Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold287
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: 1864789
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 140151 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:418 original size:6 final size:6
Alignment explanation
Indices: 407--431 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
397 GAGGAACGGA
407 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
432 GTTAGTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:560 original size:19 final size:19
Alignment explanation
Indices: 536--577 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
526 GGTCGGGTTT
*
536 GGGGAGCTGTTAGGGATTA
1 GGGGAGATGTTAGGGATTA
* *
555 GGGGAGATTTTAGGGATTT
1 GGGGAGATGTTAGGGATTA
574 GGGG
1 GGGG
578 GGAGAAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.50, T:0.29
Consensus pattern (19 bp):
GGGGAGATGTTAGGGATTA
Found at i:1045 original size:74 final size:74
Alignment explanation
Indices: 966--1341 Score: 265
Period size: 74 Copynumber: 5.1 Consensus size: 74
956 TCAAGCTTGT
966 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
1 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
1031 CAATTTTGC
66 CAATTTTGC
*** * * * * ***
1040 GGCGTTT-CATGTAAAGCGCCACTAA-A-TATAAGATC-AAACGA-AGTCGTTTC-CCCAACATT
1 GGCGTTTCCAAACAAA-CGCCACTAATACCAT-TGA-CAAAACGACA-ACATTTCGATAAACA--
* ** *
1099 TAACT-CAAGCTTGT
60 TAAATACAATTTTGC
*
1113 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGATAAACATAAATA
1 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
1178 CAATTTTGC
66 CAATTTTGC
* *** * * *** * ***
1187 GGCGCTT-CATGTAAAGCGCCACTAA-A-TATAAGATC-AAACGATGTCGTTTC-CCCAACATTT
1 GGCGTTTCCAAACAAA-CGCCACTAATACCAT-TGA-CAAAACGACAACATTTCGATAAACA--T
* ** *
1247 AACT-CAAGCTTGT
61 AAATACAATTTTGC
*
1260 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGATAAACATAAATA
1 GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
1325 CAATTTTGC
66 CAATTTTGC
1334 GGCGTTTC
1 GGCGTTTC
1342 ATGTAAAGAG
Statistics
Matches: 213, Mismatches: 65, Indels: 48
0.65 0.20 0.15
Matches are distributed among these distances:
72 13 0.06
73 90 0.42
74 97 0.46
75 13 0.06
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (74 bp):
GGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGATAAACATAAATA
CAATTTTGC
Found at i:1133 original size:73 final size:73
Alignment explanation
Indices: 909--1436 Score: 293
Period size: 73 Copynumber: 7.2 Consensus size: 73
899 TTAAGTAAAG
909 CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTTC
1 CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTTC
974 CAAACAAA
66 CAAACAAA
* * * * *** * ** *
982 CGCCACT-AATACCATTGA-CAAAACGACA-ACATTTCGATAAACA--TAAATACAATTTTGCGG
1 CGCCACTAAATA-TA-AGATC-AAACGA-AGTCGTTTC-CCCAACATTTAACT-CAAGCTTGTGG
***
1042 CGTTT-CATGTAAA
60 CGTTTCCAAACAAA
1055 GCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTT
1 -CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTT
1120 CCAAACAAA
65 CCAAACAAA
* * * * * *** * ** *
1129 CGCCACT-AATACCATTGA-CAAAACTACA-ACATTTCGATAAACA--TAAATACAATTTTGCGG
1 CGCCACTAAATA-TA-AGATC-AAACGA-AGTCGTTTC-CCCAACATTTAACT-CAAGCTTGTGG
* ***
1189 CGCTT-CATGTAAA
60 CGTTTCCAAACAAA
*
1202 GCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTT
1 -CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTT
1267 CCAAACAAA
65 CCAAACAAA
* * * * * *** * ** *
1276 CGCCACT-AATACCATTGA-CAAAACTACA-ACATTTCGATAAACA--TAAATACAATTTTGCGG
1 CGCCACTAAATA-TA-AGATC-AAACGA-AGTCGTTTC-CCCAACATTTAACT-CAAGCTTGTGG
***
1336 CGTTT-CATGTAAA
60 CGTTTCCAAACAAA
* * *
1349 GAGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGTGTTT
1 -CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTT
1414 CCAAACAAA
65 CCAAACAAA
1423 CGCCACTAAA-ATAA
1 CGCCACTAAATATAA
1437 AACATATAAA
Statistics
Matches: 320, Mismatches: 96, Indels: 79
0.65 0.19 0.16
Matches are distributed among these distances:
72 29 0.09
73 137 0.43
74 128 0.40
75 26 0.08
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (73 bp):
CGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGCGTTTC
CAAACAAA
Found at i:1158 original size:147 final size:147
Alignment explanation
Indices: 889--1431 Score: 1014
Period size: 147 Copynumber: 3.7 Consensus size: 147
879 NNNNNNNNNN
* *
889 TTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
1 TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
*
954 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACGACAACATTTCGA
66 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
1019 TAAACATAAATACAATT
131 TAAACATAAATACAATT
1036 TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
1 TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
1101 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
66 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
1166 TAAACATAAATACAATT
131 TAAACATAAATACAATT
* *
1183 TTGCGGCGCTTCATGTAAAGCGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTA
1 TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
1248 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
66 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
1313 TAAACATAAATACAATT
131 TAAACATAAATACAATT
* *
1330 TTGCGGCGTTTCATGTAAAGAGCCACTAAATATAAGATCAAACGATGTCGTTTCCCCAACATTTA
1 TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
*
1395 ACTCAAGCTTGTGGTGTTTCCAAACAAACGCCACTAA
66 ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAA
1432 AATAAAACAT
Statistics
Matches: 388, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 388 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (147 bp):
TTGCGGCGTTTCATGTAAAGCGCCACTAAATATAAGATCAAACGAAGTCGTTTCCCCAACATTTA
ACTCAAGCTTGTGGCGTTTCCAAACAAACGCCACTAATACCATTGACAAAACTACAACATTTCGA
TAAACATAAATACAATT
Found at i:4255 original size:23 final size:23
Alignment explanation
Indices: 4212--4257 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4202 CAAAATTGTT
*
4212 GCAACCCCAACGCACCTAAAGCC
1 GCAACCCCAACGCACCCAAAGCC
*
4235 GCAACCCTCAACTC-CCCAAAGCC
1 GCAACCC-CAACGCACCCAAAGCC
4258 ACCAACCGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.50, G:0.11, T:0.07
Consensus pattern (23 bp):
GCAACCCCAACGCACCCAAAGCC
Found at i:5409 original size:6 final size:6
Alignment explanation
Indices: 5398--5427 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5388 TCTTTATAGG
*
5398 TTATTT TTATTT TTAATT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
5428 CTCGCATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:7863 original size:23 final size:24
Alignment explanation
Indices: 7837--7901 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
7827 CAACCCTTAT
7837 TCCTTCAAATT-G-TTTTCCCCAAA
1 TCCTT-AAATTAGTTTTTCCCCAAA
*
7860 TCCTTAACTTAGTTTTTTCCCCAAA
1 TCCTTAAATTAG-TTTTTCCCCAAA
* *
7885 TCCCTAACTTAGTTTTT
1 TCCTTAAATTAGTTTTT
7902 TCCTTCCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.11
23 6 0.16
24 5 0.14
25 22 0.59
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.45
Consensus pattern (24 bp):
TCCTTAAATTAGTTTTTCCCCAAA
Found at i:7883 original size:25 final size:25
Alignment explanation
Indices: 7849--7904 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7839 CTTCAAATTG
*
7849 TTTTCCCCAAATCCTTAACTTAGTT
1 TTTTCCCCAAATCCCTAACTTAGTT
7874 TTTTCCCCAAATCCCTAACTTAGTT
1 TTTTCCCCAAATCCCTAACTTAGTT
7899 TTTTCC
1 TTTTCC
7905 TTCCCATACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTTCCCCAAATCCCTAACTTAGTT
Found at i:15042 original size:25 final size:24
Alignment explanation
Indices: 15006--15058 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
14996 ACATACCGCA
15006 GCTCTTTATGAG-TGTCCTGATATAG
1 GCTCTTTATGAGAT-TCCTGATAT-G
*
15031 GCTCTTTGTGAGATTCCTGATATG
1 GCTCTTTATGAGATTCCTGATATG
15055 GCTC
1 GCTC
15059 ACTTGAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGATTCCTGATATG
Found at i:21593 original size:25 final size:25
Alignment explanation
Indices: 21565--21751 Score: 141
Period size: 25 Copynumber: 7.5 Consensus size: 25
21555 AATTATCTAG
* *
21565 AAAGCTTTTGTGGCTAATCTTATGA
1 AAAGCCTTTGTGGCTATTCTTATGA
* * *
21590 AAAGACTTTGTGGCGTATTGTT-TGG
1 AAAGCCTTTGTGGC-TATTCTTATGA
* * *
21615 AAAGTCTTTGTAGTG-TATTC-TCTGG
1 AAAGCCTTTGT-G-GCTATTCTTATGA
* * * *
21640 AAAGCCTTTGTGACTAATCTTAAGG
1 AAAGCCTTTGTGGCTATTCTTATGA
*
21665 AAAGCCTTTGTGGCGTATTGTCTA-G-
1 AAAGCCTTTGTGGC-TATTCT-TATGA
*
21690 AAAGCTTTTGTGGCTATTCTTATGA
1 AAAGCCTTTGTGGCTATTCTTATGA
* *
21715 AAAGCCTTTGTGGCTAATCTTACGA
1 AAAGCCTTTGTGGCTATTCTTATGA
*
21740 AAAGCCCTTGTG
1 AAAGCCTTTGTG
21752 TCATATTGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.02
24 12 0.09
25 103 0.79
26 11 0.08
27 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (25 bp):
AAAGCCTTTGTGGCTATTCTTATGA
Found at i:21726 original size:50 final size:50
Alignment explanation
Indices: 21564--21728 Score: 156
Period size: 50 Copynumber: 3.3 Consensus size: 50
21554 GAATTATCTA
* * * *
21564 GAAAGCTTTTGTGGC-TAATCT-TATGAAAAGACTTTGTGGCGTATTGTT-TG
1 GAAAGCCTTTGTGGCGTATTCTCTA-G-AAAGCCTTTGTGGC-TATTCTTATG
* * * * * * *
21614 GAAAGTCTTTGTAGTGTATTCTCTGGAAAGCCTTTGTGACTAATCTTAAG
1 GAAAGCCTTTGTGGCGTATTCTCTAGAAAGCCTTTGTGGCTATTCTTATG
* *
21664 GAAAGCCTTTGTGGCGTATTGTCTAGAAAGCTTTTGTGGCTATTCTTATG
1 GAAAGCCTTTGTGGCGTATTCTCTAGAAAGCCTTTGTGGCTATTCTTATG
*
21714 AAAAGCCTTTGTGGC
1 GAAAGCCTTTGTGGC
21729 TAATCTTACG
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
49 5 0.05
50 79 0.87
51 6 0.07
52 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (50 bp):
GAAAGCCTTTGTGGCGTATTCTCTAGAAAGCCTTTGTGGCTATTCTTATG
Found at i:21768 original size:75 final size:75
Alignment explanation
Indices: 21565--21768 Score: 234
Period size: 75 Copynumber: 2.7 Consensus size: 75
21555 AATTATCTAG
* * * *
21565 AAAGCTTTTGTGGCTAATCTTATGAAAAGACTTTGTGGCGTATTGTTTGGAAAGTCTTTGTAGTG
1 AAAGCCTTTGTGGCTAATCTTAAGAAAAGCCTTTGTGGCGTATTGTATGGAAAGTCTTTGTAGTG
