACGTATGAGCCGTG---TCAAC-ATAGATAA
* * * ***
396605 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCG---A
1 CCAGACCTCCTCATCACGTATGAGCCGTGTCA-ACATAGATAA
* *
396645 CCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
1 CCAGACCTCCTCATCACGTATGAGCCGTGTCAA-CATAGATAA
396688 CCAG-CCGTCCTCATCACGTA
1 CCAGACC-TCCTCATCACGTA
396708 GGAACCAAGT
Statistics
Matches: 149, Mismatches: 28, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.01
40 67 0.45
42 2 0.01
43 45 0.30
44 1 0.01
46 32 0.21
47 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (42 bp):
CCAGACCTCCTCATCACGTATGAGCCGTGTCAACATAGATAA
Found at i:396655 original size:129 final size:128
Alignment explanation
Indices: 396424--396810 Score: 603
Period size: 129 Copynumber: 3.0 Consensus size: 128
396414 TTATCCCTAG
396424 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
396489 TCACGTATGAGCCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACAAT
66 TCACGTATGAGCCGTGTCATCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCAACAAT
396553 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
396618 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCA-TCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACAAT
**
396682 AGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCACCATTCCTAAAGATGGCCAGAACT
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACC-TT--T--AGATGGCCAGAACT
* * * * * * *
396747 CTTTATCATGTATGAGCAGTGTCATCTCCTGACCAGATTTCCTCATCACGTAGGAGCCGTGTCA
61 CTTCATCACGTATGAGCCGTGTCATC-CCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCA
396811 CCCTTAGAAG
Statistics
Matches: 240, Mismatches: 11, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
129 162 0.68
130 7 0.03
132 1 0.00
133 2 0.01
134 68 0.28
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (128 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACAAT
Found at i:397035 original size:3 final size:3
Alignment explanation
Indices: 397027--397069 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
397017 ATATTTTTTC
* * *
397027 TAT TAT TAT TAT AAT TAT TAT TAC TAT TAT T-T TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
397070 ATTTACAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:413221 original size:23 final size:22
Alignment explanation
Indices: 413191--413269 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
413181 GCATGGCCTT
413191 GTGCATCGATGTACATTCAAGG
1 GTGCATCGATGTACATTCAAGG
* *
413213 CGTGCATCGATGTACCTTC-ATG
1 -GTGCATCGATGTACATTCAAGG
* *
413235 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGTACATTC-AAGG
413258 GATGCATCGATG
1 G-TGCATCGATG
413270 CACTGTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 20 0.43
24 9 0.20
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGTACATTCAAGG
Found at i:418792 original size:909 final size:898
Alignment explanation
Indices: 416839--418583 Score: 2168
Period size: 909 Copynumber: 1.9 Consensus size: 898
416829 TTGTAGTTTC
* * * * * * * **
416839 TAAAACTTTTTCTAACAAAGTT-GGTCTTTGATTTTTCTCCTTTTTCAAAACATTTTGATCCAAC
1 TAAAACTCTTCCT-ACAAAGTTCGAT-TTTGAATTCTCTCCATTTTCAAAACATTTTGTTAGAAC
* * * ** * * * * *
416903 TTTATCAAAAGAAGTTTTAAGATCATCAATTTCCTTTTGATGATCATCGTTGAC-TCTTGAAAGT
64 TATATC-AAAGAAGCTTTAAGATCATCAATTTTCTCCTGATAATCATCATAGACAT-TTAAAACT
