Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold28
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: 2815568
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.30
Warning! 166732 characters in sequence are not A, C, G, or T
File 3 of 16
Found at i:362086 original size:42 final size:43
Alignment explanation
Indices: 361992--362087 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 43
361982 ATAATCCAAT
* * *
361992 AAAGCAAGAGATTATGATGCAAGAAAAACAAACACAGTAGAAA
1 AAAGCAACAGATTATAATGCAAGAAAAACAAACACACTAGAAA
* * *
362035 AAATG-AACAGATTATAATG-AA-ACACAACAAACACACTATAAC
1 AAA-GCAACAGATTATAATGCAAGA-AAAACAAACACACTAGAAA
362077 AAAGCAACAGA
1 AAAGCAACAGA
362088 CAAGGGCTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.05
42 26 0.59
43 15 0.34
44 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (43 bp):
AAAGCAACAGATTATAATGCAAGAAAAACAAACACACTAGAAA
Found at i:364192 original size:18 final size:19
Alignment explanation
Indices: 364169--364207 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
364159 TTATTTACAA
*
364169 TATTTTTTAATTA-TAAAT
1 TATTTTTAAATTATTAAAT
364187 TATTTTTAAATTATTAAAT
1 TATTTTTAAATTATTAAAT
364206 TA
1 TA
364208 AAATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAATTATTAAAT
Found at i:364394 original size:19 final size:19
Alignment explanation
Indices: 364370--364427 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
364360 ATGTTAAATT
364370 TATAT-TTAA-TTTTATTA
1 TATATATTAACTTTTATTA
364387 TATATATTAACTTTTTATTA
1 TATATATTAAC-TTTTATTA
* * *
364407 TGTTATATTAAGTGTTATTA
1 T-ATATATTAACTTTTATTA
364427 T
1 T
364428 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
20 17 0.50
21 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (19 bp):
TATATATTAACTTTTATTA
Found at i:364404 original size:20 final size:21
Alignment explanation
Indices: 364379--364417 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
364369 TTATATTTAA
364379 TTTTATTAT-ATATATTAACT
1 TTTTATTATGATATATTAACT
*
364399 TTTTATTATGTTATATTAA
1 TTTTATTATGATATATTAA
364418 GTGTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTATTATGATATATTAACT
Found at i:364761 original size:26 final size:26
Alignment explanation
Indices: 364715--364770 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
364705 TTTAAATTAT
*
364715 ATTTAATTAAATATAACTTAATAATA
1 ATTTAATTAAATATAACTTAAAAATA
* *
364741 ATTTAATTTAATAGTTA-TTAAAAATA
1 ATTTAATTAAATA-TAACTTAAAAATA
364767 ATTT
1 ATTT
364771 TAAGATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTTAATTAAATATAACTTAAAAATA
Found at i:364961 original size:29 final size:31
Alignment explanation
Indices: 364903--364959 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
364893 TAGTTTTAGA
*
364903 AAGTAAATATATTTTTAATTAAATAAAAATT
1 AAGTAAATATATTTTTAACTAAATAAAAATT
364934 AAGTAAA-AT-TTTTTAACT-AATAAAAA
1 AAGTAAATATATTTTTAACTAAATAAAAA
364960 ATAAATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 8 0.32
30 2 0.08
31 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (31 bp):
AAGTAAATATATTTTTAACTAAATAAAAATT
Found at i:365074 original size:30 final size:32
Alignment explanation
Indices: 365038--365111 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
365028 TATTATATTG
* *
365038 ATATATTTTATTATATT-ATAA-TCATATTTA
1 ATATATTTTATTATATTAATAATTAATATTAA
365068 ATATATTTTATATTATATTAATAATTAATATTAA
1 ATATA-TTT-TATTATATTAATAATTAATATTAA
*
365102 ATAAATTTTA
1 ATATATTTTA
365112 AAAAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 5 0.14
31 3 0.08
32 11 0.30
33 7 0.19
34 11 0.30
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
ATATATTTTATTATATTAATAATTAATATTAA
Found at i:365087 original size:32 final size:34
Alignment explanation
Indices: 365038--365111 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
365028 TATTATATTG
* *
365038 ATATA-TTT-TATTATATT-ATAA-TCATATTTA
1 ATATATTTTATATTATATTAATAATTAATATTAA
365068 ATATATTTTATATTATATTAATAATTAATATTAA
1 ATATATTTTATATTATATTAATAATTAATATTAA
*
365102 ATAAATTTTA
1 ATATATTTTA
365112 AAAAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.14
31 3 0.08
32 9 0.24
33 4 0.11
34 16 0.43
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (34 bp):
ATATATTTTATATTATATTAATAATTAATATTAA
Found at i:365095 original size:27 final size:26
Alignment explanation
Indices: 365017--365098 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
365007 ACTTGATAAT
*
365017 TTTTATATGTATATTAT-ATTGATATATT
1 TTTTATAT-TATATTATAATT-A-ATATA
* *
365045 TTATTATATTATAATCATATTTAATATA
1 TT-TTATATTAT-ATTATAATTAATATA
365073 TTTTATATTATATTAATAATTAATAT
1 TTTTATATTATATT-ATAATTAATAT
365099 TAAATAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 2 0.04
27 19 0.42
28 11 0.24
29 11 0.24
30 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTTATATTATATTATAATTAATATA
Found at i:372021 original size:17 final size:17
Alignment explanation
Indices: 371995--372027 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
371985 AAGAGGTTAT
371995 AATTTAAATA-TAAAAA
1 AATTTAAATATTAAAAA
372011 AATTATAAATATTAAAA
1 AATT-TAAATATTAAAA
372028 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTAAATATTAAAAA
Found at i:373222 original size:14 final size:14
Alignment explanation
Indices: 373203--373233 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
373193 GTAATATCGT
373203 TAATAATATAATAA
1 TAATAATATAATAA
373217 TAATAATATAATAA
1 TAATAATATAATAA
373231 TAA
1 TAA
373234 AATGTATGGG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:374934 original size:13 final size:13
Alignment explanation
Indices: 374916--374953 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
374906 ATAAACACCC
374916 TGTATCGATACAG
1 TGTATCGATACAG
*
374929 TGTATCGATACAT
1 TGTATCGATACAG
374942 TGTATCGATACA
1 TGTATCGATACA
374954 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:377047 original size:15 final size:15
Alignment explanation
Indices: 377027--377057 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
377017 ATTTCGTTTG
*
377027 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
377042 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
377057 G
1 G
377058 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:381137 original size:13 final size:13
Alignment explanation
Indices: 381119--381144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
381109 CAATTTTTTG
381119 TGTATCGATACAT
1 TGTATCGATACAT
381132 TGTATCGATACAT
1 TGTATCGATACAT
381145 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:381209 original size:21 final size:21
Alignment explanation
Indices: 381183--381258 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
381173 CTGCCAAGAA
*
381183 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
381204 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
381224 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
381245 ATGTATCGATACAT
1 ATGTATCGATACAT
381259 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:381229 original size:20 final size:20
Alignment explanation
Indices: 381204--381276 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
381194 CATCTTTTTT
381204 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
381224 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
381245 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
381265 ATGTATCGATAC
1 ATGTATCGATAC
381277 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:381240 original size:41 final size:41
Alignment explanation
Indices: 381183--381276 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
381173 CTGCCAAGAA
*
381183 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
381224 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
381265 ATGTATCGATAC
1 ATGTATCGATAC
381277 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:386130 original size:13 final size:13
Alignment explanation
Indices: 386112--386136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
386102 CATAAAATGT
386112 TGTATCGATACAA
1 TGTATCGATACAA
386125 TGTATCGATACA
1 TGTATCGATACA
386137 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:386218 original size:13 final size:13
Alignment explanation
Indices: 386200--386224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
386190 ATTACTCAAA
386200 TGTATCGATACAT
1 TGTATCGATACAT
386213 TGTATCGATACA
1 TGTATCGATACA
386225 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:386289 original size:52 final size:52
Alignment explanation
Indices: 386233--386348 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
386223 CACTGATCTT
* *
386233 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
386285 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
386337 TGTATCGATACA
1 TGTATCGATACA
386349 CAACTTTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:393290 original size:14 final size:14
Alignment explanation
Indices: 393280--393307 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
393270 AGTAAAAAGT
393280 AAACACAAAAAAAA
1 AAACACAAAAAAAA
393294 AAACACAAAAAAAA
1 AAACACAAAAAAAA
393308 TGCAAAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:393639 original size:1 final size:1
Alignment explanation
Indices: 393633--393667 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
393623 CCTACTCTTC
* *
393633 AAAAAAAAAAAAAACAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
393668 CCCCTTTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:393652 original size:15 final size:15
Alignment explanation
Indices: 393632--393660 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
393622 ACCTACTCTT