* *
21630 TATTCTCTGG
66 TATTCTATGA
* * * *
21640 AAAGCCTTTGTGACTAATCTTAAGGAAAGCCTTTGTGGCGTATTGTCTAGAAAG-CTTT-T-GTG
1 AAAGCCTTTGTGGCTAATCTTAAGAAAAGCCTTTGTGGCGTATTGTATGGAAAGTCTTTGTAGT-
21702 GCTATTCTTATGA
65 G-TATTC-TATGA
* * * *
21715 AAAGCCTTTGTGGCTAATCTTACGAAAAGCCCTTGTGTCATATTGTATGGAAAG
1 AAAGCCTTTGTGGCTAATCTTAAGAAAAGCCTTTGTGGCGTATTGTATGGAAAG
21769 ACTGTATGAT
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
72 2 0.02
73 2 0.02
74 9 0.08
75 96 0.88
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (75 bp):
AAAGCCTTTGTGGCTAATCTTAAGAAAAGCCTTTGTGGCGTATTGTATGGAAAGTCTTTGTAGTG
TATTCTATGA
Found at i:23181 original size:50 final size:50
Alignment explanation
Indices: 23119--23356 Score: 208
Period size: 50 Copynumber: 4.7 Consensus size: 50
23109 TTTTATCATT
* * *
23119 CGATACACGTAGTAGCCATCATATAGTACTACACACATGATCAAGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTA
* * **
23169 CGATTCACGTAGTAGCCTTCACATAATACTACATATGTGATCAAGTTTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTA
* * * * *
23219 CGGTTCACGTAGTAGTCTTCACATAGTACTACATACGTGACCAAAGCTTTT-
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACATGATC-AAG-TTTTA
* * * * * ** * ***
23270 CGGTACACATAGTAGCCTTCACTTAGTACAACACATGTGACCATCATTTA
1 CGATTCACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTA
* * *
23320 TCGATTCACGTCGTAGCCTTCACACAATACTACACAC
1 -CGATTCACGTAGTAGCCTTCACATAGTACTACACAC
23357 GTGACCAAAG
Statistics
Matches: 153, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 3 0.02
50 81 0.53
51 65 0.42
52 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (50 bp):
CGATTCACGTAGTAGCCTTCACATAGTACTACACACATGATCAAGTTTTA
Found at i:23297 original size:51 final size:50
Alignment explanation
Indices: 23117--23410 Score: 252
Period size: 51 Copynumber: 5.8 Consensus size: 50
23107 ACTTTTATCA
* * * *
23117 TTCGATACACGTAGTAGCCATCATATAGTACTACACACATGATCAAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * * *
23166 TTACGATTCACGTAGTAGCCTTCACATAATACTACATATGTGATCAAG-TT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
23216 TTACGGTTCACGTAGTAGTCTTCACATAGTACTACATACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * *
23268 TTCGGTACACATAGTAGCCTTCACTTAGTACAACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * * *
23318 TATCGATTCACGTCGTAGCCTTCACACAATACTACACACGTGACCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * *
23370 CTCGGTACACATTGTAGCCTTCACACAGTAGTACACACGTG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
23411 TTCATCGATA
Statistics
Matches: 201, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.02
50 83 0.41
51 106 0.53
52 6 0.03
53 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:23353 original size:102 final size:101
Alignment explanation
Indices: 23178--23394 Score: 281
Period size: 102 Copynumber: 2.1 Consensus size: 101
23168 ACGATTCACG
* * * ** * * *
23178 TAGTAGCCTTCACATAATACTACATATGTGATCAAGTTTTACGGTTCACGTAGTAGTCTTCACAT
1 TAGTAGCCTTCACATAATACAACACATGTGACCAACATTTACGATTCACGTAGTAGCCTTCACAC
* * *
23243 AGTACTACATACGTGACCAAAGCTTTTCGGTACACA
66 AATACTACACACGTGACCAAAGCTTCTCGGTACACA
* * * *
23279 TAGTAGCCTTCACTTAGTACAACACATGTGACCATCATTTATCGATTCACGTCGTAGCCTTCACA
1 TAGTAGCCTTCACATAATACAACACATGTGACCAACATTTA-CGATTCACGTAGTAGCCTTCACA
23344 CAATACTACACACGTGACCAAAGCTTCTCGGTACACA
65 CAATACTACACACGTGACCAAAGCTTCTCGGTACACA
*
23381 TTGTAGCCTTCACA
1 TAGTAGCCTTCACA
23395 CAGTAGTACA
Statistics
Matches: 98, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 33 0.34
102 65 0.66
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (101 bp):
TAGTAGCCTTCACATAATACAACACATGTGACCAACATTTACGATTCACGTAGTAGCCTTCACAC
AATACTACACACGTGACCAAAGCTTCTCGGTACACA
Found at i:31047 original size:35 final size:35
Alignment explanation
Indices: 31007--31076 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
30997 TAGAAATAAA
* *
31007 CGCCGCTAAAGACCATGAACTTTAACGGCGCTTTT
1 CGCCGCGAAAGACCATGAACTTTAACGGCACTTTT
* *
31042 CGCCGCGAAAGACCATGACCTTTAGCGGCACTTTT
1 CGCCGCGAAAGACCATGAACTTTAACGGCACTTTT
31077 TCCACAAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (35 bp):
CGCCGCGAAAGACCATGAACTTTAACGGCACTTTT
Found at i:31090 original size:43 final size:43
Alignment explanation
Indices: 31042--31161 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 43
31032 CGGCGCTTTT
* * *
31042 CGCCGCGAAAGACCATGACCTTTAGCGGCACTTTTTCCAC-AA
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACTAA
* *
31084 GCGCCGCTAAAGACTATGACTTTTAGCGGCGCTTTTCCCACTAA
1 -CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACTAA
** * *
31128 CGCTACTAAAGACCATGAACTTTAGTGGCGCTTT
1 CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTT
31162 CCATGACCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 63 0.97
44 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACTAA
Found at i:31172 original size:22 final size:22
Alignment explanation
Indices: 31140--31183 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31130 CTACTAAAGA
* *
31140 CCATGAACTTTAGTGGCGCTTT
1 CCATGAACTTTAGCGGCACTTT
*
31162 CCATGACCTTTAGCGGCACTTT
1 CCATGAACTTTAGCGGCACTTT
31184 TCCCACAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.34
Consensus pattern (22 bp):
CCATGAACTTTAGCGGCACTTT
Found at i:31330 original size:20 final size:20
Alignment explanation
Indices: 31305--31351 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
31295 TGAAAAAATA
31305 TATTTTAATTGA-ATAATA-TT
1 TATTTTAA-TGATA-AATATTT
*
31325 TATTTTTATGATAAATATTT
1 TATTTTAATGATAAATATTT
31345 TATTTTA
1 TATTTTA
31352 TTTTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTAATGATAAATATTT
Found at i:36523 original size:386 final size:384
Alignment explanation
Indices: 35812--36584 Score: 1162
Period size: 386 Copynumber: 2.0 Consensus size: 384
35802 NNNNCTATCC
*
35812 AAAATAGATAGTTACCTATCCATATCAATCTGTTACTTTTTTTTATCAATGTTTTTTGTTAAATC
1 AAAATAGATAGTTACCTATCCATATCAATCTGTTACTTTTTTTTATCAATGTTTTTTGTTAAACC
* * * * *
35877 TAATATTTAGATATATCAAATGATTTAGGTTAAATATTTTTAAATATAAAAGTATTAATTGATTG
66 TAATATTTAAATATATCAAATGATTTAGATTAAATATTTTTAAAAACAAAAGCATTAATTGATTG
** * *
35942 TATAATTTTTTATCATTTAACAAATCTCAAGTTAACCTTAAATCCTAAATCAGTTAATATATATA
131 TATAAAATTTTATCATTTAACAAATCTCAAGTAAACCTTAAATCCTAAACCAGTTAATATATATA
* * *
36007 AAGTTTATCTATTAAGCTCTTAAATAATTTAAACTGTAATCACTAATTTTAATATATTAAAATTA
196 AAGTTTATCTATTAAGCTCTTAAATAATTTAAACTATAATCACTAATGTTAATATAATAAAATTA
* *
36072 ATATTATCTCTTTTACAATTATATAAGAATTTATTTCATATATAAATTAAAAAACATCAATTAAT
261 ATATTATCTCTTTTACAATTATATAAGAAATTATTTAATATATAAATTAAAAAACATCAATTAAT
* * *
36137 CTAAACCCTAAACC-CTTAACCCCTATCTCTTAAACCTTAAATCATAAAACATAAACCCT
326 CTAAACCCTAAACCTC-TAACCCCTATATCATAAACCCTAAATCATAAAACATAAACCCT
* * ** * *
36196 AAAATAGATAGTTACTTATCCATATCGATCTGTTA-TTTTTTATTATTTATTTATCAATTTTTTT
1 AAAATAGATAGTTACCTATCCATATCAATCTGTTACTTTTTT-TTATCAATGT-T---TTTTGTT
*
36260 ATAACCTAATATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAAAACAAAAGCATTAAT
61 A-AACCTAATATTTAAATATATCAAATGATTTAGATTAAATATTTTTAAAAACAAAAGCATTAAT
* *
36325 TGATTGTATAAAATTTTATCATTT-ATAAATCTCAAGTAAACCTTAAATCCTAAACCATTTAATA
125 TGATTGTATAAAATTTTATCATTTAACAAATCTCAAGTAAACCTTAAATCCTAAACCAGTTAATA
*
36389 TATATAAAGTTTATCTATT-ATCTCTTAAATAATTTAAACTATAATCA-TAATGTTAATATAATA
190 TATATAAAGTTTATCTATTAAGCTCTTAAATAATTTAAACTATAATCACTAATGTTAATATAATA
36452 AAATTAATATTATCTCTTTTACAATTATATAAGAAATTATTTAATATATAAATTAAAAAACA-CT
255 AAATTAATATTATCTCTTTTACAATTATATAAGAAATTATTTAATATATAAATTAAAAAACATC-
* *
36516 AATTAATCTAAACCCTAAACCTCTAACTCCTATATCATAAACCCTAAATCATAAAATATAAACCC
319 AATTAATCTAAACCCTAAACCTCTAACCCCTATATCATAAACCCTAAATCATAAAACATAAACCC
36581 T
384 T
36582 AAA
1 AAA
36585 CCCCTAACCC
Statistics
Matches: 351, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
383 6 0.02
384 40 0.11
385 2 0.01
386 136 0.39
387 27 0.08
388 62 0.18
389 78 0.22
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.41
Consensus pattern (384 bp):
AAAATAGATAGTTACCTATCCATATCAATCTGTTACTTTTTTTTATCAATGTTTTTTGTTAAACC
TAATATTTAAATATATCAAATGATTTAGATTAAATATTTTTAAAAACAAAAGCATTAATTGATTG
TATAAAATTTTATCATTTAACAAATCTCAAGTAAACCTTAAATCCTAAACCAGTTAATATATATA
AAGTTTATCTATTAAGCTCTTAAATAATTTAAACTATAATCACTAATGTTAATATAATAAAATTA
ATATTATCTCTTTTACAATTATATAAGAAATTATTTAATATATAAATTAAAAAACATCAATTAAT
CTAAACCCTAAACCTCTAACCCCTATATCATAAACCCTAAATCATAAAACATAAACCCT
Found at i:36846 original size:61 final size:63
Alignment explanation
Indices: 36744--36865 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 63
36734 TACAAAGCCT
* *
36744 TAAACCTTATTTAATATATAACTTAAAAAACACTGATTAATCTATACCCTAAACCCTAACCCC
1 TAAACCTTATTTAATATATAACTTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCC
*
36807 TAAACCTTATTTAATATA-AA-TTAAAACACACTAATTAATCTAAACCCTAAACCCTAACC
1 TAAACCTTATTTAATATATAACTTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACC
36866 TGACACCGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 36 0.64
62 2 0.04
63 18 0.32
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.30
Consensus pattern (63 bp):
TAAACCTTATTTAATATATAACTTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCC
Found at i:36919 original size:21 final size:21
Alignment explanation
Indices: 36895--36948 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
36885 CCTAAATTTA
* * * *
36895 TAACTCTTAATCTCTAACCTC
1 TAACTCATAACCTCGAACCCC
36916 TAACTCATAACCTCGAACCCC
1 TAACTCATAACCTCGAACCCC
* *
36937 TAAATCACAACC
1 TAACTCATAACC
36949 CTTAAACTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (21 bp):
TAACTCATAACCTCGAACCCC
Found at i:36972 original size:21 final size:21
Alignment explanation
Indices: 36948--36989 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36938 AAATCACAAC
*
36948 CCTTAAACTAGAATCCCTAAT
1 CCTTAAACCAGAATCCCTAAT
* *
36969 CCTTAATCCATAATCCCTAAT
1 CCTTAAACCAGAATCCCTAAT
36990 TCCATAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (21 bp):