** ** *
416967 AAATTTTGTAAATAAGAATTTTTCTTTTCAAACTCTTCTAGTTTGATTTGTAAATCTTTGATTTT
127 AAATTTTACAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGATTTGCAAATCTTTGATTTT
* *
417032 ACTTTCAAGATCATTGTTGGTCTTGGATATGAGATTATTTTCATTCTTCAATTTTGAAATATCAT
192 ACTTTCAAAATCATTGTTCGTCTTGGATATGAGATTATTTTCATTCTTCAATTTTGAAATATCAT
*
417097 TTTTGTATTTAAAAACAATTTTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATC
257 TTTTATATTTAAAAACAATTTTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATC
417162 ATAAGACAAATCTCTAAATCAAATGAGTTAGAGGTTACCTCAGAATCTTCCCCCAATACCATCAA
322 ATAAGACAAATCTCTAAATCAAATGAGTTAGAGGTTACCTCAGAATCTTCCCCCAATACCATCAA
*
417227 GAACAAGTTTGCTACTTCTTGTTCCTCTTCATATGAACCTTCTTCATCGCTCCATGTAGCCACGT
387 GAACAAGTTTGCTACTTCTTGTTCCTCTTCATATGAACCTTCTTCATCGCTCCATGTAGCCACAT
* *
417292 GAGCCTTGTGCTTATTCTTTGATTGACCCTTCTCTTCAATTGTGGGCAATCATATTTGACATGCC
452 AAGCCTTGTGCTTATTCTTTGATTGACCCTTCTCTTCAATTATGGGCAATCATATTTGACATGCC
* * * *
417357 CTAATTTTTTGCATTCATAGCAAATGATCGGGTCCTTTTCTTTTGGTTCATTCTTTAAGACTTCA
517 CCAACTTTTTGCATTCATAGCAAATGATAGGGTCATTTTCTTTTGGTTCATTCTTTAAGACTTCA
** *
417422 TTTCATTTGAATTTTCTTCCTCGGTTTGGCCTCATCATTTTCTGAACTGTTTGACAAACAATGTC
582 TTTCATTTGAATTTTCTTCCTCGGTAAGGCCTCAT-ATTTTCTGAACCGTTTGACAAACAATGTC
* *
417487 ATCTCCTCGTCATCGTCATCTTCATCCGAATCACTTTCATCTTTTTGATTTGAGAGCAACTCTCA
646 ATCTCCTCGTCATCGTCATCTTCATCCGAATCACTCTCATCTTTTTGATTTGAAAGCAACTCTCA
* * ** * * ** * *
417552 CATTCTTCTTCTTCTCCATATCCTTCTTTGGCTCGCATTTTTTCTCTATGTCTTCCTCTTCTTTA
711 CATTCTTATTCTTCTCCATATCCTCCTTTGGCTCGCATTTAATCTCGAGGTCCACCTCATCTTCA
* * * *
417617 AGCATCATTTCATGTGTGAGGAGAGCCAATAAGCTCATCGAGAGTCAAGGATTTTAAGTCCTTTA
776 AGCATCATTTCATGAGTGAGGAGAACCAATAAGCTCATCAAGAGTCAAGGACTTTAAGTCCTTT-
* * * * * * *
417682 GGAACCCATATACTTTTAACGATTTTTCCATTAGAGGTTCTTCGGGGACCTATATGATTGTAGTT
840 -GAACCCATAGACTTGT-ACGA-TCTTCCATTAGAGATTC-TC---GACCGATAT-ATTGAAGTG
**
417747 TT
897 AG
* * * * * **
417749 TAAAACTTTTTCTAACAAAGTTGGATTTTGAATTTTCTCCATTTTCAAAACGTTTTGTTCTAACT
1 TAAAACTCTTCCT-ACAAAGTTCGATTTTGAATTCTCTCCATTTTCAAAACATTTTGTTAGAACT
* ** * * * *
417814 TTATCAAAGAAGCTTTAAGATCATCAATTTTCTTTTGATGATCATCATTGACCTTTAAAAGTAAA
65 ATATCAAAGAAGCTTTAAGATCATCAATTTTCTCCTGATAATCATCATAGACATTTAAAACTAAA
417879 TTTTACAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGATTTGCAAATCTTTGATTTTACT
130 TTTTACAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGATTTGCAAATCTTTGATTTTACT
* * * *
417944 TTCAAAATCATTGTTCGTCTTGGATATGAGTTTATTTTCATTTTTTAA-TTTGAGA-ATCATTTT
195 TTCAAAATCATTGTTCGTCTTGGATATGAGATTATTTTCATTCTTCAATTTTGAAATATCATTTT
*
418007 TATATTTTAAAAACAATTTCTCATAATCCGAAGTCAACCCATTATATTCCTCTAATAACTCATCA
260 TATA-TTTAAAAACAATTT-TCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCA
* * * ** *
418072 TAAGATAAATCATCTAATTCAAATGAGTTAGAGGTTACCTTAGAATCTTCCCTGAATGCCATCAA
323 TAAGACAAATC-TCTAAATCAAATGAGTTAGAGGTTACCTCAGAATCTTCCCCCAATACCATCAA
*
418137 GAACAAGTTTGCTACTTCTTGTTCCTCTTCAT-TGAAACCTTTTTCATCGCTCCATGTAGCCACA
387 GAACAAGTTTGCTACTTCTTGTTCCTCTTCATATG-AACCTTCTTCATCGCTCCATGTAGCCACA
418201 TAAGCCTTGTGCTTATTCTTTGATTGACCCTTTCTCTTCAATTATGGGCAATCATATTTGACATG
451 TAAGCCTTGTGCTTATTCTTTGATTGACCC-TTCTCTTCAATTATGGGCAATCATATTTGACATG
** * *
418266 CCCCGGCTTTTTGCATTCATAGCAAATGATAGGGT-ATTTCTCTTTTGGTTCATT-TTTGAGGCC
515 CCCCAACTTTTTGCATTCATAGCAAATGATAGGGTCATTT-TCTTTTGGTTCATTCTTT-AAGAC