393632 CAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAA
393647 CAAAAAAAAAAAAA
1 CAAAAAAAAAAAAA
393661 GAAAAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:393665 original size:13 final size:14
Alignment explanation
Indices: 393634--393667 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
393624 CTACTCTTCA
393634 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
393648 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAC
393662 AAAAAA
1 AAAAAA
393668 CCCCTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:394739 original size:30 final size:30
Alignment explanation
Indices: 394609--394772 Score: 197
Period size: 31 Copynumber: 5.3 Consensus size: 30
394599 ATACCTTTTT
*
394609 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
394640 AAAGTCCACGAC-CTAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTC-AGTGGC-ATCTTTTCTC
*
394671 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-C-TC
394703 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
394733 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
*
394764 AAAGCCCAC
1 AAAGTCCAC
394773 AGCTTCGTGG
Statistics
Matches: 120, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
30 31 0.26
31 64 0.53
32 25 0.21
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:394751 original size:93 final size:93
Alignment explanation
Indices: 394606--394825 Score: 252
Period size: 93 Copynumber: 2.3 Consensus size: 93
394596 CAAATACCTT
394606 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACCTAGTGGCAATCTCTGC-T
1 TTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACCTAGTGGC-ATCTCTGCTT
* *
394670 CAAAGTCCAC-GAC-TCAGTGGCATCTTTTCC
64 CAAAGCCCACAG-CTTC-GTGGCACCTTTTCC
* * * *
394700 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGA-CTCAGTGGCATTTTTTCTT
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACCT-AGTGGCATCTCTGCTT
394763 CAAAGCCCACAGCTTCGTGGCACCTTTTCC
64 CAAAGCCCACAGCTTCGTGGCACCTTTTCC
* * * *
394793 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGTCCACGACTCAGTGGCATC-TCTTCT
394826 TTTCAAAGCC
Statistics
Matches: 108, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
92 9 0.08
93 68 0.63
94 29 0.27
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACCTAGTGGCATCTCTGCTTCA
AAGCCCACAGCTTCGTGGCACCTTTTCC
Found at i:394928 original size:132 final size:132
Alignment explanation
Indices: 394738--395437 Score: 794
Period size: 132 Copynumber: 5.2 Consensus size: 132
394728 GTCTCAAAGT
* * * *
394738 CCACGACTCAGTGGCA-TTTTTTCTTCAAAGCCCACAGCTTCGTGGCACCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
* *
394801 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTA
66 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTA
*
394866 AGT
130 AGC
*
394869 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAGCTTCGTGGCACCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
* *
394933 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTA
66 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTA
*
394998 AGT
130 AGC
* * *
395001 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAA
1 CCACAACTCCGTGGCACCTTTTTC--TTCAAAGCCCACAACTTCGTGGCACC-TTTTCTCTTTAA
* *
395066 AGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
63 AGCCCACAACTCCGTGGCAC-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTTCCC
395131 TTTTCAAAGC
126 -TTT--AAGC
** *
395141 CCACAACTCCGTGGCACCTTTTTCTTTTGAAGCCCACAAC-TCTGTGGCACACTTTTTCTTTTTA
1 CCACAACTCCGTGGCACCTTTTTC-TTCAAAGCCCACAACTTC-GTGGCAC-C-TTTTCTCTTTA
*
395205 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTT
62 AAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCA-CTT-TTT
395270 T-CCTTCTAAGC
122 TCCCTT-TAAGC
* * *
395281 CCACAACTCCGTGGCATCC---TT-TT--AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-A
1 CCACAACTCCGTGGCA-CCTTTTTCTTCAAAGCCCACAACTTCGTGGCAC-CTTTTC-TCTTTAA
* * *
395339 AGTCCATAACTCCGTGGCACCTTTTTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
63 AGCCCACAACTCCGTGGCACC--TTTTTCTTTTC----AAAGCCCACAACTCCGTGGCACT-TTT
395404 TTCCCTTTTAAGC
121 TTCCC-TTTAAGC
*
395417 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
395438 CTCCCTTCCT
Statistics
Matches: 510, Mismatches: 27, Indels: 57
0.86 0.05 0.10
Matches are distributed among these distances:
131 14 0.03
132 143 0.28
133 24 0.05
134 49 0.10
135 13 0.03
136 71 0.14
137 36 0.07
138 12 0.02
139 22 0.04
140 85 0.17
141 4 0.01
142 31 0.06
143 6 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (132 bp):
CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCCCTTTAA
GC
Found at i:395022 original size:35 final size:33
Alignment explanation
Indices: 394733--395437 Score: 731
Period size: 34 Copynumber: 20.8 Consensus size: 33
394723 ATTTTGTCTC
* * * * *
394733 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
394764 AAAGCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
394796 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
394829 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
394865 -AAGTCCACAACTCCGTGGCACCTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
394896 AAAGCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
394928 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
394961 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
394997 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
395030 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
395064 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
395099 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
395135 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
395169 GAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
395204 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTT
*
395241 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
*
395277 -AAGCCCACAACTCCGTGGCA-----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
395304 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
395338 -AAGTCCATAACTCCGTGGCACCTTTTTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC-------TTTTTCTTTT
395377 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
395413 -AAGCCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
395438 CTCCCTTCCT
Statistics
Matches: 583, Mismatches: 48, Indels: 83
0.82 0.07 0.12
Matches are distributed among these distances:
27 23 0.04
28 1 0.00
31 28 0.05
32 67 0.11
33 39 0.07
34 202 0.35
35 109 0.19
36 26 0.04
37 54 0.09
38 4 0.01
39 3 0.01
40 20 0.03
41 7 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:395330 original size:27 final size:27
Alignment explanation
Indices: 395270--395323 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
395260 CACCTTCTTT
*
395270 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
395297 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
395324 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:395378 original size:39 final size:43
Alignment explanation
Indices: 395325--395405 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 43
395315 TCCGTGGCAC
* *
395325 TTTTTTCATCTTT-AAGTCCATAACTCCGTGGCAC-CTTTTTT
1 TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTT
395366 TTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
395406 CCCTTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 3 0.08
40 20 0.56
41 13 0.36
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.47
Consensus pattern (43 bp):
TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTT
Found at i:395390 original size:40 final size:38
Alignment explanation
Indices: 395298--395437 Score: 132
Period size: 35 Copynumber: 3.8 Consensus size: 38
395288 TCCGTGGCAT
* **
395298 CCTTTTAAGCCCATAACTCCGTGGCACTTTT-TTCAT-
1 CCTTTTAAGCCCACAACTCCGTGGCACTTTTCTTTTTC
* * * *
395334 -C-TTTAAGTCCATAACTCCGTGGCACCTTTTTTTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCA-CTTTTCTTTTTC
*
395371 TCTTTTAAAGCCCACAACTCCGTGGCAC---TCTTTTTC
1 CCTTTT-AAGCCCACAACTCCGTGGCACTTTTCTTTTTC
395407 CCTTTTAAGCCCACAACTCCGTGGCATCTTT
1 CCTTTTAAGCCCACAACTCCGTGGCA-CTTT
395438 CTCCCTTCCT
Statistics
Matches: 86, Mismatches: 8, Indels: 17
0.77 0.07 0.15
Matches are distributed among these distances:
34 22 0.26
35 26 0.30
36 15 0.17
38 1 0.01
39 4 0.05
40 18 0.21
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (38 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTTTTCTTTTTC
Found at i:395443 original size:34 final size:36
Alignment explanation
Indices: 395372--395457 Score: 131
Period size: 35 Copynumber: 2.4 Consensus size: 36
395362 TTTTTTTTTT
*
395372 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
395408 CTTTT-AAGCCCACAACTCCGTGGCA-TCTTTCTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
*
395442 CTTCCTAAAGCCCACA
1 CTT-TTAAAGCCCACA
395458 CAAGTCGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 11 0.24
35 21 0.46
36 14 0.30
ACGTcount: A:0.21, C:0.38, G:0.10, T:0.30
Consensus pattern (36 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
Found at i:395489 original size:33 final size:35
Alignment explanation
Indices: 395442--395511 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
395432 ATCTTTCTCC
395442 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
395476 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
395510 CT
1 CT
395512 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:395575 original size:49 final size:49
Alignment explanation
Indices: 395511--396130 Score: 778
Period size: 49 Copynumber: 12.8 Consensus size: 49
395501 GCAACCCTTC
* * *
395511 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