CCTTAAACCAGAATCCCTAAT
Found at i:36995 original size:15 final size:14
Alignment explanation
Indices: 36959--36998 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
36949 CTTAAACTAG
* *
36959 AATCCCTAATCCTT
1 AATCCATAATCCCT
36973 AATCCATAATCCCT
1 AATCCATAATCCCT
36987 AATTCCATAATC
1 AA-TCCATAATC
36999 TATAAACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
AATCCATAATCCCT
Found at i:37379 original size:41 final size:41
Alignment explanation
Indices: 37263--37840 Score: 933
Period size: 41 Copynumber: 14.1 Consensus size: 41
37253 TAGATTATTT
* **
37263 TAAATCCCTGAGCATTAGCGGCGCTT-AACAAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTC-AAAAACGCCGC
37304 TAAAGCCCTGAGCATTAGGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTA-GCGGCGCTTCTTCAAAAACGCCGC
* * *
37346 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37387 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
37428 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37469 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
37510 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37551 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
37592 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37633 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
37674 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37715 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
* * *
37756 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
*
37797 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAATCGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
37838 TAA
1 TAA
37841 TGCTCATTTT
Statistics
Matches: 495, Mismatches: 40, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
41 458 0.93
42 36 0.07
43 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
Found at i:37442 original size:82 final size:82
Alignment explanation
Indices: 37263--37840 Score: 1068
Period size: 82 Copynumber: 7.0 Consensus size: 82
37253 TAGATTATTT
* * ** * *
37263 TAAATCCCTGAGCATTAGCGGCGCTT-AACAAAAAACGCCGCTAAAGCCCTGAGCATTAGGCGGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTC-AAAAATGCCGTTAAAGCCCTGAGCATTA-GCGGC
37327 GCTTCTTCAAAAACGCCGC
64 GCTTCTTCAAAAACGCCGC
37346 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
37411 TTCTTCAAAAACGCCGC
66 TTCTTCAAAAACGCCGC
37428 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
37493 TTCTTCAAAAACGCCGC
66 TTCTTCAAAAACGCCGC
37510 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
37575 TTCTTCAAAAACGCCGC
66 TTCTTCAAAAACGCCGC
37592 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
37657 TTCTTCAAAAACGCCGC
66 TTCTTCAAAAACGCCGC
37674 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
37739 TTCTTCAAAAACGCCGC
66 TTCTTCAAAAACGCCGC
37756 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
1 TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
*
37821 TTCTTCAAAATCGCCGC
66 TTCTTCAAAAACGCCGC
37838 TAA
1 TAA
37841 TGCTCATTTT
Statistics
Matches: 487, Mismatches: 7, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
82 436 0.90
83 50 0.10
84 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (82 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGC
TTCTTCAAAAACGCCGC
Found at i:38137 original size:51 final size:50
Alignment explanation
Indices: 37966--38195 Score: 284
Period size: 50 Copynumber: 4.6 Consensus size: 50
37956 TTGGTGTAGT
* *
37966 GTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTA
1 GTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAGTTCACGTA
* *
38016 GTAGCCTTCACATAGTACTACATACGTGATCAAGTTTTACAGTTCACGTA
1 GTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAGTTCACGTA
* *
38066 GTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CAGTACACATA
1 GTAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACAGTTCACGTA
* * ***
38117 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATC-GATTCACGTA
1 GTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTA-CAG-TTCACGTA
* * *
38168 ATAGCCTTCACAGAGTATTACACACGTG
1 GTAGCCTTCACATAGTACTACACACGTG
38196 TTCATCGATA
Statistics
Matches: 157, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 3 0.02
50 79 0.50
51 71 0.45
52 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (50 bp):
GTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAGTTCACGTA
Found at i:38194 original size:102 final size:100
Alignment explanation
Indices: 37967--38195 Score: 282
Period size: 101 Copynumber: 2.3 Consensus size: 100
37957 TGGTGTAGTG
* * * *
37967 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTCACATAGT
1 TAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAGTACACATAGTAGCCTTCACATAGT
* * ** *
38032 ACTACATACGTGATCAAGTTTTACAGTTCACGTAG
66 ACTACACACGTGACCAACATTTACAGTTCACGTAA
*
38067 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CAGTACACATAGTAGCCTTCACTTA
1 TAGCCTTCACATAGTACTACACACGTGACC-AAG-TTTTACAGTACACATAGTAGCCTTCACATA
* *
38131 GTACTACACATGTGACCATCATTTATC-GATTCACGTAA
64 GTACTACACACGTGACCAACATTTA-CAG-TTCACGTAA
* *
38169 TAGCCTTCACAGAGTATTACACACGTG
1 TAGCCTTCACATAGTACTACACACGTG
38196 TTCATCGATA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
100 29 0.26
101 44 0.40
102 38 0.34
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (100 bp):
TAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACAGTACACATAGTAGCCTTCACATAGT
ACTACACACGTGACCAACATTTACAGTTCACGTAA
Found at i:41065 original size:18 final size:19
Alignment explanation
Indices: 41009--41059 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
40999 AAAATTACAA
*
41009 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTAT
*
41028 TAAAATTCAAAATAATTAT
1 AAAAATTCAAAATAATTAT
41047 AAAAATTCCAAAA
1 AAAAATT-CAAAA
41060 CTTATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTAT
Found at i:45558 original size:43 final size:43
Alignment explanation
Indices: 45222--45555 Score: 461
Period size: 43 Copynumber: 7.8 Consensus size: 43
45212 TTTTTGAAAT
* ** * **
45222 AAACACCGCTATAGAACATGATCTTTAGCGGCGCTGCTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
45265 AAACACCGCTATAGACTATGATCTTTAGCGACACTTTTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* *
45308 AAACGCCGCTATAGACCATGATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
*
45351 AAACGCCGCTATAGGCCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
*
45394 AAACGCCGCTATAGGCCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
45437 AAATGCCGCTATAGGCCATGACCTTTAGAGGTGCTTCTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
*
45480 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
* *
45523 AAACGCCGCTATAGGCCATAACTTTTAGCGGCG
1 AAACGCCGCTATAGGCCATGACCTTTAGCGGCG
45556 TTTGGTATAA
Statistics
Matches: 266, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 266 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:45676 original size:7 final size:7
Alignment explanation
Indices: 45664--45719 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
45654 AACTAACCGA
45664 ATAATAT
1 ATAATAT
45671 ATAATAT
1 ATAATAT
*
45678 AAAAT-T
1 ATAATAT
45684 A-AATGA-
1 ATAAT-AT
45690 ATAATAT
1 ATAATAT
45697 ATAATAT
1 ATAATAT
45704 A-AATAT
1 ATAATAT
*
45710 A-AATAA
1 ATAATAT
45716 ATAA
1 ATAA
45720 GATGTAATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
5 3 0.07
6 15 0.36
7 24 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (7 bp):
ATAATAT
Found at i:45691 original size:26 final size:26
Alignment explanation
Indices: 45662--45719 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
45652 TAAACTAACC
45662 GAATAATATATAATATAAA-ATTAAAT
1 GAATAATATATAATATAAATA-TAAAT
45688 GAATAATATATAATATAAATATAAAT
1 GAATAATATATAATATAAATATAAAT
*
45714 AAATAA
1 GAATAA
45720 GATGTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (26 bp):
GAATAATATATAATATAAATATAAAT
Found at i:45714 original size:19 final size:20
Alignment explanation
Indices: 45666--45719 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
45656 CTAACCGAAT
45666 AATATATAATATA-AAATTA
1 AATATATAATATATAAATTA
45685 AATGA-ATAATATAT-AATATA
1 AAT-ATATAATATATAAAT-TA
*
45705 AATATA-AATAAATAA
1 AATATATAATATATAA
45720 GATGTAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AATATATAATATATAAATTA
Found at i:45963 original size:21 final size:21
Alignment explanation
Indices: 45937--45987 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
45927 GTAGCTTGAA
*
45937 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCCCTCACTGCAG
* *
45958 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCACTGCAG
*
45979 CCTTTGCTT
1 CCTCTGCTT
45988 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.45, G:0.16, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCACTGCAG
Found at i:45990 original size:67 final size:67
Alignment explanation
Indices: 45871--45999 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
45861 TTCTGCTCTG
** * * *
45871 CTCTGCTTCCCTCGTTGCAGCCTCTGCTTCTCTCGATGTCGCATCTGTTTTAAGTTGTAGCTTGA
1 CTCTGCTTCCCTCACTGCAGCCTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTTGA
45936 AC
66 AC
* * * *
45938 CTCTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCCTTTGCTTTAAGTTGTAGCT
1 CTCTGCTTCCCTCACTGCAGCCTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCT
46000 GGAGTTCTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.10, C:0.33, G:0.19, T:0.38
Consensus pattern (67 bp):
CTCTGCTTCCCTCACTGCAGCCTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTTGA
AC
Found at i:51499 original size:16 final size:16
Alignment explanation
Indices: 51480--51578 Score: 67
Period size: 16 Copynumber: 6.1 Consensus size: 16
51470 TATTAAGTAA
51480 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
51496 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
*
51512 AAGTTACGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* * *