* *
418329 TTCATTTCGTTTGAATTTTCTTCCTCGGTAAGGCCTCAT-TTTTCTGAACCGTTTGGCAAACAAT
578 TTCATTTCATTTGAATTTTCTTCCTCGGTAAGGCCTCATATTTTCTGAACCGTTTGACAAACAAT
* * * *
418393 GTCATTTCCTCTTCATCGTCATCTTTATCTGAATCACTCTCATCTTTTTTGGATTTGAAAGCAAC
643 GTCATCTCCTCGTCATCGTCATCTTCATCCGAATCACTCTCATC-TTTTT-GATTTGAAAGCAAC
* * *
418458 TC-CA-ATGTTTTTATTCTTCTCC-T-T-CTCCTTTGGTGTCTC-TTTAATCTTACGAGGTCCAC
706 TCTCACA--TTCTTATTCTTCTCCATATCCTCCTTTGG-CTCGCATTTAATC-T-CGAGGTCCAC
* * * * *
418517 CTCATCTTCAAGCATCATTTCATGAGTGATGAGGAACCGATTAGCTCTTCAAGAGTTAAGGACTT
766 CTCATCTTCAAGCATCATTTCATGAGTGAGGA-GAACCAATAAGCTCATCAAGAGTCAAGGACTT
418582 TA
830 TA
418584 GGTTCTTATC
Statistics
Matches: 744, Mismatches: 74, Indels: 33
0.87 0.09 0.04
Matches are distributed among these distances:
907 11 0.01
908 33 0.04
909 281 0.38
910 246 0.33
911 173 0.23
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (898 bp):
TAAAACTCTTCCTACAAAGTTCGATTTTGAATTCTCTCCATTTTCAAAACATTTTGTTAGAACTA
TATCAAAGAAGCTTTAAGATCATCAATTTTCTCCTGATAATCATCATAGACATTTAAAACTAAAT
TTTACAAATCCGAATTTTTCTTTTCAAACTCTTCTAGTTTGATTTGCAAATCTTTGATTTTACTT
TCAAAATCATTGTTCGTCTTGGATATGAGATTATTTTCATTCTTCAATTTTGAAATATCATTTTT
ATATTTAAAAACAATTTTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAA
GACAAATCTCTAAATCAAATGAGTTAGAGGTTACCTCAGAATCTTCCCCCAATACCATCAAGAAC
AAGTTTGCTACTTCTTGTTCCTCTTCATATGAACCTTCTTCATCGCTCCATGTAGCCACATAAGC
CTTGTGCTTATTCTTTGATTGACCCTTCTCTTCAATTATGGGCAATCATATTTGACATGCCCCAA
CTTTTTGCATTCATAGCAAATGATAGGGTCATTTTCTTTTGGTTCATTCTTTAAGACTTCATTTC
ATTTGAATTTTCTTCCTCGGTAAGGCCTCATATTTTCTGAACCGTTTGACAAACAATGTCATCTC
CTCGTCATCGTCATCTTCATCCGAATCACTCTCATCTTTTTGATTTGAAAGCAACTCTCACATTC
TTATTCTTCTCCATATCCTCCTTTGGCTCGCATTTAATCTCGAGGTCCACCTCATCTTCAAGCAT
CATTTCATGAGTGAGGAGAACCAATAAGCTCATCAAGAGTCAAGGACTTTAAGTCCTTTGAACCC
ATAGACTTGTACGATCTTCCATTAGAGATTCTCGACCGATATATTGAAGTGAG
Found at i:420134 original size:20 final size:20
Alignment explanation
Indices: 420109--420154 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
420099 TTCATGGTGC
420109 ATGCATGCATCGGTGCATCG
1 ATGCATGCATCGGTGCATCG
* *
420129 ATGCATGGATTGGTGCATCG
1 ATGCATGCATCGGTGCATCG
*
420149 GTGCAT
1 ATGCAT
420155 CACTTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGCATGCATCGGTGCATCG
Found at i:433267 original size:22 final size:22
Alignment explanation
Indices: 433252--433294 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
433242 TGGCTAATGG
433252 CCGCCTCCAACGTGGCCAACGA
1 CCGCCTCCAACGTGGCCAACGA
*
433274 CTGCCTCCAACGTGGCCAACG
1 CCGCCTCCAACGTGGCCAACG
433295 GCTAACAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.23, T:0.12
Consensus pattern (22 bp):
CCGCCTCCAACGTGGCCAACGA
Found at i:433430 original size:29 final size:30
Alignment explanation
Indices: 433367--433431 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
433357 AAGCTATTGG
* * *
433367 TATAATTGAAACGAAAATCAAAGTTCAGTGT
1 TATAATTGAAAC-AAAATAAAAGTTCAATGA
*
433398 TATAATTGAAA-AAATTAAAAGTTCAATGA
1 TATAATTGAAACAAAATAAAAGTTCAATGA
433427 TATAA
1 TATAA
433432 ACGATACAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 19 0.63
31 11 0.37
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (30 bp):
TATAATTGAAACAAAATAAAAGTTCAATGA
Found at i:442925 original size:14 final size:14
Alignment explanation