395560 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
395603 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
395652 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*** * *
395701 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
395750 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
395799 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
395848 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
395897 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
395946 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
395995 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
396038 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CATCTT-CATCTT
* * *
396090 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
396131 CTTTTTCTCA
Statistics
Matches: 487, Mismatches: 69, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
43 75 0.15
45 4 0.01
47 1 0.00
49 368 0.76
50 4 0.01
52 35 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:395730 original size:98 final size:98
Alignment explanation
Indices: 395506--396120 Score: 930
Period size: 98 Copynumber: 6.4 Consensus size: 98
395496 CGGTGGCAAC
* *
395506 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATG
*
395571 TAGCTGGCCTTGAATCAGCACATTGG------CA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
395599 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
395664 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
**
395697 CCTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
395762 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
395795 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
395860 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
395893 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
395958 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
395991 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGG---CA-C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
* * *
396050 AGCTGGCCTTGAATCAGCATATTGGCACATTTTCCA
66 AGCTGGCCTTGACTCAGCACATTGGCAC--CTT-CA
* * *
396086 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
396121 CGTTGACATC
Statistics
Matches: 494, Mismatches: 19, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
92 124 0.25
93 4 0.01
94 3 0.01
95 36 0.07
98 327 0.66
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:396059 original size:22 final size:22
Alignment explanation
Indices: 395991--396059 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
395981 GGCACCTTCA
*
395991 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
396013 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
396032 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
396056 CCTT
1 CCTT
396060 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 11 0.33
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:396105 original size:52 final size:54
Alignment explanation
Indices: 396035--396183 Score: 176
Period size: 52 Copynumber: 2.8 Consensus size: 54
396025 ACATTGGCAC
396035 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
396087 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * *
396142 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
396184 TCTTTATCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
52 37 0.47
54 6 0.08
55 35 0.45
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:396288 original size:52 final size:54
Alignment explanation
Indices: 396205--396357 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 54
396195 CTTCTCATCA
*
396205 TCATTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
* * ** * *
396258 -CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTC
* * * * *
396312 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
396358 TCTTTATCAC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
52 39 0.49
54 6 0.08
55 35 0.44
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
Found at i:396326 original size:174 final size:174
Alignment explanation
Indices: 396036--396596 Score: 1013
Period size: 174 Copynumber: 3.2 Consensus size: 174
396026 CATTGGCACC
396036 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
396101 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
396166 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
396210 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
396275 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
396340 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
* * *
396384 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
*
396446 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTCAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
* *
396511 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC-TT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
* *
396554 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
396597 CTTCATCATC
Statistics
Matches: 376, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
170 2 0.01
171 156 0.41
172 5 0.01
173 1 0.00
174 212 0.56
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (174 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
Found at i:398462 original size:13 final size:13
Alignment explanation
Indices: 398444--398468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
398434 CATAAAATGT
398444 TGTATCGATACAA
1 TGTATCGATACAA
398457 TGTATCGATACA
1 TGTATCGATACA
398469 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:398550 original size:13 final size:13
Alignment explanation
Indices: 398532--398556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
398522 ATTACTCAAA
398532 TGTATCGATACAT
1 TGTATCGATACAT
398545 TGTATCGATACA
1 TGTATCGATACA
398557 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:398621 original size:52 final size:52
Alignment explanation
Indices: 398565--398680 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
398555 CACTGATCTT
* *
398565 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
398617 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
398669 TGTATCGATACA
1 TGTATCGATACA
398681 CAACTTTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:405623 original size:14 final size:14
Alignment explanation
Indices: 405613--405639 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
405603 AGTAAAAAGT
405613 AAACACAAAAAAAA
1 AAACACAAAAAAAA
405627 AAACACAAAAAAA
1 AAACACAAAAAAA
405640 TGCAAAGGCA
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:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAACACAAAAAAAA
Found at i:405970 original size:1 final size:1
Alignment explanation
Indices: 405964--405999 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
405954 CCTACTCTTC
* *
405964 AAAAAAAAAAAAAACAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
406000 CCCCTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:405984 original size:14 final size:14
Alignment explanation
Indices: 405965--405999 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
405955 CTACTCTTCA
405965 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
405979 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAC
405993 AAAAAAA
1 AAAAAAA
406000 CCCCTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:406876 original size:13 final size:13
Alignment explanation
Indices: 406849--406882 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
406839 CATTATTTGC
*
406849 ATCATGCACCTCAT
1 ATCAT-CACCACAT
406863 ATCATCACCACAT
1 ATCATCACCACAT
406876 ATCATCA
1 ATCATCA
406883 TAACACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.35, C:0.35, G:0.03, T:0.26
Consensus pattern (13 bp):
ATCATCACCACAT
Found at i:407050 original size:63 final size:61
Alignment explanation
Indices: 406949--407106 Score: 173
Period size: 63 Copynumber: 2.6 Consensus size: 61
406939 ATACCCTTTT
406949 AAAGTCCACGACTCAGAGTGGCAATC-TTT-CTCAAAGTCCAAGAC-CTAGTGGAATCTCTG-CT
1 AAAGTCCACGACTC--AGTGGC-ATCTTTTCCTCAAAGTCCAAGACTC-AGTGGAAT-TCTGTCT
407010 C
61 C
* * * *
407011 AAAGTCCACGACCTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGA-CTCAGTGGCATCTTTTCC-TCAAAGTCCAAGACTCAGTGGAATTCTGTCTC
*
407074 AAAGTCCACGACTCAGTGGCAT-TTTTCTTCAAA
1 AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAA
407107 AGCCCACAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
60 7 0.08
61 14 0.17
62 26 0.31
63 36 0.43
64 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCAAGACTCAGTGGAATTCTGTCTC
Found at i:407093 original size:30 final size:29
Alignment explanation
Indices: 406949--407106 Score: 156
Period size: 30 Copynumber: 5.1 Consensus size: 29
406939 ATACCCTTTT
*
406949 AAAGTCCACGACTCAGAGTGGCAATCTTTCTC
1 AAAGTCCACGACTC--AGTGGC-ATTTTTCTC
* * * *
406981 AAAGTCCAAGAC-CTAGTGGAATCTCTGCTC
1 AAAGTCCACGACTC-AGTGGCAT-TTTTCTC
*
407011 AAAGTCCACGACCTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGA-CTCAGTGGCAT-TTTT-C-TC
407044 AAAGTCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTT-TCTC
407074 AAAGTCCACGACTCAGTGGCATTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTTC-TC
407104 AAA
1 AAA
407107 AGCCCACAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
29 4 0.04
30 50 0.47
31 16 0.15
32 25 0.23
33 12 0.11
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (29 bp):
AAAGTCCACGACTCAGTGGCATTTTTCTC
Found at i:407187 original size:35 final size:33
Alignment explanation
Indices: 407074--407773 Score: 616
Period size: 34 Copynumber: 20.6 Consensus size: 33
407064 ATTTTGTCTC
* * * **
407074 AAAGTCCACGACTCAGTGGCA--TTTTTCTTCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