51528 GAGCTATGTAAGTTGTAT
1 -A-TTATGTAAGTTATGT
* *
51546 TTTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
* *
51562 AGTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
51578 A
1 A
51579 AGTTGTGTAT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
16 52 0.83
17 3 0.05
18 8 0.13
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:51509 original size:25 final size:25
Alignment explanation
Indices: 51468--51559 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
51458 TATATATTTC
*
51468 TGTATTA-AGTAAATTATGTAAGTTA
1 TGTATTATA-TAAGTTATGTAAGTTA
51493 TGTATTATATAAGTTATGTAAGTTA
1 TGTATTATATAAGTTATGTAAGTTA
* * * * *
51518 CGTATTATGTGAGCTATGTAAGTTG
1 TGTATTATATAAGTTATGTAAGTTA
* * *
51543 TATTTTATGTAAGTTAT
1 TGTATTATATAAGTTAT
51560 TTAGTATGTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 54 0.98
26 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (25 bp):
TGTATTATATAAGTTATGTAAGTTA
Found at i:51618 original size:16 final size:16
Alignment explanation
Indices: 51573--51609 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
51563 GTATGTAAGC
* *
51573 TATGTAAGTTGTGTAT
1 TATGTAAGCTATGTAT
51589 TATGTAAGCTATGTAT
1 TATGTAAGCTATGTAT
51605 TATGT
1 TATGT
51610 TACTTATGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.49
Consensus pattern (16 bp):
TATGTAAGCTATGTAT
Found at i:51618 original size:25 final size:25
Alignment explanation
Indices: 51548--51603 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
51538 AGTTGTATTT
* * *
51548 TATGTAAGTTATTTAGTATGTAAGC
1 TATGTAAGTTGTGTATTATGTAAGC
51573 TATGTAAGTTGTGTATTATGTAAGC
1 TATGTAAGTTGTGTATTATGTAAGC
51598 TATGTA
1 TATGTA
51604 TTATGTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTGTGTATTATGTAAGC
Found at i:51618 original size:41 final size:41
Alignment explanation
Indices: 51480--51609 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 41
51470 TATTAAGTAA
* * *
51480 ATTATGTAAGTTATGT-A-TTATATAAGTTATGTAAGTTACGT
1 ATTATGTAAGCTATGTAAGTTGTAT-A-TTATGTAAGTTATGT
* * *
51521 ATTATGTGAGCTATGTAAGTTGTATTTTATGTAAGTTATTT
1 ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
* * *
51562 AGTATGTAAGCTATGTAAGTTGTGTATTATGTAAGCTATGT
1 ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
51603 ATTATGT
1 ATTATGT
51610 TACTTATGTC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
41 68 0.92
42 1 0.01
43 5 0.07
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (41 bp):
ATTATGTAAGCTATGTAAGTTGTATATTATGTAAGTTATGT
Found at i:51714 original size:9 final size:9
Alignment explanation
Indices: 51700--51904 Score: 121
Period size: 9 Copynumber: 23.2 Consensus size: 9
51690 AGTTTATATA
51700 TAAGTTATG
1 TAAGTTATG
51709 TAAGTTATG
1 TAAGTTATG
51718 T-A-TTATG
1 TAAGTTATG
*
51725 TATGTTATG
1 TAAGTTATG
*
51734 TAAGTTGTG
1 TAAGTTATG
*
51743 TATAATGTAAT-
1 --TAA-GTTATG
51754 TAAGTTATG
1 TAAGTTATG
51763 TAAG-T-TG
1 TAAGTTATG
51770 TAAGTTATG
1 TAAGTTATG
51779 TAAGTTATG
1 TAAGTTATG
*
51788 TATA-ATAT-
1 TA-AGTTATG
51796 TAA-TTAAT-
1 TAAGTT-ATG
*
51804 TATGTTATG
1 TAAGTTATG
51813 TAAGTTATG
1 TAAGTTATG
*
51822 TATAATATTAATG
1 --TAA-GTT-ATG
51835 TAAGTTATG
1 TAAGTTATG
51844 T-A-TTATG
1 TAAGTTATG
* *
51851 TAAATTATT
1 TAAGTTATG
51860 TAAGTTATG
1 TAAGTTATG
**
51869 TAAGTCGTG
1 TAAGTTATG
51878 T-A-TTATG
1 TAAGTTATG
*
51885 TGAGTTATG
1 TAAGTTATG
* *
51894 CAATTTATG
1 TAAGTTATG
51903 TA
1 TA
51905 GGCTATATAT
Statistics
Matches: 153, Mismatches: 23, Indels: 40
0.71 0.11 0.19
Matches are distributed among these distances:
7 24 0.16
8 19 0.12
9 90 0.59
10 3 0.02
11 9 0.06
12 5 0.03
13 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51731 original size:25 final size:25
Alignment explanation
Indices: 51703--51790 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
51693 TTATATATAA
51703 GTTATGTAAGTTATGTATTATGTAT
1 GTTATGTAAGTTATGTATTATGTAT
*
51728 GTTATGTAAGTTGTGTA-TA---AT
1 GTTATGTAAGTTATGTATTATGTAT
* * *
51749 GTAAT-TAAGTTATGTAAGT-TGTAA
1 GTTATGTAAGTTATGT-ATTATGTAT
51773 GTTATGTAAGTTATGTAT
1 GTTATGTAAGTTATGTAT
51791 AATATTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
20 9 0.18
21 7 0.14
22 1 0.02
24 8 0.16
25 26 0.51
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.48
Consensus pattern (25 bp):
GTTATGTAAGTTATGTATTATGTAT
Found at i:51811 original size:34 final size:36
Alignment explanation
Indices: 51773--51858 Score: 131
Period size: 34 Copynumber: 2.4 Consensus size: 36
51763 TAAGTTGTAA
51773 GTTATGTAAGTTATGTATAATATTAAT-TAA-TTAT
1 GTTATGTAAGTTATGTATAATATTAATGTAAGTTAT
51807 GTTATGTAAGTTATGTATAATATTAATGTAAGTTAT
1 GTTATGTAAGTTATGTATAATATTAATGTAAGTTAT
*
51843 GTATTATGTAAATTAT
1 G--TTATGTAAGTTAT
51859 TTAAGTTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
34 27 0.57
35 3 0.06
36 5 0.11
38 12 0.26
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (36 bp):
GTTATGTAAGTTATGTATAATATTAATGTAAGTTAT
Found at i:51873 original size:34 final size:34
Alignment explanation
Indices: 51832--51921 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
51822 TATAATATTA
**
51832 ATGTAAGTTATGTATTATGTAAATTATTTAAGTT
1 ATGTAAGTTATGTATTATGTAAATTATGCAAGTT
** * * *
51866 ATGTAAGTCGTGTATTATGTGAGTTATGCAATTT
1 ATGTAAGTTATGTATTATGTAAATTATGCAAGTT
* * *
51900 ATGTAGGCTATATATTATGTAA
1 ATGTAAGTTATGTATTATGTAA
51922 GTTTTAAAGA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (34 bp):
ATGTAAGTTATGTATTATGTAAATTATGCAAGTT
Found at i:53070 original size:14 final size:14
Alignment explanation
Indices: 53051--53077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53041 AACAGAAACC
53051 CGAATAACAAAATT
1 CGAATAACAAAATT
53065 CGAATAACAAAAT
1 CGAATAACAAAAT
53078 CTGAAATATT
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:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (14 bp):
CGAATAACAAAATT
Found at i:53306 original size:6 final size:6
Alignment explanation
Indices: 53295--53326 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
53285 AGCGAAGAGC
53295 GACGGT GACGGT GACGGT GACGGT GACGGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GA
53327 TGCAGTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.16, G:0.50, T:0.16
Consensus pattern (6 bp):
GACGGT
Found at i:54196 original size:147 final size:147
Alignment explanation
Indices: 53604--54380 Score: 548
Period size: 147 Copynumber: 5.3 Consensus size: 147
53594 GACAGTCTTC
* * * * *
53604 ATTCTGGTGTTTTGGCATAAAACGCCACTCATAACATTGG-AAAACGACAACGTTTTCCATGACT
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACA-TGGAAAAACGACGACGTATTCCATGACT
* * * * *
53668 AAACT-AACAAATTTGCGACGTTTCTACATAAGCGCCACTAAA-TAACCCTAGAAACGATGTCGT
65 AAA-TGAACCAATTTGCGGCGTTTATACACAAGCGCCACTAAACTAA-CCTAGAAACGACGTCGT
* *
53731 TT-CCAAACACTTACGACAAAT
128 TTCCCAAACAATTA-G-TAAAT
* ** * * *
53752 -TTCTGGCGTTTTGGTATAAAACGCCACTATTAAC-TAGCAAAACGACGACGTATT-CTTGACTA
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAAAACGACGACGTATTCCATGACTA
** * ** *
53814 AATTTACCCATTTGCGGCGTTTATACACAAGCGCCAC-AAACTAAAAGTAGAAACG-CTGTCTTT
66 AATGAACCAATTTGCGGCGTTTATACACAAGCGCCACTAAACT-AACCTAGAAACGAC-GTCGTT
** ** *
53877 TAACAGTCAGTTAGTCAAA-
129 TCCCAAACAATTAGT-AAAT
* * * * * * * *
53896 ATTGTGGCGCTTAGGCATAAAATGCCAGTCACAACATGGAAAAACGACGACGTTTTCCATGACTA
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAAAACGACGACGTATTCCATGACTA
* * * ** * * * *
53961 AACGAA-GAACTTTGCGGCGTTTACACGTAAGTGCCACTAAATTAACCATGGAAACGAAGTCGTT
66 AATGAACCAA-TTTGCGGCGTTTATACACAAGCGCCACTAAACTAACC-TAGAAACGACGTCGTT
* *
54025 TCCCAAACAATTAGGACAAC
129 TCCCAAACAATTAGTA-AAT
* *
54045 ATTCTGGCGTTTTGGTATAAAACGCCACTAAGAACATGGAAAAATGACGACGTATT-CATGACTA
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAAAACGACGACGTATTCCATGACTA
* * ** *
54109 AATGAACCCATTCGCGGCGTTTATA-ATCTTGCGCCACTAAA-TAACCTCAGAAACGACGTTGTT
66 AATGAACCAATTTGCGGCGTTTATACA-CAAGCGCCACTAAACTAACCT-AGAAACGACGTCGTT
*
54172 TCCCACACAATTATGTAAAT
129 TCCCAAACAATTA-GTAAAT
* * * * * *
54192 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATAGTAATACGACGCCGT-TT-TATGGGAT
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAAAACGACGACGTATTCCAT--GAC
* ** * ** *
54255 TAAATTAACCCGTTTGTGGCGTTTATACGTATGCGCCACTAAA-TAACCGT-GAAACG-CTGTCG
64 TAAATGAACCAATTTGCGGCGTTTATACACAAGCGCCACTAAACTAACC-TAGAAACGAC-GTCG
** * *
54317 TTTCCCCGATAATTAGGACAAT
127 TTTCCCAAACAATTAGTA-AAT
* * * * *
54339 TTTGTGGCATTTTTGCATAAAACGCCACTAAGAACTTGGAAA
1 ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAA
54381 TTTTGAAAAT
Statistics
Matches: 493, Mismatches: 110, Indels: 53
0.75 0.17 0.08
Matches are distributed among these distances:
144 4 0.01
145 82 0.17
146 49 0.10
147 203 0.41
148 107 0.22
149 48 0.10
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (147 bp):
ATTCTGGCGTTTTGGCATAAAACGCCACTAAGAACATGGAAAAACGACGACGTATTCCATGACTA
AATGAACCAATTTGCGGCGTTTATACACAAGCGCCACTAAACTAACCTAGAAACGACGTCGTTTC
CCAAACAATTAGTAAAT
Found at i:54699 original size:20 final size:20
Alignment explanation
Indices: 54674--54711 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
54664 AAAACTTAAA
54674 TTAAACCCTAAACACTAACC
1 TTAAACCCTAAACACTAACC
*
54694 TTAAACCCTAAACCCTAA
1 TTAAACCCTAAACACTAA
54712 ATCATAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAACCCTAAACACTAACC
Found at i:54712 original size:14 final size:14
Alignment explanation
Indices: 54675--54729 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
54665 AAACTTAAAT
*
54675 TAAACCCTAAACAC
1 TAAACCCTAAACCC
*
54689 T-AACCTTAAACCC
1 TAAACCCTAAACCC
* *
54702 TAAACCCTAAATCA
1 TAAACCCTAAACCC
54716 TAAACCCGTAAACC
1 TAAACCC-TAAACC
54730 ACAAACACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.33
14 17 0.52
15 5 0.15
ACGTcount: A:0.45, C:0.35, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:54735 original size:15 final size:14
Alignment explanation
Indices: 54676--54750 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