Indices: 442906--442934 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
442896 AATTAATCAT
442906 TCAGTATCATACAA
1 TCAGTATCATACAA
442920 TCAGTATCATACAA
1 TCAGTATCATACAA
442934 T
1 T
442935 GATCATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
TCAGTATCATACAA
Found at i:442941 original size:11 final size:13
Alignment explanation
Indices: 442908--442944 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
442898 TTAATCATTC
442908 AGTATCATACAAT
1 AGTATCATACAAT
442921 CAGTATCATACAAT
1 -AGTATCATACAAT
442935 -G-ATCATACAA
1 AGTATCATACAA
442945 GGAAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
14 13 0.57
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (13 bp):
AGTATCATACAAT
Found at i:443971 original size:5 final size:5
Alignment explanation
Indices: 443961--443994 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
443951 TCTATAAAAT
443961 TATTA TATTA TATTA TATTA TATTA T-TTA T-TTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
443995 TTTTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:445052 original size:10 final size:10
Alignment explanation
Indices: 445039--445111 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 10
445029 TAAAATTTTA
445039 TTTTATTATT
1 TTTTATTATT
*
445049 TTTT-CTATT
1 TTTTATTATT
*
445058 TTTTATTAAT
1 TTTTATTATT
445068 TTTTATTTATCT
1 TTTTA-TTAT-T
445080 TTGTTATCTATT
1 TT-TTAT-TATT
* *
445092 GTAT-TTATT
1 TTTTATTATT
445101 TTATTATTATT
1 TT-TTATTATT
445112 ATTATATTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
9 13 0.27
10 14 0.29
11 9 0.19
12 6 0.12
13 6 0.12
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTTATTATT
Found at i:445096 original size:22 final size:20
Alignment explanation
Indices: 445035--445111 Score: 63
Period size: 22 Copynumber: 3.9 Consensus size: 20
445025 TTTTTAAAAT
445035 TTTATTTTATTATT-TT-T-
1 TTTATTTTATTATTATTGTA
* *
445052 TCTATTTT-TTATTAATTTTTA
1 TTTATTTTATTATT-A-TTGTA
*
445073 TTTATCTTTGTTATCTATTGTA
1 TTTAT-TTTATTAT-TATTGTA
445095 TTTATTTTATTATTATT
1 TTTATTTTATTATTATT
445112 ATTATATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
16 5 0.10
17 7 0.15
19 2 0.04
20 5 0.10
21 11 0.23
22 12 0.25
23 5 0.10
24 1 0.02
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (20 bp):
TTTATTTTATTATTATTGTA
Found at i:445236 original size:12 final size:12
Alignment explanation
Indices: 445219--445245 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
445209 AAATCAAATT
445219 TTTAAATTTTAA
1 TTTAAATTTTAA
445231 TTTAAATTTTAA
1 TTTAAATTTTAA
445243 TTT
1 TTT
445246 TCACAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:445840 original size:20 final size:20
Alignment explanation
Indices: 445815--445884 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
445805 ATTTTCTGTT
445815 TATTTTCATTAACTTGCAAA
1 TATTTTCATTAACTTGCAAA
445835 TATTTTC---AA---GCAAA
1 TATTTTCATTAACTTGCAAA
*
445849 TATTTTCATTCACTTGCAAA
1 TATTTTCATTAACTTGCAAA
*
445869 TATTTTCATTCACTTG
1 TATTTTCATTAACTTG
445885 GTTATTTCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 12 0.28
17 3 0.07
20 28 0.65
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
TATTTTCATTAACTTGCAAA
Found at i:445849 original size:14 final size:14
Alignment explanation
Indices: 445830--445856 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
445820 TCATTAACTT