407105 AAAGCCCACAAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAA-CTCCGTGGCACCTTTTTCTTTT
*
407138 AAAG-CCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
407170 CAAAAGCCCACAACTCCGTGGCACTTATTTTCATCTTT
1 --AAAGCCCACAACTCCGTGGCACCT-TTTTC-T-TTT
* *
407208 -AAGTCCACAACTCCGCTGGCACCTTTTTC-TTC
1 AAAGCCCACAACTCCG-TGGCACCTTTTTCTTTT
* * *
407240 AAAGCCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAG-CCCACAACTCCGTGGCACCTTTTTCTTTT
*
407273 AAAG-CCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
407305 CAAGCCCACAACT-CGTGGCCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGG-CACCTTTTTC-T-TTT
*
407340 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
407372 TAAGCCCACAACTCCGTGTGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTG-GCACCTTTTTCT-TTT
*
407407 AAAGCCCACAACTCTGTGGCACACTTTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C--TTTTTC-TTTT
407444 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
407480 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
407514 GAAGCCCACAACTCTGTGGCACACTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
*
407548 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT-TC-TTTT
*
407584 AAAGCCCACAACT-CGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
*
407619 -AAGCCCACAACTCCGTGGCA-----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
407646 -AAGCCCATAACTCCGTGGCA-CTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
407679 -AAGTCCATAAACTCCGTGGCACCTTTTTTTTTTTTTCTTTT
1 AAAGCCCA-CAACTCCGTGGCACC--------TTTTTCTTTT
*
407720 AAAGCCCACAACT-CGTGGCACTCTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTT-TCTTTT
407754 -AAGCCCACAACTCCGTGGCA
1 AAAGCCCACAACTCCGTGGCA
407774 TCTTCTCCCT
Statistics
Matches: 562, Mismatches: 50, Indels: 111
0.78 0.07 0.15
Matches are distributed among these distances:
27 23 0.04
28 1 0.00
31 38 0.07
32 47 0.08
33 104 0.19
34 128 0.23
35 91 0.16
36 42 0.07
37 55 0.10
38 4 0.01
40 8 0.01
41 8 0.01
42 7 0.01
43 6 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:407650 original size:27 final size:27
Alignment explanation
Indices: 407612--407665 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
407602 CACCTTCTTT
407612 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTCTAAGCCCACAACTCCGTGGCA
* *
407639 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTCTAAGCCCACAACTCCGTGGCA
407666 CTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTCTAAGCCCACAACTCCGTGGCA
Found at i:407721 original size:41 final size:43
Alignment explanation
Indices: 407667--407746 Score: 96
Period size: 41 Copynumber: 1.9 Consensus size: 43
407657 TCCGTGGCAC
*
407667 TTTTTCATCTTT-AAGTCCATAAACTCCGTGGCAC-CTTTTTTTT
1 TTTTTCATCTTTAAAGCCCA-AAACT-CGTGGCACTCTTTTTTTT
*
407710 TTTTTC-T-TTTAAAGCCCACAACTCGTGGCACTCTTTT
1 TTTTTCATCTTTAAAGCCCAAAACTCGTGGCACTCTTTT
407747 CCCTTTTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
40 8 0.24
41 12 0.36
42 7 0.21
43 6 0.18
ACGTcount: A:0.19, C:0.25, G:0.10, T:0.46
Consensus pattern (43 bp):
TTTTTCATCTTTAAAGCCCAAAACTCGTGGCACTCTTTTTTTT
Found at i:407758 original size:33 final size:34
Alignment explanation
Indices: 407715--407797 Score: 116
Period size: 33 Copynumber: 2.4 Consensus size: 34
407705 TTTTTTTTTT
*
407715 CTTTTAAAGCCCACAACT-CGTGGCACTCTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCA-TCTTCTCC
407749 CTTTT-AAGCCCACAACTCCGTGGCATCTTCTCC
1 CTTTTAAAGCCCACAACTCCGTGGCATCTTCTCC
*
407782 CTTCCTAAAGCCCACA
1 CTT-TTAAAGCCCACA
407798 CAAGTCGGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
33 22 0.50
34 13 0.30
35 9 0.20
ACGTcount: A:0.22, C:0.39, G:0.11, T:0.29
Consensus pattern (34 bp):
CTTTTAAAGCCCACAACTCCGTGGCATCTTCTCC
Found at i:407828 original size:32 final size:33
Alignment explanation
Indices: 407780--407850 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 33
407770 GGCATCTTCT
*
407780 CCCTTC-CTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCCAAAGCCCACACAAGTCGGTGGCAA
407812 -CCTTCTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCCAAAGCCCACACAAGTCGGTGGCAA
407844 CCCTTCT
1 CCCTTCT
407851 AAGCCCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 5 0.14
32 25 0.69
33 6 0.17
ACGTcount: A:0.25, C:0.39, G:0.17, T:0.18
Consensus pattern (33 bp):
CCCTTCTCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:407936 original size:49 final size:49
Alignment explanation
Indices: 407850--408470 Score: 666
Period size: 49 Copynumber: 12.8 Consensus size: 49
407840 GCAACCCTTC
* * *
407850 TAAGCCCAATATAGCTGGCCTCTGAATCAGCATATTGGCATCCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCT-TGAATCAGCACATTGGCAT-CTTCATCTT
407901 TAAGTCCAATGTAGCTGG-CTTGAATCAGCACATTGGCA----C--C-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
407942 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-GGCATCTTCATCTT
* * * *
407992 TAAGTCCAATGTAGCTGGCCTTGTGACTCAAGCAAATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCC-T-TGAATC-AGCACATTGGCATCTTCATCTT
*** * *
408044 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
408093 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
408142 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
408191 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
408240 TAAGTCCAATATCGCTGGCCTTTGAATCAGCATA-TGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCC-TTGAATCAGCACATTGGCATCTTCATCTT
* * *
408289 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
408338 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--C-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
408380 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCAATTTTCCATC-T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC-ATCTT-CATCTT
* * *
408429 TAAGTTCAATGTAGCTGGCCTATGAATCAGCACGTTGACATC
1 TAAGTCCAATGTAGCTGGCCT-TGAATCAGCACATTGGCATC
408471 CTTTTTCTCA
Statistics
Matches: 477, Mismatches: 69, Indels: 49
0.80 0.12 0.08
Matches are distributed among these distances:
41 44 0.09
42 24 0.05
43 5 0.01
44 1 0.00
45 1 0.00
47 2 0.00
48 11 0.02
49 266 0.56
50 51 0.11
51 31 0.06
52 34 0.07
53 7 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:407957 original size:41 final size:42
Alignment explanation
Indices: 407900--407978 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
407890 TCCTTCATCT
* * *
407900 TTAAGTCCAATGTAGCTGG-CTTGAATCAGCACATTGGCACC
1 TTAAGCCCAATATAGCTGGCCCTGAATCAGCACATTGGCACC
*
407941 TTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGG
1 TTAAGCCCAATATAGCTGGCCCTGAATCAGCACATTGG
407979 GCATCTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 17 0.52
42 16 0.48
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (42 bp):
TTAAGCCCAATATAGCTGGCCCTGAATCAGCACATTGGCACC
Found at i:408158 original size:98 final size:98
Alignment explanation
Indices: 407845--408460 Score: 809
Period size: 98 Copynumber: 6.4 Consensus size: 98
407835 CGGTGGCAAC
* *
407845 CCTTCTAAGCCCAATATAGCTGGCCTCTGAATCAGCATATTGGCATCCTTCATCTTTAAGTCCAA
1 CCTT-TAAGTCCAATATAGCTGGCCT-TGAATCAGCATATTGGCAT-CATCATCTTTAAGTCCAA
*
407910 TGTAGCTGG-CTTGAATCAGCACATTGG------CA
63 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
407939 CC-TTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGGCATCTTCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-GGCATCATCATCTTTAAGTCCAATG
*
408003 TAGCTGGCCTTGTGACTCAAGCAAATTGGCACCTTCA
65 TAGCTGGCC-T-TGACTC-AGCACATTGGCACCTTCA
**
408040 CCTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
408105 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
408138 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
408203 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
408236 CCTTTAAGTCCAATATCGCTGGCCTTTGAATCAGCATA-TGGCATCATCATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCC-TTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATG
408300 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
408334 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGG---CA-C--C-TTAAGTCC-ATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
* * **
408391 AGCTGGCCTTGAATCAGCATATTGGCAATTTTC-
66 AGCTGGCCTTGACTCAGCACATTGGC-ACCTTCA
* * *
408424 CATCTTAAGTTCAATGTAGCTGGCCTATGAATCAGCA
1 CCT-TTAAGTCCAATATAGCTGGCCT-TGAATCAGCA
408461 CGTTGACATC
Statistics
Matches: 483, Mismatches: 22, Indels: 36
0.89 0.04 0.07
Matches are distributed among these distances:
90 29 0.06
91 74 0.15
92 36 0.07
93 2 0.00
94 8 0.02
95 11 0.02
97 11 0.02
98 223 0.46
99 19 0.04
100 1 0.00
101 37 0.08
102 32 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:408628 original size:52 final size:54
Alignment explanation
Indices: 408545--408697 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 54
408535 CTTCTCATCA
*
408545 TCATTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
* * ** * *
408598 -CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTC
* * * * *
408652 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
408698 TCTTTATCAC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
52 39 0.49
54 6 0.08
55 35 0.44
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
Found at i:408676 original size:174 final size:174
Alignment explanation
Indices: 408379--408934 Score: 968
Period size: 174 Copynumber: 3.2 Consensus size: 174
408369 CATTGGCACC
408379 TTAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCA-ATTTTCCATC-TTAAGTTCAATGT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGT
408441 AGCTGGCCTATGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
66 AGCTGGCCT-TGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