54666 AACTTAAATT
54676 AAACCCTAAA-CAC
1 AAACCCTAAACCAC
* *
54689 TAACCTTAAACC-C
1 AAACCCTAAACCAC
* *
54702 TAAACCCTAAATCAT
1 -AAACCCTAAACCAC
54717 AAACCCGTAAACCAC
1 AAACCC-TAAACCAC
*
54732 AAACAC-AAACCACC
1 AAACCCTAAACCA-C
54746 AAACC
1 AAACC
54751 TCAAAATCCA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
13 15 0.32
14 21 0.45
15 11 0.23
ACGTcount: A:0.49, C:0.37, G:0.01, T:0.12
Consensus pattern (14 bp):
AAACCCTAAACCAC
Found at i:55342 original size:45 final size:46
Alignment explanation
Indices: 55278--55371 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 46
55268 GCTCCGCTAA
* * * *
55278 TGCCACTACATCTCAAATCAAAATGATGGGTTTTGA-TTATTTTTT
1 TGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTTAATTTTT
55323 TGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTTAATTTTT
1 TGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTTAATTTTT
55369 TGC
1 TGC
55372 AGCGTTTCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 33 0.75
46 11 0.25
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCACTACATCTCAAATCAAAACGATGCGTTTGGATTTAATTTTT
Found at i:55640 original size:40 final size:40
Alignment explanation
Indices: 55596--55688 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
55586 ATGAATATTA
* *
55596 TTAGCGGCGTTTTAT-TAGAATCGCCGCTAATGCTCAATTT
1 TTAGCGGCGTTTTATCT-CAAGCGCCGCTAATGCTCAATTT
* * *
55636 TTAGCGGTGTTTTCTCTCAAGCGCCGCTAATGCTCGATTT
1 TTAGCGGCGTTTTATCTCAAGCGCCGCTAATGCTCAATTT
*
55676 TTACCGGCGTTTT
1 TTAGCGGCGTTTT
55689 TTATCCAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (40 bp):
TTAGCGGCGTTTTATCTCAAGCGCCGCTAATGCTCAATTT
Found at i:56267 original size:24 final size:24
Alignment explanation
Indices: 56240--56291 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
56230 AAATATACAT
56240 ATATTT-TTATTTTATATTGTA-TTA
1 ATATTTGTT-TTTTA-ATTGTAGTTA
*
56264 ATATTTGTTTTTTAATTTTAGTTA
1 ATATTTGTTTTTTAATTGTAGTTA
56288 ATAT
1 ATAT
56292 GAAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 18 0.72
25 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTTAATTGTAGTTA
Found at i:57186 original size:16 final size:16
Alignment explanation
Indices: 57161--57225 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
57151 TTCGCTGTAT
57161 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
57177 TGGAAAAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
57193 TGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAA
57209 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
57225 T
1 T
57226 AGCAAATCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:57487 original size:14 final size:15
Alignment explanation
Indices: 57448--57489 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
57438 TTTTAACACA
*
57448 ATTATTATTAAATAT
1 ATTATAATTAAATAT
57463 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
57477 A-TATAATTTAATA
1 ATTATAATTAAATA
57490 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:58924 original size:46 final size:46
Alignment explanation
Indices: 58857--59040 Score: 368
Period size: 46 Copynumber: 4.0 Consensus size: 46
58847 CAAATGCACA
58857 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
1 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
58903 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
1 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
58949 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
1 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
58995 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
1 GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
59041 CTCGCAAAAG
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 138 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (46 bp):
GAAACACTACTTTCAATGCATTTAAGCAAATTATCCAGTTCTCCTT
Found at i:66893 original size:207 final size:207
Alignment explanation
Indices: 66545--66921 Score: 558
Period size: 207 Copynumber: 1.8 Consensus size: 207
66535 AGAAATTGAC
* * **
66545 TAGAAAAAGTTGTGATGAGTATCTTGCATGCATTCTTGCTTCACAGGTGTTAGAATCGAAAATTG
1 TAGAAAAAGTTGTGAGGAGTATCTTGCATACATTCTTAATTCACAGGTGTTAGAATCGAAAATTG
** * * * **
66610 ATCAAGTGTCGATAGTTAAAGAATTTGCTGATGTGTTTCTTTAAGAATTACTCAGGTTGCCACTG
66 ATCAAGTACCGATAGTTAAAGAATTTGCTGATGGGTTTCCTAAAGAATTACTCAGGTTGCCACCA
* * *
66675 ATTAGAGAAGTCAAATTTGTAATCAAACTTGTACCTAGAACAGTTTCGATTTCAACATTGTTAGC
131 ATTAAAGAAGTCAAATTTGTAATAAAAATTGTACCTAGAACAGTTTCGATTTCAACATTGTTAGC
66740 TCAAAAATTTAT
196 TCAAAAATTTAT
* *
66752 TAGAAAAGGTTGTGGGGAGTATCTTGCATACATTCTTAATTCAC-GAGTGTTAGAATCGAAAATT
1 TAGAAAAAGTTGTGAGGAGTATCTTGCATACATTCTTAATTCACAG-GTGTTAGAATCGAAAATT
* ** *
66816 GATCAAGTACCGATAGTTAAAGAATTTGTTGATGGGTTTCCTAAAGAATTACTTGGGTTGTCACC
65 GATCAAGTACCGATAGTTAAAGAATTTGCTGATGGGTTTCCTAAAGAATTACTCAGGTTGCCACC
66881 AATTAAAGAAGTCAAATTTGTAATAAAAATTGTACCTAGAA
130 AATTAAAGAAGTCAAATTTGTAATAAAAATTGTACCTAGAA
66922 TAGCTCTGAT
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
206 1 0.01
207 148 0.99
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (207 bp):
TAGAAAAAGTTGTGAGGAGTATCTTGCATACATTCTTAATTCACAGGTGTTAGAATCGAAAATTG
ATCAAGTACCGATAGTTAAAGAATTTGCTGATGGGTTTCCTAAAGAATTACTCAGGTTGCCACCA
ATTAAAGAAGTCAAATTTGTAATAAAAATTGTACCTAGAACAGTTTCGATTTCAACATTGTTAGC
TCAAAAATTTAT
Found at i:72269 original size:20 final size:19
Alignment explanation
Indices: 72224--72273 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
72214 GTGATCCCTG
72224 TTTTCAAAATTTTCTAATT
1 TTTTCAAAATTTTCTAATT
*
72243 TTTTCAAAATTTTCTATTT
1 TTTTCAAAATTTTCTAATT
72262 TGTTTCAAAATT
1 T-TTTCAAAATT
72274 GTCTCAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTCAAAATTTTCTAATT
Found at i:73240 original size:3 final size:3
Alignment explanation
Indices: 73219--73295 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
73209 GAATAGACTT
* ** * *
73219 ATA ATCA ATA ATA ACA ATA ATA ATA ATA ATA GCA ATA ATAA ATA GTG
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* **
73266 ATA A-A ATA ATA ACA ATA GCA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
73296 AATTAAAATT
Statistics
Matches: 55, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
2 2 0.04
3 47 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:73246 original size:18 final size:18
Alignment explanation
Indices: 73219--73295 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
73209 GAATAGACTT
73219 ATAATCAATAATAACAATA
1 ATAAT-AATAATAACAATA
*
73238 ATAATAATAATAGCAATA
1 ATAATAATAATAACAATA
* * *
73256 AT-A-AATAGTGATAA-A
1 ATAATAATAATAACAATA
* *
73271 ATAATAACAATAGCAATA
1 ATAATAATAATAACAATA
73289 ATAATAA
1 ATAATAA
73296 AATTAAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
15 3 0.07
16 8 0.18
17 7 0.16
18 22 0.49
19 5 0.11
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:74283 original size:15 final size:15
Alignment explanation
Indices: 74265--74295 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74255 GGCTAGGGTT
74265 ATTGGGCTTAGGCTA
1 ATTGGGCTTAGGCTA
*
74280 ATTGGGTTTAGGCTA
1 ATTGGGCTTAGGCTA
74295 A
1 A
74296 GGCTAATTGG
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:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (15 bp):
ATTGGGCTTAGGCTA
Found at i:74298 original size:21 final size:21
Alignment explanation
Indices: 74269--74311 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
74259 AGGGTTATTG
*
74269 GGCTTAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
74290 GGCTAAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
74311 G
1 G
74312 TGTTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.35, T:0.35
Consensus pattern (21 bp):
GGCTAAGGCTAATTGGGTTTA
Found at i:74619 original size:44 final size:44
Alignment explanation
Indices: 74571--74681 Score: 107
Period size: 44 Copynumber: 2.5 Consensus size: 44
74561 TGCAATGTCG
* *
74571 GGGAGATAGGACTTGTAACCTTTAACCTATTCTACTGCTGGTCA
1 GGGAGATAGGACTTGTAACCTTCAACCTATTCCACTGCTGGTCA
** ** * *
74615 GGGAGAT-GAGACTTACAGTCTTCCACCTATTCCACTGTTGGTCA
1 GGGAGATAG-GACTTGTAACCTTCAACCTATTCCACTGCTGGTCA
* * *
74659 CGGAGATATGACTTGTAATCTTC
1 GGGAGATAGGACTTGTAACCTTC
74682 GATTTGCTTC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (44 bp):
GGGAGATAGGACTTGTAACCTTCAACCTATTCCACTGCTGGTCA
Found at i:74800 original size:44 final size:43
Alignment explanation
Indices: 74676--75329 Score: 302
Period size: 44 Copynumber: 14.9 Consensus size: 43
74666 ATGACTTGTA
* * **
74676 ATCTTCGATTTGCTTCGCTGTCAGTACAAGAAGGCAAGATTTGTT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * * * *** **
74721 ATATTCAACCTGCTCCACTG-CAACCCAGGGGGGCAAGGCTAGT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCT-GT
* * * * *
74764 GTCTTCGATCTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCA
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * * * *
74809 ATCTTCAACCTGCTCCACTG-CAACT-CAGGGAGGCAAGGCTGGT
1 ATCTTCGATCTGCTTCGCTGTC-AGTACAGGAAGGCAAGGCT-GT
* *
74852 ATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * *
74897 ATCTTCAATCTACTCCGCTG-CA--ACCGAGGGAGGCAAGGCTGGT
1 ATCTTCGATCTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGGCT-GT
* *
74940 ATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * * * *
74985 ATCTTCAACCTGCTCCACTG-CA--ACCTAGGGAGGCAAGGTTGGT
1 ATCTTCGATCTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGGCT-GT
* ** *
75028 ATCTTCGATCTGCTTCGCTGTTAGCGCAGGAAGGCAAGATCTGCT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * * *
75073 ATCTTCAACCTGCTCCACTG-CA--ACCGAGGGAGGCAAGGCTGGT
1 ATCTTCGATCTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGGCT-GT
* *
75116 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGTT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
** * * * *
75161 ATCTTTAACCTGCTCCACTG-CA--ACCGAGGGAGGCAAGGCTGGT
1 ATCTTCGATCTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGGCT-GT
* *