445830 GCAAATATTTTCAA
1 GCAAATATTTTCAA
445844 GCAAATATTTTCA
1 GCAAATATTTTCA
445857 TTCACTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
GCAAATATTTTCAA
Found at i:446358 original size:40 final size:40
Alignment explanation
Indices: 446312--446392 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
446302 ATCCTACGAT
446312 AACATTTATTATCTTTAATTGGATAGAAAATAAACAAAAG
1 AACATTTATTATCTTTAATTGGATAGAAAATAAACAAAAG
446352 AACATTTATTATCTTTAATTGGATAGAAAATAAACAAAAG
1 AACATTTATTATCTTTAATTGGATAGAAAATAAACAAAAG
446392 A
1 A
446393 GAAGCTGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (40 bp):
AACATTTATTATCTTTAATTGGATAGAAAATAAACAAAAG
Found at i:446624 original size:27 final size:27
Alignment explanation
Indices: 446586--446649 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
446576 AAAACAAAGC
* * *
446586 AAAATAAGTTTAATATTTTTATATTTT
1 AAAATAAATTTAACATTTTTAAATTTT
*
446613 TAAATAAATTTAACATTTTTAAATTTT
1 AAAATAAATTTAACATTTTTAAATTTT
*
446640 AAAACAAATT
1 AAAATAAATT
446650 AAAATAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
AAAATAAATTTAACATTTTTAAATTTT
Found at i:446867 original size:32 final size:31
Alignment explanation
Indices: 446822--446885 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
446812 GGTTGATGGC
*
446822 TAACTTTTACACATTG-GAAAATTCATCTTTGG
1 TAACTTGTACACA-TGAG-AAATTCATCTTTGG
* *
446854 TAACTTGTGCACATGAGAATTTCATCTTTGG
1 TAACTTGTACACATGAGAAATTCATCTTTGG
446885 T
1 T
446886 CCCTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (31 bp):
TAACTTGTACACATGAGAAATTCATCTTTGG
Found at i:449254 original size:14 final size:14
Alignment explanation
Indices: 449235--449265 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
449225 TGGCAGAGCA
449235 TATGAATCGAACAC
1 TATGAATCGAACAC
449249 TATGAATCGAACAC
1 TATGAATCGAACAC
449263 TAT
1 TAT
449266 TGGAGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (14 bp):
TATGAATCGAACAC
Found at i:456397 original size:31 final size:31
Alignment explanation
Indices: 456340--456404 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
456330 CAGTTATTAT
*
456340 ATTTGGTCTTTAATATTTTTATATTTAATCA
1 ATTTGGTCTTTAATATTTTTATATTTAATAA
*
456371 ATTTGGTC-TTAATTTTAATTTA-ATTTAATAA
1 ATTTGGTCTTTAATATT--TTTATATTTAATAA
456402 ATT
1 ATT
456405 AACCTTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.23
31 19 0.63
32 4 0.13
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (31 bp):
ATTTGGTCTTTAATATTTTTATATTTAATAA
Found at i:459928 original size:46 final size:46
Alignment explanation
Indices: 459861--459954 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
459851 AACCAAATCT
459861 CTCCATGATTTAATATGATTTATAGTCAATTGGTTATACCACTTGG
1 CTCCATGATTTAATATGATTTATAGTCAATTGGTTATACCACTTGG
459907 CTCCATGATTTAATATGATTTATAGTCAATTGGTTATACCACTTGG
1 CTCCATGATTTAATATGATTTATAGTCAATTGGTTATACCACTTGG
459953 CT
1 CT
459955 GCAGACCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (46 bp):
CTCCATGATTTAATATGATTTATAGTCAATTGGTTATACCACTTGG
Found at i:463795 original size:16 final size:15
Alignment explanation
Indices: 463774--463813 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
463764 CTTACTCTTG
*
463774 GAGAGGAAATGAAGAA
1 GAGAGGAAA-GAAAAA
463790 GAGAGGAAAGAAAAA
1 GAGAGGAAAGAAAAA
463805 GAAGAGGAA
1 G-AGAGGAA
463814 TATATTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.03