408506 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTT
130 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTT
408551 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGT
408616 AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCAT
66 AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCAT
408681 GAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTT
131 GAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTT
* * *
408725 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAATAT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGT
*
408787 AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTCAAGCCCAATATCGTTGGCCAT
66 AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCAT
*
408852 GAATCAACATATTGGCATCTTTATCACTTTTCTCAT--TC-TTCT
131 GAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT-T
* *
408894 TTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
408935 CTTCATCATC
Statistics
Matches: 371, Mismatches: 7, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
168 2 0.01
169 39 0.11
171 117 0.32
172 13 0.04
173 31 0.08
174 147 0.40
175 22 0.06
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (174 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGT
AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCAT
GAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATTT
Found at i:410715 original size:21 final size:21
Alignment explanation
Indices: 410691--410732 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
410681 ATTACATTTT
*
410691 TTGTCCAAATGTATCGATACA
1 TTGTCAAAATGTATCGATACA
*
410712 TTGTTAAAATGTATCGATACA
1 TTGTCAAAATGTATCGATACA
410733 AGGTCCCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TTGTCAAAATGTATCGATACA
Found at i:410808 original size:13 final size:13
Alignment explanation
Indices: 410790--410814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
410780 CATAAAATGT
410790 TGTATCGATACAA
1 TGTATCGATACAA
410803 TGTATCGATACA
1 TGTATCGATACA
410815 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:410897 original size:13 final size:13
Alignment explanation
Indices: 410879--410903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
410869 ATTACTCAAA
410879 TGTATCGATACAT
1 TGTATCGATACAT
410892 TGTATCGATACA
1 TGTATCGATACA
410904 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:410968 original size:52 final size:52
Alignment explanation
Indices: 410912--411027 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
410902 CACTGATCTT
* *
410912 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
410964 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
411016 TGTATCGATACA
1 TGTATCGATACA
411028 CAACTTTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:417974 original size:15 final size:15
Alignment explanation
Indices: 417956--417984 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
417946 AGTAAAAAGT
417956 AAACACAAAAAAAAA
1 AAACACAAAAAAAAA
417971 AAACACAAAAAAAA
1 AAACACAAAAAAAA
417985 TGCAAAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACACAAAAAAAAA
Found at i:418317 original size:1 final size:1
Alignment explanation
Indices: 418311--418346 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
418301 CCTACTCTTC
* *
418311 AAAAAAAAAAAAAAACAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
418347 CCCCTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:419417 original size:30 final size:30
Alignment explanation
Indices: 419287--419450 Score: 197
Period size: 31 Copynumber: 5.3 Consensus size: 30
419277 ATACCTTTTT
*
419287 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
419318 AAAGTCCACGAC-CTAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTC-AGTGGC-ATCTTTTCTC
*
419349 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT-C-TC
419381 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
419411 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
*
419442 AAAGCCCAC
1 AAAGTCCAC
419451 AGCTTCGTGG
Statistics
Matches: 120, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
30 31 0.26
31 64 0.53
32 25 0.21
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:419429 original size:93 final size:93
Alignment explanation
Indices: 419284--419503 Score: 252
Period size: 93 Copynumber: 2.3 Consensus size: 93
419274 CAAATACCTT
419284 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACCTAGTGGCAATCTCTGC-T
1 TTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACCTAGTGGC-ATCTCTGCTT
* *
419348 CAAAGTCCAC-GAC-TCAGTGGCATCTTTTCC
64 CAAAGCCCACAG-CTTC-GTGGCACCTTTTCC
* * * *
419378 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGA-CTCAGTGGCATTTTTTCTT
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACCT-AGTGGCATCTCTGCTT
419441 CAAAGCCCACAGCTTCGTGGCACCTTTTCC
64 CAAAGCCCACAGCTTCGTGGCACCTTTTCC
* * * *
419471 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGTCCACGACTCAGTGGCATC-TCTTCT
419504 TTTCAAAGCC
Statistics
Matches: 108, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
92 9 0.08
93 68 0.63
94 29 0.27
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACCTAGTGGCATCTCTGCTTCA
AAGCCCACAGCTTCGTGGCACCTTTTCC
Found at i:419606 original size:132 final size:132
Alignment explanation
Indices: 419416--420116 Score: 787
Period size: 132 Copynumber: 5.2 Consensus size: 132
419406 GTCTCAAAGT
* * * *
419416 CCACGACTCAGTGGCA-TTTTTTCTTCAAAGCCCACAGCTTCGTGGCACCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
* *
419479 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTA
66 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTA
*
419544 AGT
130 AGC
*
419547 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAGCTTCGTGGCACCTTTTC-CTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
* *
419611 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTA
66 CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTA
*
419676 AGT
130 AGC
* * *
419679 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAA
1 CCACAACTCCGTGGCACCTTTTTC--TTCAAAGCCCACAACTTCGTGGCACC-TTTTCTCTTTAA
* *
419744 AGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
63 AGCCCACAACTCCGTGGCAC-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACT-TTTTTCCC
419809 TTTTCAAAGC
126 -TTT--AAGC
** *
419819 CCACAACTCCGTGGCACCTTTTTCTTTTGAAGCCCACAAC-TCTGTGGCACACTTTTTCTTTTTA
1 CCACAACTCCGTGGCACCTTTTTC-TTCAAAGCCCACAACTTC-GTGGCAC-C-TTTTCTCTTTA
*
419883 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTT
62 AAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCA-CTT-TTT
419948 T-CCTTCTAAGC
122 TCCCTT-TAAGC
* * *
419959 CCACAACTCCGTGGCATCC---TT-TT--AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT-A
1 CCACAACTCCGTGGCA-CCTTTTTCTTCAAAGCCCACAACTTCGTGGCAC-CTTTTC-TCTTTAA
* * *
420017 AGTCCATAACTCCGTGGCACCTTTTTTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
63 AGCCCACAACTCCGTGGCACC---TTTTTCTTTTC----AAAGCCCACAACTCCGTGGCACT-TT
420082 TTTCCCTTTTAAGC
120 TTTCCC-TTTAAGC
*
420096 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
420117 CTCCCTTCCT
Statistics
Matches: 510, Mismatches: 27, Indels: 58
0.86 0.05 0.10
Matches are distributed among these distances:
131 14 0.03
132 139 0.27
133 28 0.05
134 44 0.09
135 11 0.02
136 33 0.06
137 79 0.15
138 14 0.03
139 22 0.04
140 85 0.17
141 4 0.01
142 31 0.06
143 6 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (132 bp):
CCACAACTCCGTGGCACCTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCTCTTTAAAGC
CCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCCCTTTAA
GC
Found at i:419700 original size:35 final size:33
Alignment explanation
Indices: 419411--420116 Score: 724
Period size: 34 Copynumber: 20.8 Consensus size: 33
419401 ATTTTGTCTC
* * * * *
419411 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
419442 AAAGCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
419474 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
419507 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
419543 -AAGTCCACAACTCCGTGGCACCTTTTTC-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
419574 AAAGCCCACAGCTTCGTGGCACC-TTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
419606 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
419639 CAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
419675 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
419708 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTT
*
419742 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
419777 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
419813 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
419847 GAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTT
419882 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--C-TTTT
*
419919 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTT-CTTTT
*
419955 -AAGCCCACAACTCCGTGGCA-----TCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
419982 -AAGCCCATAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
* *
420016 -AAGTCCATAACTCCGTGGCACCTTTTTTTTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC--------TTTTTCTTTT
420056 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
420092 -AAGCCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
420117 CTCCCTTCCT
Statistics
Matches: 583, Mismatches: 48, Indels: 85
0.81 0.07 0.12
Matches are distributed among these distances:
27 23 0.04
28 1 0.00
31 28 0.05
32 67 0.11
33 39 0.07
34 202 0.35
35 109 0.19
36 26 0.04
37 54 0.09
38 4 0.01
40 3 0.01
41 20 0.03
42 7 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:420008 original size:27 final size:27