75204 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGCT
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTG-T
* * * * *
75249 ATCTTC-ATCCTACTCCACTG-CA--ACCGAGGGAGGTAAGGCTGGT
1 ATCTTCGAT-CTGCTTCGCTGTCAGTA-C-AGGAAGGCAAGGCT-GT
*
75292 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
75330 ATCTGCTATC
Statistics
Matches: 448, Mismatches: 111, Indels: 101
0.68 0.17 0.15
Matches are distributed among these distances:
42 2 0.00
43 133 0.30
44 180 0.40
45 130 0.29
46 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (43 bp):
ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGT
Found at i:74826 original size:88 final size:88
Alignment explanation
Indices: 74676--75463 Score: 1163
Period size: 88 Copynumber: 9.0 Consensus size: 88
74666 ATGACTTGTA
* * * * *
74676 ATCTTCGATTTGCTTCGCTGTCAGTACAAGAAGGCAAGATTTGTTATATTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
* * *
74741 CAACCCAGGGGGGCAAGGCTAGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * * *
74764 GTCTTCGATCTACTTCACTGTCAGTACAGGAAGGCAAGATCTGCAATCTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
74829 CAACTC-AGGGAGGCAAGGCTGGT
66 CAAC-CGAGGGAGGCAAGGCTGGT
* * * *
74852 ATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAATCTACTCCGCTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
74917 CAACCGAGGGAGGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
*
74940 ATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
* *
75005 CAACCTAGGGAGGCAAGGTTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* **
75028 ATCTTCGATCTGCTTCGCTGTTAGCGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
75093 CAACCGAGGGAGGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * *
75116 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGTTATCTTTAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
75181 CAACCGAGGGAGGCAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * *
75204 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGCTATCTTCATCCTACTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
*
75269 CAACCGAGGGAGGTAAGGCTGGT
66 CAACCGAGGGAGGCAAGGCTGGT
* *
75292 ATCTTCGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
* *
75357 CAACCGAGGGAGGTAAGGCTAGT
66 CAACCGAGGGAGGCAAGGCTGGT
* * * * *
75380 ATCTTTGATCTGCTCTACTACTG-C--T-TAGGGAGGCAAGATCTGCTATCTTTAACCTGCTCCA
1 ATCTTCGATCTGCT-T-C-GCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCA
75441 CTGCAACCGAGGGAGGCAAGGCT
63 CTGCAACCGAGGGAGGCAAGGCT
75464 TTGTTTTCGA
Statistics
Matches: 648, Mismatches: 47, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
87 57 0.09
88 584 0.90
89 2 0.00
90 2 0.00
91 3 0.00
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.25
Consensus pattern (88 bp):
ATCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTG
CAACCGAGGGAGGCAAGGCTGGT
Found at i:75437 original size:44 final size:44
Alignment explanation
Indices: 74795--75460 Score: 262
Period size: 44 Copynumber: 15.2 Consensus size: 44
74785 CAGTACAGGA
* * *
74795 AGGCAAGATCTGCAATCTTCAACCTGCTCCACTGCAACTC-AGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAAC-CGAGGG
* * ** * * * * ** *
74839 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTC-AGTGCAGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAACCG-AGGG
* * * * *
74883 AGGCAAGATCTGCTATCTTCAATCTACTCCGCTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * ** * * * * ** *
74927 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTC-AGTGCAGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAACCG-AGGG
* * *
74971 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCTAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * ** * * * *** * *
75015 AGGCAAGGT-TGGTATCTTCGATCTGCTTCGCTGTTAGCGCAGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCG-AGGG
* *
75059 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * ** * * * * * *
75103 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGCAC-AGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAAC-CGAGGG
* *
75147 AGGCAAGATCTGTTATCTTTAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * ** * * * * * *
75191 AGGCAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGCAC-AGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAAC-CGAGGG
* * * *
75235 AGGCAAGATCTGCTATCTTCATCCTACTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * * ** * * * * * *
75279 AGGTAAG-GCTGGTATCTTCGATCTGCTTCGCTGTCAGCAC-AGGA
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACT-ACAAC-CGAGGG
*
75323 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
* * * * * ** **
75367 AGGTAAG-GCTAG-TATCTTTGATCTGCTCTACTACTGCTTAGGG
1 AGGCAAGATCT-GCTATCTTTAACCTGCTCCACTACAACCGAGGG
*
75410 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
75454 AGGCAAG
1 AGGCAAG
75461 GCTTTGTTTT
Statistics
Matches: 452, Mismatches: 144, Indels: 52
0.70 0.22 0.08
Matches are distributed among these distances:
43 151 0.33
44 181 0.40
45 120 0.27
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGG
Found at i:76729 original size:13 final size:13
Alignment explanation
Indices: 76713--76742 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
76703 CATTTTTACT
*
76713 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
76726 TTTTCCATTTTCA
1 TTTTCCATTTTCA
76739 TTTT
1 TTTT
76743 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:76763 original size:21 final size:20
Alignment explanation
Indices: 76719--76763 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
76709 TACTTTTTCC
76719 TTTTTCATTTTCCATTTTCAT
1 TTTTTCATTTTCCATTTT-AT
76740 TTTTTCACTTTTCGCATTTT-T
1 TTTTTCA-TTTTC-CATTTTAT
76761 TTT
1 TTT
76764 ACTCAAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTCATTTTCCATTTTAT
Found at i:82663 original size:3 final size:3
Alignment explanation
Indices: 82645--82717 Score: 55
Period size: 3 Copynumber: 25.3 Consensus size: 3
82635 GAATAGACTT
* * * *
82645 ATA ATCA ATT ATA ATA ATA ATA ATA ATA ACA ATA A-A A-A ATA GTG
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
82689 ATA A-A A-A ATA ATA ATA GCA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
82718 AAAAAAATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
2 8 0.15
3 44 0.80
4 3 0.05
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:83731 original size:15 final size:15
Alignment explanation
Indices: 83713--83743 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83703 GGCTAGGGTT
83713 ATTGGGCTTAGGCTA
1 ATTGGGCTTAGGCTA
*
83728 ATTGGGTTTAGGCTA
1 ATTGGGCTTAGGCTA
83743 A
1 A
83744 GGCTAATTGG
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:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (15 bp):
ATTGGGCTTAGGCTA
Found at i:83746 original size:21 final size:21
Alignment explanation
Indices: 83717--83759 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
83707 AGGGTTATTG
*
83717 GGCTTAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
83738 GGCTAAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
83759 G
1 G
83760 TGTTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.35, T:0.35
Consensus pattern (21 bp):
GGCTAAGGCTAATTGGGTTTA
Found at i:87861 original size:20 final size:20
Alignment explanation
Indices: 87814--87861 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
87804 TTTTGGGCAT
**
87814 TGAAGTATCAATACTTTTGA
1 TGAAGTATCAATACTTAAGA
*
87834 T-AATGTATCAATACTTAAGG
1 TGAA-GTATCAATACTTAAGA
87854 TGAAGTAT
1 TGAAGTAT
87862 TGACACCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (20 bp):
TGAAGTATCAATACTTAAGA
Found at i:95370 original size:26 final size:28
Alignment explanation
Indices: 95347--95500 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 28
95337 AAATAAAAAA
95347 ATACCAAAATAATATACAAAAAAAATAT
1 ATACCAAAATAATATACAAAAAAAATAT
*
95375 TTACCAAAAT-A-ATACAAAAAAAATAAT
1 ATACCAAAATAATATACAAAAAAAAT-AT
* * * * *
95402 ATACAAAAAAAATATTTACCAAAATAATAC
1 ATACCAAAATAATA--TACAAAAAAAATAT
**
95432 A-AAAAAAATAATATACAAAAAAAATAT
1 ATACCAAAATAATATACAAAAAAAATAT
*
95459 TTACCAAAAT-A-ATACAAAAAAAATAAT
1 ATACCAAAATAATATACAAAAAAAAT-AT
* *
95486 ATACAAAAAAAATAT
1 ATACCAAAATAATAT
95501 TTACCAAAAT
Statistics
Matches: 99, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
26 26 0.26
27 31 0.31
28 17 0.17
29 13 0.13
30 2 0.02
31 10 0.10
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (28 bp):
ATACCAAAATAATATACAAAAAAAATAT
Found at i:95371 original size:16 final size:15
Alignment explanation
Indices: 95352--95514 Score: 125
Period size: 16 Copynumber: 11.4 Consensus size: 15
95342 AAAAAATACC
95352 AAAATAATATACAAAA
1 AAAAT-ATATACAAAA
* *
95368 AAAATATTTAC---C
1 AAAATATATACAAAA
95380 AAAATA-ATACAAAA
1 AAAATATATACAAAA
95394 AAAATAATATACAAAA
1 AAAAT-ATATACAAAA
* *
95410 AAAATATTTAC---C
1 AAAATATATACAAAA
95422 AAAATA-ATACAAAA
1 AAAATATATACAAAA
95436 AAAATAATATACAAAA
1 AAAAT-ATATACAAAA
* *
95452 AAAATATTTAC---C
1 AAAATATATACAAAA
95464 AAAATA-ATACAAAA
1 AAAATATATACAAAA
95478 AAAATAATATACAAAA
1 AAAAT-ATATACAAAA
* *
95494 AAAATATTTACCAAA
1 AAAATATATACAAAA
*
95509 ATAATA
1 AAAATA
95515 CAAAAAAAAA
Statistics
Matches: 117, Mismatches: 15, Indels: 31
0.72 0.09 0.19
Matches are distributed among these distances:
11 9 0.08
12 18 0.15
14 15 0.13
15 31 0.26
16 44 0.38
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATATATACAAAA
Found at i:95405 original size:42 final size:42
Alignment explanation
Indices: 95352--95523 Score: 344
Period size: 42 Copynumber: 4.1 Consensus size: 42
95342 AAAAAATACC
95352 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
1 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
95394 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
1 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
95436 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
1 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