Consensus pattern (15 bp):
GAGAGGAAAGAAAAA
Found at i:468268 original size:22 final size:22
Alignment explanation
Indices: 468238--468304 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
468228 AGTTGATGGT
* * *
468238 TACATAGGTCCTTTGGGACATA
1 TACACAGGTCCTTCGGGACAAA
*
468260 TACAGAGGTCCTTCGGGACAAA
1 TACACAGGTCCTTCGGGACAAA
* *
468282 TACACAGGTCCTTCAGGAAAAA
1 TACACAGGTCCTTCGGGACAAA
468304 T
1 T
468305 TTCACATGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (22 bp):
TACACAGGTCCTTCGGGACAAA
Found at i:475000 original size:22 final size:22
Alignment explanation
Indices: 474970--475036 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
474960 AGTCGAGGGT
* *
474970 TACATAGGTCCTTCGGGACATA
1 TACACAGGTCCTTCGGGACAAA
* *
474992 TACAGAGGTCATTCGGGACAAA
1 TACACAGGTCCTTCGGGACAAA
*
475014 TACACAGGTCCTTAGGGACAAA
1 TACACAGGTCCTTCGGGACAAA
475036 T
1 T
475037 TTCATATGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (22 bp):
TACACAGGTCCTTCGGGACAAA
Found at i:482878 original size:64 final size:65
Alignment explanation
Indices: 482790--482915 Score: 161
Period size: 64 Copynumber: 2.0 Consensus size: 65
482780 TTTTGACAAA
* * * *
482790 ATATAATATATAATTTTTAGAAAACAATTTTCG-AAA-GTTTGTATATTATATGGTTTTTTAAAA
1 ATATAATATATAAGTTTTAGAAAAC-ATTTT-GAAAACATTTATATATTATATAG-TTTTTAAAA
482853 TAT
63 TAT
482856 ATATAATATAT-AGTTTT-GAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAA
1 ATATAATATATAAGTTTTAGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAA
482916 CATTTTGAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 1 0.02
63 17 0.31
64 20 0.37
65 5 0.09
66 11 0.20
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (65 bp):
ATATAATATATAAGTTTTAGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAATAT
Found at i:482883 original size:11 final size:11
Alignment explanation
Indices: 482869--482893 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
482859 TAATATATAG
482869 TTTTGAAAACA
1 TTTTGAAAACA
482880 TTTTGAAAACA
1 TTTTGAAAACA
482891 TTT
1 TTT
482894 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:482933 original size:74 final size:73
Alignment explanation
Indices: 482844--483127 Score: 349
Period size: 74 Copynumber: 3.8 Consensus size: 73
482834 ATTATATGGT
* * * *
482844 TTTTTAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGTT
1 TTTTGAAAATTTATATAATATATAGTTTTAAAAACATTTTGAAAACA-TTATATAATATATAGTT
482909 TTTAAAACA
65 TTTAAAACA
* *
482918 TTTTGAAAATTTATATAATATATAGTTTTTAAAACATTTTGAAAAC-TTATATAGTATATAGTTT
1 TTTTGAAAATTTATATAATATATAGTTTTAAAAACATTTTGAAAACATTATATAATATATAG-TT
482982 TTTAAAACAA
65 TTTAAAAC-A
* * * * *
482992 TTTTGAAAAATTATATAATATATAATTTTAAAAACGTTTTTTTGAAAA-ATTATATAACACATAG
1 TTTTGAAAATTTATATAATATATAGTTTTAAAAAC---ATTTTGAAAACATTATATAATATATAG
*
483056 TTTTAAAAACA
63 TTTTTAAAACA
483067 TTTTTGGAAAATTTATATAATATATAGTTTTAAAAACATTTTTTGAAAAC-TTATATAATAT
1 -TTTT-GAAAATTTATATAATATATAGTTTTAAAAACA--TTTTGAAAACATTATATAATAT
483128 TTTTAAAACT
Statistics
Matches: 182, Mismatches: 17, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
72 14 0.08
73 10 0.05
74 76 0.42
75 1 0.01
76 31 0.17
77 50 0.27
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (73 bp):
TTTTGAAAATTTATATAATATATAGTTTTAAAAACATTTTGAAAACATTATATAATATATAGTTT
TTAAAACA
Done.