Alignment explanation
Indices: 419948--420001 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
419938 CACCTTCTTT
*
419948 TCCTTCTAAGCCCACAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
*
419975 TCCTTTTAAGCCCATAACTCCGTGGCA
1 TCCTTTTAAGCCCACAACTCCGTGGCA
420002 CTTTTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:420057 original size:40 final size:44
Alignment explanation
Indices: 420003--420084 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 44
419993 TCCGTGGCAC
* *
420003 TTTTTTCATCTTT-AAGTCCATAACTCCGTGGCAC-CTTTTTTT
1 TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTT
420045 TTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
420085 CCCTTTTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
40 3 0.08
41 20 0.56
42 13 0.36
ACGTcount: A:0.17, C:0.26, G:0.10, T:0.48
Consensus pattern (44 bp):
TTTTTTCATCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTT
Found at i:420122 original size:34 final size:36
Alignment explanation
Indices: 420051--420136 Score: 131
Period size: 35 Copynumber: 2.4 Consensus size: 36
420041 TTTTTTTTTT
*
420051 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
420087 CTTTT-AAGCCCACAACTCCGTGGCA-TCTTTCTCC
1 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
*
420121 CTTCCTAAAGCCCACA
1 CTT-TTAAAGCCCACA
420137 CAAGTCGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 11 0.24
35 21 0.46
36 14 0.30
ACGTcount: A:0.21, C:0.38, G:0.10, T:0.30
Consensus pattern (36 bp):
CTTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
Found at i:420168 original size:33 final size:35
Alignment explanation
Indices: 420121--420190 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
420111 ATCTTTCTCC
420121 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
420155 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
420189 CT
1 CT
420191 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:420254 original size:49 final size:49
Alignment explanation
Indices: 420190--420809 Score: 778
Period size: 49 Copynumber: 12.8 Consensus size: 49
420180 GCAACCCTTC
* * *
420190 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
420239 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
420282 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
420331 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*** * *
420380 TAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
420429 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
420478 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
420527 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
420576 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
420625 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
420674 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
420717 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG--CATCTT-CATCTT
* * *
420769 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
420810 CTTTTTCTCA
Statistics
Matches: 487, Mismatches: 69, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
43 75 0.15
45 4 0.01
47 1 0.00
49 368 0.76
50 4 0.01
52 35 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:420409 original size:98 final size:98
Alignment explanation
Indices: 420185--420799 Score: 930
Period size: 98 Copynumber: 6.4 Consensus size: 98
420175 CGGTGGCAAC
* *
420185 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATG
*
420250 TAGCTGGCCTTGAATCAGCACATTGG------CA
65 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * *
420278 CCTTTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
420343 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
**
420376 CCTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
420441 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
420474 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
420539 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
*
420572 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
420637 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
66 AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
* * * *
420670 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGG---CA-C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
* * *
420729 AGCTGGCCTTGAATCAGCATATTGGCACATTTTCCA
66 AGCTGGCCTTGACTCAGCACATTGGCAC--CTT-CA
* * *
420765 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
420800 CGTTGACATC
Statistics
Matches: 494, Mismatches: 19, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
92 124 0.25
93 4 0.01
94 3 0.01
95 36 0.07
98 327 0.66
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (98 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGT
AGCTGGCCTTGACTCAGCACATTGGCACCTTCA
Found at i:420738 original size:22 final size:22
Alignment explanation
Indices: 420670--420738 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
420660 GGCACCTTCA
*
420670 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
420692 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
420711 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
420735 CCTT
1 CCTT
420739 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 11 0.33
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:420784 original size:52 final size:54
Alignment explanation
Indices: 420714--420862 Score: 176
Period size: 52 Copynumber: 2.8 Consensus size: 54
420704 ACATTGGCAC
420714 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
420766 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * *
420821 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
420863 TCTTTATCAC
Statistics
Matches: 78, Mismatches: 16, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
52 37 0.47
54 6 0.08
55 35 0.45
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:420967 original size:52 final size:54
Alignment explanation
Indices: 420884--421036 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 54
420874 CTTCTCATCA
*
420884 TCATTTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
* * ** * *
420937 -CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTC
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTC
* * * * *
420991 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
421037 TCTTTATCAC
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
52 39 0.49
54 6 0.08
55 35 0.44
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (54 bp):
TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC
Found at i:421005 original size:174 final size:174
Alignment explanation
Indices: 420715--421275 Score: 1013
Period size: 174 Copynumber: 3.2 Consensus size: 174
420705 CATTGGCACC
420715 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
420780 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
420845 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
420889 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
420954 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
421019 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
* * *
421063 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
*
421125 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTCAAGCCCAATATCGTTGGCCA
66 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
* *
421190 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC-TT
131 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
* *
421233 CTTTAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
421276 CTTCATCATC
Statistics
Matches: 376, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
170 2 0.01
171 156 0.41
172 5 0.01
173 1 0.00
174 212 0.56
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (174 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
Found at i:423141 original size:13 final size:13
Alignment explanation
Indices: 423123--423147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423113 CATAAAATGT
423123 TGTATCGATACAA
1 TGTATCGATACAA
423136 TGTATCGATACA
1 TGTATCGATACA
423148 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:423229 original size:13 final size:13
Alignment explanation
Indices: 423211--423235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
423201 ATTACTCAAA
423211 TGTATCGATACAT
1 TGTATCGATACAT
423224 TGTATCGATACA
1 TGTATCGATACA
423236 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:423300 original size:52 final size:52
Alignment explanation
Indices: 423244--423359 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
423234 CACTGATCTT
* *
423244 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
423296 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
423348 TGTATCGATACA
1 TGTATCGATACA
423360 CAACTTTTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:429147 original size:112 final size:112
Alignment explanation
Indices: 429012--429217 Score: 272
Period size: 112 Copynumber: 1.8 Consensus size: 112
429002 GCTTGGTATT
* * * * * *
429012 GATACCCAAGGTGTGGTATCGATACCTAATGTGATTGTTTCGATACA-AACCTTGGCAGTAGCTA
1 GATACCCAAGGTGTGGTATCGATACCTAATATGATTCTATCAATACATAACCTTGGCAATAGCAA
*
429076 AAATTC-ACTTTCTGGATAGCAAGTATCGATTCATCAAGGCTTAATATC
66 AAATTCGA-TTT-TGGACAGCAAGTATCGATTCATCAAGGCTTAATATC
* * * **
429124 GATACCTAAGGTGTGGTATCGATACCTAGTATGATTCTATCAATGCATGGCCTTGGCAATAGCAA
1 GATACCCAAGGTGTGGTATCGATACCTAATATGATTCTATCAATACATAACCTTGGCAATAGCAA
429189 AAATTCGATTTTGGACAGCAAGTATCGAT
66 AAATTCGATTTTGGACAGCAAGTATCGAT
429218 ACTCAAGTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
112 57 0.71
113 22 0.28
114 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (112 bp):