95478 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
1 AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
95520 AAAA
1 AAAA
95524 ACAAAGACGG
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (42 bp):
AAAATAATATACAAAAAAAATATTTACCAAAATAATACAAAA
Found at i:98591 original size:21 final size:21
Alignment explanation
Indices: 98565--98627 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
98555 ATATTGGAGC
98565 ATTTATAAATAAATATTAGTA
1 ATTTATAAATAAATATTAGTA
* * *
98586 ATTTATTTAACATAGATAATAATTA
1 ATTTA--TAA-ATAAAT-ATTAGTA
98611 A-TTATAAATAAATATTA
1 ATTTATAAATAAATATTA
98628 AAGCTCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 3 0.09
23 3 0.09
24 8 0.24
25 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (21 bp):
ATTTATAAATAAATATTAGTA
Found at i:100330 original size:42 final size:42
Alignment explanation
Indices: 100271--100366 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
100261 TTTTAGAAAT
*
100271 AAACGCCGCTATGATCATGACTTTTAGTGGCGCTTCTCCTAC
1 AAACGCCGCTATGATCATGACTTTTAGTGGCGCTTCTCCCAC
* *
100313 AAACGCCGCTATGATCATGACTTTTAGTGGTGCTTTTCCCAC
1 AAACGCCGCTATGATCATGACTTTTAGTGGCGCTTCTCCCAC
100355 AAACGCCGCTAT
1 AAACGCCGCTAT
100367 AGAACATAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (42 bp):
AAACGCCGCTATGATCATGACTTTTAGTGGCGCTTCTCCCAC
Found at i:100397 original size:43 final size:43
Alignment explanation
Indices: 100271--100459 Score: 159
Period size: 43 Copynumber: 4.4 Consensus size: 43
100261 TTTTAGAAAT
* * * ** *
100271 AAACGCCGCT-ATGATCATGACTTTTAGTGGCGCTTCT-CCTAC
1 AAACGCCGCTAAAGAACATGACTTTTAGCGATGCTT-TACCCAC
* * * * *
100313 AAACGCCGCT-ATGATCATGACTTTTAGTGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACTTTTAGCGATGCTTTACCCAC
* * * *
100355 AAACGCCGCTATAGAACATAAGTTTTAGCGATACTTTACCCAC
1 AAACGCCGCTAAAGAACATGACTTTTAGCGATGCTTTACCCAC
* * * * *
100398 AAACGCTGTTAAAGAACATGACCTTTAGCGACGCTTTACCAAC
1 AAACGCCGCTAAAGAACATGACTTTTAGCGATGCTTTACCCAC
*
100441 AAATGCCGCTAAAGAACAT
1 AAACGCCGCTAAAGAACAT
100460 CCGCCAAAGA
Statistics
Matches: 122, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 48 0.39
43 73 0.60
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACTTTTAGCGATGCTTTACCCAC
Found at i:105387 original size:22 final size:22
Alignment explanation
Indices: 105352--105406 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
105342 CTTAAATCCC
*
105352 AACCCTTAAA-CCATAAATCAT
1 AACCCATAAACCCATAAATCAT
*
105373 AATCCC-TAAACCCATAATTCAT
1 AA-CCCATAAACCCATAAATCAT
105395 AACCCATAAACC
1 AACCCATAAACC
105407 TTAAGATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.30
22 21 0.70
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCCATAAACCCATAAATCAT
Found at i:105440 original size:14 final size:14
Alignment explanation
Indices: 105421--105460 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
105411 GATAGTAACT
*
105421 CCTAAACTTTAAAC
1 CCTAAACTATAAAC
*
105435 CCTAAACCATAAAC
1 CCTAAACTATAAAC
105449 CCTAAACTATAA
1 CCTAAACTATAA
105461 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:105525 original size:14 final size:14
Alignment explanation
Indices: 105506--105645 Score: 97
Period size: 14 Copynumber: 9.8 Consensus size: 14
105496 CTAGTTAATC
105506 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
105520 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
105533 TAAAACCCTAAAACCA
1 T-AAACCCT-AAACCA
*
105549 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* *
105562 AATAACCTCTAAACCT
1 TA-AACC-CTAAACCA
* *
105578 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
*
105592 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
105606 TAAACCATAATCCC
1 TAAACCCTAAACCA
*
105620 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
105635 TAAACCTTAAA
1 TAAACCCTAAA
105646 ATGGCAACAC
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
13 16 0.16
14 42 0.42
15 34 0.34
16 8 0.08
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:105540 original size:8 final size:7
Alignment explanation
Indices: 105505--105645 Score: 72
Period size: 7 Copynumber: 19.7 Consensus size: 7
105495 ACTAGTTAAT
105505 CTAAACC
1 CTAAACC
105512 CTAAACC
1 CTAAACC
*
105519 ATAAA-C
1 CTAAACC
105525 CTAAACC
1 CTAAACC
105532 CTAAAACC
1 CT-AAACC
105540 CTAAAACC
1 CT-AAACC
*
105548 ATAAACC
1 CTAAACC
*
105555 CTTAA-C
1 CTAAACC
**
105561 AAATAACC
1 CTA-AACC
105569 TCTAAACC
1 -CTAAACC
*
105577 TTAAACC
1 CTAAACC
*
105584 C-CAACC
1 CTAAACC
*
105590 TTTAAACC
1 -CTAAACC
*
105598 ATAAACC
1 CTAAACC
*
105605 ATAAACC
1 CTAAACC
* *
105612 ATAATCC
1 CTAAACC
105619 CTAAACC
1 CTAAACC
*
105626 CATAATCC
1 C-TAAACC
*
105634 ATAAACC
1 CTAAACC
*
105641 TTAAA
1 CTAAA
105646 ATGGCAACAC
Statistics
Matches: 103, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
6 10 0.10
7 64 0.62
8 28 0.27
9 1 0.01
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:105686 original size:14 final size:14
Alignment explanation
Indices: 105667--105700 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
105657 TAAACCTGTT
* *
105667 TAAACCATATACCC
1 TAAACCAAAAACCC
105681 TAAACCAAAAACCC
1 TAAACCAAAAACCC
105695 TAAACC
1 TAAACC
105701 CATAATCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCAAAAACCC
Found at i:105696 original size:75 final size:75
Alignment explanation
Indices: 105590--105774 Score: 316
Period size: 75 Copynumber: 2.5 Consensus size: 75
105580 AACCCCAACC
* * * *
105590 TTTAAACCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATGGCAACA
1 TTTAAACCATATACCCTAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGCAACA
*
105655 CCTAAACCTG
66 CCTAAACCTA
*
105665 TTTAAACCATATACCCTAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACA
1 TTTAAACCATATACCCTAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGCAACA
105730 CCTAAACCTA
66 CCTAAACCTA
105740 TTTAAACCATATACCCTAAACCAAAAACCCTAAAC
1 TTTAAACCATATACCCTAAACCAAAAACCCTAAAC
105775 TATAGTGATA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 104 1.00
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (75 bp):
TTTAAACCATATACCCTAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGCAACA
CCTAAACCTA
Found at i:106067 original size:39 final size:40
Alignment explanation
Indices: 105957--106107 Score: 205
Period size: 40 Copynumber: 3.8 Consensus size: 40
105947 CTTGGAAAAT
*
105957 GCCGCTAATGCTCTATTTTTAGCGGTGTTTTTCAAAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGC
* * * **
105997 GCTGCTAATGTTCTATTTTTAGTGGTATTTTTCAAAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGC
* * *
106037 GCCGCGAATGCTCTA-TTTTAGCTGCGTTTTTCTAAAAGC
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGC
*
106076 GCCGCTAATGCTCAATTTTTAGCGGCGTTTTT
1 GCCGCTAATGCTCTATTTTTAGCGGCGTTTTT
106108 TGTCCAAACG
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.34
40 63 0.66
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
GCCGCTAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGC
Found at i:106107 original size:79 final size:80
Alignment explanation
Indices: 105957--106107 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 80
105947 CTTGGAAAAT
* * * * * *
105957 GCCGCTAATGCTCTATTTTTAGCGGTGTTTTTCAAAAAGCGCTGCTAATGTTCTATTTTTAGTGG
1 GCCGCGAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATTTTTAGCGG
*
106022 TATTTTTCAAAAAGC
66 CATTTTTCAAAAAGC
* *
106037 GCCGCGAATGCTCTA-TTTTAGCTGCGTTTTTCTAAAAGCGCCGCTAATGCTCAATTTTTAGCGG
1 GCCGCGAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATTTTTAGCGG
*
106101 CGTTTTT
66 CATTTTT
106108 TGTCCAAACG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 47 0.77
80 14 0.23
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (80 bp):
GCCGCGAATGCTCTATTTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAATTTTTAGCGG
CATTTTTCAAAAAGC
Found at i:106554 original size:33 final size:33
Alignment explanation
Indices: 106512--106578 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
106502 AAAACACTTC
106512 ATCTTGTTCCTTTCCATCCACCATTGGTAAAGA
1 ATCTTGTTCCTTTCCATCCACCATTGGTAAAGA
*
106545 ATCTTGTTCCTTTCCGTCCACCATTGGTAAAGA
1 ATCTTGTTCCTTTCCATCCACCATTGGTAAAGA
106578 A
1 A
106579 ATAAAGAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (33 bp):
ATCTTGTTCCTTTCCATCCACCATTGGTAAAGA
Found at i:108926 original size:3 final size:3
Alignment explanation
Indices: 108918--108953 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
108908 CCTCTCTTAT
*
108918 GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
108954 CTCTTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:118590 original size:41 final size:41
Alignment explanation
Indices: 118354--118577 Score: 351
Period size: 41 Copynumber: 5.5 Consensus size: 41
118344 AGTAATCCAT
*
118354 ACATTACGTCTAGCAGGCTTGATGCTGGTGAAACATACCAG
1 ACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
*
118395 ACATTACGTCTAGCATGCTTGATGCCGGTGAAACATACCAG
1 ACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
*
118436 ACATTACGTCTACCAGGCTTGATGCCGGTGAAACATACCAG
1 ACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
*
118477 ACATTACGTCTAGCAGGCTTGATGTCGGTGAAACATACCAG
1 ACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
* * *
118518 AC-TTCACGTCTAGTAGGTTTGATGCCGGTGAAACATATCAG
1 ACATT-ACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
* *
118559 ACTTTATGTCTAGCAGGCT
1 ACATTACGTCTAGCAGGCT
118578 AAGTGTCGGT
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 2 0.01
41 164 0.98
42 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (41 bp):
ACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAG
Found at i:118613 original size:123 final size:123
Alignment explanation
Indices: 118354--118618 Score: 313
Period size: 123 Copynumber: 2.2 Consensus size: 123
118344 AGTAATCCAT
* * *
118354 ACATTACGTCTAGCAGGCTTGATGCTGGTGAAACATACCAGACATTACGTCTAGCATGCTTGATG