GATACCCAAGGTGTGGTATCGATACCTAATATGATTCTATCAATACATAACCTTGGCAATAGCAA
AAATTCGATTTTGGACAGCAAGTATCGATTCATCAAGGCTTAATATC
Found at i:431699 original size:80 final size:79
Alignment explanation
Indices: 431609--431788 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 79
431599 TATTAAAAGG
* * * * * *
431609 GGATATTCCAACCCTACTATC-TCTGAGGGGGTAGTCCAACCCCT-TTCTTACTTTCAAAATATC
1 GGATACTCCAACCC-ACTATCTTC-AAGGGGATACTCCAA-CCCTATTCTTACTTCCAAAACATC
* * *
431672 GAATTTTTCAT-TGTTGA
63 AAATTTATCATCT-TTAA
* * *
431689 GGATACTCCAACCCCACCATCTTCAAGGGGATACTCCAACCCTATTTTTACTTCCAAAACATTAA
1 GGATACTCCAA-CCCACTATCTTCAAGGGGATACTCCAACCCTATTCTTACTTCCAAAACATCAA
431754 ATTTATCATCTTTAA
65 ATTTATCATCTTTAA
431769 GGATACTCCAACTCCACTAT
1 GGATACTCCAAC-CCACTAT
431789 TTTGGAAGAG
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
79 5 0.06
80 71 0.87
81 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCACTATCTTCAAGGGGATACTCCAACCCTATTCTTACTTCCAAAACATCAAA
TTTATCATCTTTAA
Found at i:433978 original size:16 final size:16
Alignment explanation
Indices: 433957--434009 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
433947 GGTCAATTTG
* *
433957 AGTTCGGGTTATTTCA
1 AGTTCGGGTCATTCCA
433973 AGTTCGGGTCATTCCA
1 AGTTCGGGTCATTCCA
*
433989 AGTTCAGGTCATTCCA
1 AGTTCGGGTCATTCCA
434005 AGTTC
1 AGTTC
434010 AAGTCATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (16 bp):
AGTTCGGGTCATTCCA
Found at i:434010 original size:16 final size:16
Alignment explanation
Indices: 433957--434017 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
433947 GGTCAATTTG
* * *
433957 AGTTCGGGTTATTTCA
1 AGTTCAGGTCATTCCA
*
433973 AGTTCGGGTCATTCCA
1 AGTTCAGGTCATTCCA
433989 AGTTCAGGTCATTCCA
1 AGTTCAGGTCATTCCA
*
434005 AGTTCAAGTCATT
1 AGTTCAGGTCATT
434018 TTGGGTTAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (16 bp):
AGTTCAGGTCATTCCA
Found at i:434907 original size:13 final size:13
Alignment explanation
Indices: 434891--434915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
434881 ATTATACTTG
434891 GTATCGATACATT
1 GTATCGATACATT
434904 GTATCGATACAT
1 GTATCGATACAT
434916 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:434924 original size:19 final size:19
Alignment explanation
Indices: 434900--434974 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
434890 GGTATCGATA
434900 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
434919 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
* **
434938 CATTGTATCGATACGTACT
1 CATTGTATCGATACATGTT
434957 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
434975 AAACTGGCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:444970 original size:35 final size:36
Alignment explanation
Indices: 444901--444993 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 36
444891 CAATACTATC
* *
444901 TTTC-AAGGCTAAGATAAAAAC-CTC-C-CTATCTT
1 TTTCAAAGGCTAAGATAGAACCTCTCTCTCTATCTT
**
444933 TTT-ACGGGCTAAGATAGAACCTCTCTCTCTATCTT
1 TTTCAAAGGCTAAGATAGAACCTCTCTCTCTATCTT
*
444968 TTTCAAAGGCTAAGATATAACCTCTC
1 TTTCAAAGGCTAAGATAGAACCTCTC
444994 AATTACTTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 16 0.33
33 3 0.06
34 1 0.02
35 10 0.20
36 19 0.39
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (36 bp):
TTTCAAAGGCTAAGATAGAACCTCTCTCTCTATCTT
Found at i:445472 original size:13 final size:13
Alignment explanation
Indices: 445454--445492 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
445444 TATTATTCAC
445454 ATGTATCGATACA
1 ATGTATCGATACA
445467 ATGTATCGATACA
1 ATGTATCGATACA
*
445480 ATATATCGATACA
1 ATGTATCGATACA
445493 TGAACAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:445623 original size:13 final size:13
Alignment explanation
Indices: 445605--445629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
445595 TACCAAGAAC
445605 ATGTATCAATACA
1 ATGTATCAATACA
445618 ATGTATCAATAC
1 ATGTATCAATAC
445630 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:445644 original size:33 final size:32
Alignment explanation
Indices: 445586--445650 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
445576 ACAATTCATG
*
445586 ATGTATCGATACCAAGAACATGTATCAATACA
1 ATGTATCAATACCAAGAACATGTATCAATACA
* * *
445618 ATGTATCAATACTAAGCAATATGTATCGATACA
1 ATGTATCAATACCAAG-AACATGTATCAATACA
445651 TCTCTCTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (32 bp):
ATGTATCAATACCAAGAACATGTATCAATACA
Found at i:450804 original size:52 final size:52
Alignment explanation
Indices: 450725--450854 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
450715 CCGAAATATG
* *
450725 AAATTTTGCTTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTT-CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
450778 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGT
1 AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
450830 AAATTTGCCTGCATGTATCGATACA
1 AAATTTTCCTGCATGTATCGATACA
450855 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
52 65 0.90
53 7 0.10
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (52 bp):
AAATTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:450865 original size:52 final size:52
Alignment explanation
Indices: 450729--450874 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
450719 AATATGAAAT
* ** *
450729 TTTGCTTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAA
* ** * *
450781 TTTTCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGGGTAAA
1 TTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAA
*
450833 TTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACATAACAT-AGTGTATCGATACA
450875 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAA
Found at i:450881 original size:13 final size:13
Alignment explanation
Indices: 450863--450887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
450853 CAAAGATCAG
450863 TGTATCGATACAA
1 TGTATCGATACAA
450876 TGTATCGATACA
1 TGTATCGATACA
450888 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:454201 original size:35 final size:36
Alignment explanation
Indices: 454156--454227 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
454146 AGATAGAAAC
**
454156 CTCCCAATC-TTTTTACGGGCTAAGATAAAACCTCT
1 CTCCCAATCTTTTTTAAAGGCTAAGATAAAACCTCT
*
454191 CTCCCTATCTTTTTTAAAGGCTAAGATAAAACCTCT
1 CTCCCAATCTTTTTTAAAGGCTAAGATAAAACCTCT
454227 C
1 C
454228 AATCACTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 8 0.24
36 25 0.76
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (36 bp):
CTCCCAATCTTTTTTAAAGGCTAAGATAAAACCTCT
Found at i:454392 original size:19 final size:19
Alignment explanation
Indices: 454368--454408 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
454358 TACAAGGAAT
454368 GAATGAAAGAGCTTTGATA
1 GAATGAAAGAGCTTTGATA
454387 GAATGAAAGAGCTTTGATA
1 GAATGAAAGAGCTTTGATA
454406 GAA
1 GAA
454409 AAACAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (19 bp):
GAATGAAAGAGCTTTGATA
Found at i:457926 original size:11 final size:10
Alignment explanation
Indices: 457886--457931 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
457876 GCGTGAGTTC
457886 TATTTAATTA
1 TATTTAATTA
457896 TATGTTAAATT-
1 TAT-TT-AATTA
457907 TATTTAATTA
1 TATTTAATTA
457917 TATATTAATT-
1 TAT-TTAATTA
457927 TATTT
1 TATTT
457932 GATTTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.19
10 11 0.34
11 11 0.34
12 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TATTTAATTA
Found at i:457942 original size:25 final size:21
Alignment explanation
Indices: 457886--457931 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
457876 GCGTGAGTTC
*
457886 TATTTAATTATATGTTAAATT
1 TATTTAATTATATATTAAATT
457907 TATTTAATTATATATT-AATT
1 TATTTAATTATATATTAAATT
457927 TATTT
1 TATTT
457932 GATTTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTAATTATATATTAAATT
Found at i:458642 original size:8 final size:8
Alignment explanation
Indices: 458631--458738 Score: 69
Period size: 8 Copynumber: 12.4 Consensus size: 8
458621 AGATTTGGTA
458631 ATTTATAT
1 ATTTATAT
458639 ATTTATATT
1 ATTTATA-T
458648 ATATT-TAT
1 AT-TTATAT
458656 ATTTATAT
1 ATTTATAT
458664 ATTTTATTAT
1 A-TTTA-TAT
458674 ATTATAATTAT
1 ATT-T-A-TAT
*
458685 ATTTAAAAT
1 ATTT-ATAT
458694 ATTT-TAT
1 ATTTATAT
458701 ATTTATAT
1 ATTTATAT
458709 AAATTTTAATAT
1 --A-TTT-ATAT
*
458721 ATTAATA-
1 ATTTATAT
458728 ATTTATAT
1 ATTTATAT
458736 ATT
1 ATT
458739 ATAAAATTTA
Statistics
Matches: 83, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
7 14 0.17
8 23 0.28
9 19 0.23
10 12 0.14
11 11 0.13
12 4 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTATAT
Found at i:458647 original size:6 final size:6
Alignment explanation
Indices: 458636--458708 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
458626 TGGTAATTTA
* *
458636 TATATT TATA-T TATATT TATATT TATATAT TTTA-T TATA-T TATAAT
1 TATATT TATATT TATATT TATATT TATAT-T TATATT TATATT TATATT
**
458682 TATATT TA-AAA TAT-TT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
458709 AAATTTTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
5 20 0.36
6 31 0.56
7 4 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:458659 original size:25 final size:24
Alignment explanation
Indices: 458631--458738 Score: 105
Period size: 25 Copynumber: 4.5 Consensus size: 24
458621 AGATTTGGTA
*
458631 ATTTATATATTTATATTATATTTAT
1 ATTTATATATTT-TAATATATTTAT
*
458656 ATTTATATATTTTATTATA-TTAT
1 ATTTATATATTTTAATATATTTAT
* **
458679 AATTATAT-TTAAAATAT-TTTAT
1 ATTTATATATTTTAATATATTTAT
*
458701 ATTTATATAAATTTTAATATATTAAT
1 ATTTATAT--ATTTTAATATATTTAT
458727 AATTTATATATT
1 -ATTTATATATT
458739 ATAAAATTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
22 17 0.25
23 11 0.16
24 7 0.10
25 22 0.32
26 4 0.06
27 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTATATATTTTAATATATTTAT
Found at i:458678 original size:29 final size:30
Alignment explanation
Indices: 458641--458708 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
458631 ATTTATATAT
*
458641 TTATATTATATTTATATTT-ATATATTTTA
1 TTATATTATATTTATATTTAAAATATTTTA
*
458670 TTATATTATAATTATATTTAAAATATTTTA
1 TTATATTATATTTATATTTAAAATATTTTA
458700 -TAT-TTATAT
1 TTATATTATAT
458709 AAATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 5 0.14
29 21 0.60
30 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TTATATTATATTTATATTTAAAATATTTTA
Found at i:458684 original size:35 final size:34
Alignment explanation
Indices: 458632--458738 Score: 96
Period size: 35 Copynumber: 3.0 Consensus size: 34
458622 GATTTGGTAA
458632 TTTA-TATATTTATATTATATTTATATTTATATAT
1 TTTATTATATTTA-ATTATATTTATATTTATATAT
458666 TTTATTATATTATAATTATATTTAAAATATTT-TATA-
1 TTTATTATATT-TAATTATATTT---ATATTTATATAT
* *
458702 TTTATATAAATTTTAA-TATATTAATAATTTATATAT
1 TTTAT-TATA-TTTAATTATATTTAT-ATTTATATAT
458738 T
1 T
458739 ATAAAATTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
33 2 0.03
34 8 0.13
35 19 0.31
36 14 0.23
37 10 0.16
38 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTATTATATTTAATTATATTTATATTTATATAT
Found at i:458733 original size:33 final size:32
Alignment explanation
Indices: 458691--458755 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
458681 TTATATTTAA
* *
458691 AATATTTTATAT-TTATATAAATTTTAATATATT
1 AATAATTTATATATTATA-AAA-TTTAAAATATT
458724 AATAATTTATATATTATAAAATTTAAAATATT
1 AATAATTTATATATTATAAAATTTAAAATATT
458756 TAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.34
33 14 0.48
34 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
AATAATTTATATATTATAAAATTTAAAATATT
Found at i:458754 original size:17 final size:17
Alignment explanation
Indices: 458706--458759 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 17
458696 TTTATATTTA
*
458706 TATAAATTTTAATATAT
1 TATAAAATTTAATATAT
*
458723 TA-ATAATTT-ATATAT
1 TATAAAATTTAATATAT
*
458738 TATAAAATTTAAAATAT
1 TATAAAATTTAATATAT
458755 T-TAAA
1 TATAAA
458760 TTATTTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 8 0.26
16 15 0.48
17 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAAAATTTAATATAT
Found at i:460365 original size:7 final size:7
Alignment explanation
Indices: 460353--460382 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
460343 AAAACCCATA
460353 ATTAGTG
1 ATTAGTG
460360 ATTAGTG
1 ATTAGTG
460367 ATTAGTG
1 ATTAGTG
*
460374 ATTAATG
1 ATTAGTG
460381 AT
1 AT
460383 GTATCATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (7 bp):
ATTAGTG
Found at i:463474 original size:2 final size:2
Alignment explanation
Indices: 463467--463502 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
463457 CACTAACCAG
463467 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
463503 ATATATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:463507 original size:2 final size:2
Alignment explanation
Indices: 463502--463541 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
463492 TGTGTGTGTG
*
463502 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
463542 GGCCAGGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:469074 original size:42 final size:43
Alignment explanation
Indices: 468980--469075 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 43
468970 ATAATCCAAT
* * *
468980 AAAGCAAGAGATTATGATGCAAGAAAAACAAACACAGTAGAAA
1 AAAGCAACAGATTATAATGCAAGAAAAACAAACACACTAGAAA
* * *
469023 AAATG-AACAGATTATAATG-AA-ACACAACAAACACACTATAAC
1 AAA-GCAACAGATTATAATGCAAGA-AAAACAAACACACTAGAAA
469065 AAAGCAACAGA
1 AAAGCAACAGA
469076 CAAGGGCTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.05
42 26 0.59
43 15 0.34
44 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.14, T:0.12
Consensus pattern (43 bp):
AAAGCAACAGATTATAATGCAAGAAAAACAAACACACTAGAAA
Found at i:471152 original size:39 final size:38
Alignment explanation
Indices: 471099--471174 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
471089 TATTTATTTT
471099 AAAAATATTATTTA-TATATTAATTTTAAATAAAATATA
1 AAAAATATTATTTATTA-ATTAATTTTAAATAAAATATA
* * **
471137 AAAATATATTTTTTATTAATTATTTTTATTTAAAATAT
1 AAAA-ATATTATTTATTAATTAATTTTAAATAAAATAT
471175 TTTTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 4 0.12
39 26 0.81
40 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
AAAAATATTATTTATTAATTAATTTTAAATAAAATATA
Found at i:471180 original size:16 final size:16
Alignment explanation
Indices: 471142--471197 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 16
471132 ATATAAAAAT
471142 ATATTTTTTA-TT-AA
1 ATATTTTTTATTTAAA
*
471156 TTA-TTTTTATTTAAA
1 ATATTTTTTATTTAAA
471171 ATATTTTTTAATTATAAA
1 ATATTTTTT-ATT-TAAA
471189 ATTATTTTT
1 A-TATTTTT
471198 AATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 6 0.18
14 4 0.12
15 4 0.12
16 5 0.15
17 3 0.09
18 5 0.15
19 7 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTTTTATTTAAA
Found at i:471190 original size:18 final size:18
Alignment explanation
Indices: 471154--471203 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
471144 ATTTTTTATT
471154 AATTATTTTT-ATT-TAA
1 AATTATTTTTAATTATAA
471170 AA-TATTTTTTAATTATAA
1 AATTA-TTTTTAATTATAA
471188 AATTATTTTTAATTAT
1 AATTATTTTTAATTAT
471204 TATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.07
16 7 0.23
17 3 0.10
18 16 0.53
19 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTATTTTTAATTATAA
Found at i:471400 original size:19 final size:19
Alignment explanation
Indices: 471376--471433 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
471366 ATGTTAAATT
471376 TATAT-TTAA-TTTTATTA
1 TATATATTAACTTTTATTA
471393 TATATATTAACTTTTTATTA
1 TATATATTAAC-TTTTATTA
* * *
471413 TGTTATATTAAGTGTTATTA
1 T-ATATATTAACTTTTATTA
471433 T
1 T
471434 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
20 17 0.50
21 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (19 bp):
TATATATTAACTTTTATTA
Found at i:471410 original size:20 final size:21
Alignment explanation
Indices: 471385--471423 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
471375 TTATATTTAA
471385 TTTTATTAT-ATATATTAACT
1 TTTTATTATGATATATTAACT
*
471405 TTTTATTATGTTATATTAA
1 TTTTATTATGATATATTAA
471424 GTGTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTATTATGATATATTAACT
Found at i:471725 original size:37 final size:35
Alignment explanation
Indices: 471674--471744 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 35
471664 AATAAATTTA
471674 TTTTAAAATTAATATATAATTAAATTAAAAATAAG
1 TTTTAAAATTAATATATAATTAAATTAAAAATAAG
* *
471709 TTTTAAATATTTAATATATATTTAAATTAAATATAA
1 TTTTAAA-A-TTAATATATAATTAAATTAAAAATAA
471745 CTTAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 7 0.22
36 1 0.03
37 24 0.75
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (35 bp):
TTTTAAAATTAATATATAATTAAATTAAAAATAAG
Found at i:471795 original size:21 final size:21
Alignment explanation
Indices: 471758--471797 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
471748 AATAATAATT
*
471758 TAATTTAATAGTTATTAAAAA
1 TAATTTAAGAGTTATTAAAAA
471779 TAATTTAAGA-TTAATTAAA
1 TAATTTAAGAGTT-ATTAAA
471798 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATTTAAGAGTTATTAAAAA
Found at i:471973 original size:29 final size:30
Alignment explanation
Indices: 471916--471971 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
471906 TAGTTTTAGA
471916 AAGTAAATATATTTTTAATAAATAAAAATT
1 AAGTAAATATATTTTTAATAAATAAAAATT
471946 AAGTAAA-AT-TTTTTAACT-AATAAAAA
1 AAGTAAATATATTTTTAA-TAAATAAAAA
471972 ATAAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 15 0.60
29 3 0.12
30 7 0.28
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (30 bp):
AAGTAAATATATTTTTAATAAATAAAAATT
Found at i:472057 original size:8 final size:8
Alignment explanation
Indices: 472044--472099 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 8
472034 ATATGTATAT
472044 TATATTTA
1 TATATTTA
472052 TATATTTTA
1 TATA-TTTA
472061 TTATATTATAA
1 -TATATT-T-A
472072 TCATATTTAA
1 T-ATATTT-A
472082 TATATTT-
1 TATATTTA
472089 TATATTTA
1 TATATTTA
472097 TAT
1 TAT
472100 TAATAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.17
8 7 0.17
9 12 0.29
10 10 0.24
11 6 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATTTA
Found at i:472057 original size:13 final size:13
Alignment explanation
Indices: 472039--472113 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
472029 TTTTTATATG
472039 TATATTATATTTA
1 TATATTATATTTA
*
472052 TATATTTTATTATA
1 TATATTATATT-TA
*
472066 TTATAATCATATTTA
1 -TAT-ATTATATTTA
472081 -ATA-TAT-TTTA
1 TATATTATATTTA
*
472091 TAT-TTATATTAA
1 TATATTATATTTA
472103 TA-ATTAATATT
1 TATATT-ATATT
472114 AAATAAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
10 4 0.08
11 7 0.14
12 8 0.16
13 17 0.35
14 2 0.04
15 5 0.10
16 6 0.12
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATTATATTTA
Found at i:472065 original size:29 final size:30
Alignment explanation
Indices: 472032--472112 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 30
472022 TTGATAATTT
*
472032 TTATATGTAT-ATTATATTT-ATATATTTTA
1 TTATAT-TATAATCATATTTAATATATTTTA
472061 TTATATTATAATCATATTTAATATATTTTA
1 TTATATTATAATCATATTTAATATATTTTA
* * *
472091 -TAT-TTATATTAATAATTAATAT
1 TTATATTATAATCATATTTAATAT
472113 TAAATAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 19 0.41
29 17 0.37
30 10 0.22
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (30 bp):
TTATATTATAATCATATTTAATATATTTTA
Done.