1 ACATTAAGCCTAGCAGGCTTGATGCTGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATG
* * *
118419 CCGGTGAAACATACCAGACATTACGTCTACCAGGCTTGATGCCGGTGAAACATACCAG
66 CCGGTGAAACATACCAGACATTACGTCTACCAGGCTAGATGCCGGTGAAACAAAACAG
* * * *
118477 ACATTACGTCTAGCAGGCTTGATG-TCGGTGAAACATACCAGAC-TTCACGTCTAGTAGGTTTGA
1 ACATTAAGCCTAGCAGGCTTGATGCT-GGTGAAACATACCAGACATT-ACGTCTAGCAGGCTTGA
* * * * *
118540 TGCCGGTGAAACATATCAGACTTTATGTCTAGCAGGCTA-AGTGTCGGTG-AACTAAAACAG
64 TGCCGGTGAAACATACCAGACATTACGTCTACCAGGCTAGA-TGCCGGTGAAAC-AAAACAG
* *
118600 GCTTTAAGCCTAGCAGGCT
1 ACATTAAGCCTAGCAGGCT
118619 AAGTGCCGGT
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
122 7 0.06
123 116 0.94
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (123 bp):
ACATTAAGCCTAGCAGGCTTGATGCTGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATG
CCGGTGAAACATACCAGACATTACGTCTACCAGGCTAGATGCCGGTGAAACAAAACAG
Found at i:119155 original size:2 final size:2
Alignment explanation
Indices: 119150--119193 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
119140 ATAAATAGAG
119150 TA TA TA TA TA 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 TA
119192 TA
1 TA
119194 CTCATTGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122440 original size:41 final size:41
Alignment explanation
Indices: 122221--122420 Score: 348
Period size: 41 Copynumber: 4.9 Consensus size: 41
122211 GAAGTAATCT
*
122221 AGACATTACGTCTAGCAGGCTTGATGCTGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
*
122262 AGACATTACGTCTAGCAAGCTTGATGCCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
*
122303 AGACATTACGTCTAGCAGGCTTGATGTCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
122344 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
*
122385 AGA-ATTTACGTCTAGCAGACTTGATGCCGGTGAAAC
1 AGACA-TTACGTCTAGCAGGCTTGATGCCGGTGAAAC
122421 GTATCAAACT
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 1 0.01
41 151 0.99
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (41 bp):
AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
Found at i:122440 original size:123 final size:123
Alignment explanation
Indices: 122221--122446 Score: 357
Period size: 123 Copynumber: 1.8 Consensus size: 123
122211 GAAGTAATCT
*
122221 AGACATTACGTCTAGCAGGCTTGATGCTGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGA
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGA
*
122286 TGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGTCGGTGAAACATACC
66 TGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCTTGATGTCGGTGAAACATACC
122344 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGA-ATTTACGTCTAGC-AGACTT
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACA-TTACGTCTAGCAAG-CTT
* * * * *
122407 GATGCCGGTGAAACGTATCAAACTTTATGTCTAGTAGGCT
64 GATGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCT
122447 AAGTGCTGGT
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
122 3 0.03
123 91 0.97
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (123 bp):
AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGA
TGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCTTGATGTCGGTGAAACATACC
Found at i:137173 original size:40 final size:40
Alignment explanation
Indices: 137083--137191 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
137073 AGCGGCATTT
** *
137083 TTAGTGGCGCTTGGATAAAAAACGCCGCTAACAATCAAGCA
1 TTAGTGGCGCTTTTA-AAAAAACGCCACTAACAATCAAGCA
** * *
137124 TTAACGGCGCTTTTAAAAAAACGCCACTAA-AGATCGAGTA
1 TTAGTGGCGCTTTTAAAAAAACGCCACTAACA-ATCAAGCA
*
137164 TTAGTGGCGCTTTTTAAAAAACGCCACT
1 TTAGTGGCGCTTTTAAAAAAACGCCACT
137192 GAAAATGAGC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.79
41 11 0.19
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGTGGCGCTTTTAAAAAAACGCCACTAACAATCAAGCA
Found at i:137222 original size:39 final size:39
Alignment explanation
Indices: 137098--137222 Score: 121
Period size: 40 Copynumber: 3.2 Consensus size: 39
137088 GGCGCTTGGA
* * *
137098 TAAAAAACGCCGCTAACA-ATCAAGCATTAACGGCGCTTTT
1 TAAAAAACGCCACTAA-AGATCGAGCATTAGCGGCG-TTTT
* * *
137138 AAAAAAACGCCACTAAAGATCGAGTATTAGTGGCGCTTTT
1 TAAAAAACGCCACTAAAGATCGAGCATTAGCGGCG-TTTT
*
137178 TAAAAAACGCCACTGAAA-AT-GAGCATTAGCGGTGTTTT
1 TAAAAAACGCCACT-AAAGATCGAGCATTAGCGGCGTTTT
*
137216 TGAAAAA
1 TAAAAAA
137223 TGCGCCGTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 10 0.14
39 12 0.17
40 47 0.65
41 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (39 bp):
TAAAAAACGCCACTAAAGATCGAGCATTAGCGGCGTTTT
Found at i:137337 original size:41 final size:41
Alignment explanation
Indices: 137268--137597 Score: 403
Period size: 41 Copynumber: 8.0 Consensus size: 41
137258 TTTTGAGTTT
* *
137268 TCGGGGCATTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
137309 TCAGGGTTTTAACGGCGTTTTTTAAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
137350 TCGAGGCTTTAGCGGCGTTTTTTAAAAAGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
137391 TCGGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
137432 TTGGGGCTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
137473 ACGGGGCTTTAGCAGCGTTTTTGAAGAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
137514 TCGGGGATTTACCAGCGCTTTT-AAAGAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGC
**
137555 TCGGGGCTTTAGCAACGTTTTT-AAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGC
137596 TC
1 TC
137598 TATTTTTGAA
Statistics
Matches: 254, Mismatches: 34, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
40 2 0.01
41 252 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:141637 original size:22 final size:23
Alignment explanation
Indices: 141558--141715 Score: 133
Period size: 23 Copynumber: 6.9 Consensus size: 23
141548 NNNNNNNTGT
* * * *
141558 AAATTTAAGTGTTTAAATGTTTC
1 AAATTGAAGTGTTTAAGTGCTGC
141581 AAATTGAAGTGTTTAAGTGCTGC
1 AAATTGAAGTGTTTAAGTGCTGC
141604 AAATTGAAGTGTTT-AGTCGCTG-
1 AAATTGAAGTGTTTAAGT-GCTGC
* * * * * *
141626 TAATTGATGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAGTGCTGC
* *
141649 TAATTGATA-TGTTAAAGTGCTGC
1 AAATTGA-AGTGTTTAAGTGCTGC
* * *
141672 AAGTTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAGTGCTGC
*
141695 AAATTGAAGTGTTAAAGTGCT
1 AAATTGAAGTGTTTAAGTGCT
141716 ACTTTCCATT
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
22 18 0.17
23 89 0.83
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.40
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAGTGCTGC
Found at i:141694 original size:68 final size:68
Alignment explanation
Indices: 141555--141710 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
141545 NNNNNNNNNN
* * *
141555 TGTAAATTTAAGTGTTTAAATGTT-TCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTA
1 TGTAAATTGAAGTG-TTAAATGTTGT-TAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
*
141619 GTCGC
64 ATCGC
* *
141624 TGT-AATTGATGTGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCAAGTTGAAGTGTTTA
1 TGTAAATTGAAGTGT-TAAATGTTGTTAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTT-
141687 AAT-GC
63 AATCGC
141692 TGTAAATTGAAGTGTTAAA
1 TGTAAATTGAAGTGTTAAA
141711 GTGCTACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
67 1 0.01
68 57 0.76
69 17 0.23
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.40
Consensus pattern (68 bp):
TGTAAATTGAAGTGTTAAATGTTGTTAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAT
CGC
Found at i:141708 original size:46 final size:45
Alignment explanation
Indices: 141555--141715 Score: 157
Period size: 46 Copynumber: 3.5 Consensus size: 45
141545 NNNNNNNNNN
* * * *
141555 TGTAAATTTAAGTGTTTAAA-TGTTTCAAATTGAAGTGTTTAAGTGC
1 TGTAAATTGAAGTG-TTAAAGTGCTGC-AATTGAAGTGTTTAAATGC
* * * * * *
141601 TGCAAATTGAAGTGTT-TAGTCGCTGTAATTGATGTGTATAAATGT
1 TGTAAATTGAAGTGTTAAAGT-GCTGCAATTGAAGTGTTTAAATGC
*
141646 TGTTAATTGATA-TGTTAAAGTGCTGCAAGTTGAAGTGTTTAAATGC
1 TGTAAATTGA-AGTGTTAAAGTGCTGCAA-TTGAAGTGTTTAAATGC
141692 TGTAAATTGAAGTGTTAAAGTGCT
1 TGTAAATTGAAGTGTTAAAGTGCT
141716 ACTTTCCATT
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 37 0.41
46 53 0.58
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (45 bp):
TGTAAATTGAAGTGTTAAAGTGCTGCAATTGAAGTGTTTAAATGC
Found at i:142609 original size:43 final size:43
Alignment explanation
Indices: 142562--142828 Score: 290
Period size: 43 Copynumber: 6.2 Consensus size: 43
142552 TTTCATGACT
*
142562 TTTAGCGGCGTTTTTGGAGAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGGAGAAAGCACCGCTAAAGGTCATGTTC
* *
142605 TTTAGCGGCGTTTTTGGGGAAAGCACTGCTAAAGGT-ATTGTTC
1 TTTAGCGGCGTTTTTGGAGAAAGCACCGCTAAAGGTCA-TGTTC
* * *
142648 TTTAGCGGCGATTTTGGGGAAAGCACCGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGGAGAAAGCACCGCTAAAGGTCATGTTC
** * * * * *
142691 TTTAGTAGCATTTTTGGAAAAAACGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTTTGGAGAAAGCACCGCTAAAGGTCATGTTC
* * **
142734 TTTAGCGACATTTTTTGG-GAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGC-GTTTTTGGAGAAAGCACCGCTAAAGGTCATGTTC
* * **
142777 TTTAGCGGCGTTTGTTGGA-AAAGAACC-CTAAAGGTCACGACC
1 TTTAGCGGCGTTT-TTGGAGAAAGCACCGCTAAAGGTCATGTTC
142819 TTTAGCGGCG
1 TTTAGCGGCG
142829 CTTATTTTTA
Statistics
Matches: 187, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.14
43 153 0.82
44 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGAGAAAGCACCGCTAAAGGTCATGTTC
Found at i:142968 original size:22 final size:23
Alignment explanation
Indices: 142925--142968 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
142915 TAGTGCCGCT
*
142925 AAAAAGCGCCGCTAAAGGCCTAA
1 AAAAAGCGCCGCTAAAGACCTAA
142948 AAAAAG-GCCGCTTAAA-ACCTA
1 AAAAAGCGCCGC-TAAAGACCTA
142969 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (23 bp):
AAAAAGCGCCGCTAAAGACCTAA
Found at i:144549 original size:97 final size:95
Alignment explanation
Indices: 144382--144586 Score: 216
Period size: 97 Copynumber: 2.1 Consensus size: 95
144372 ATTAGGATAC
* ** * * * *
144382 TAAACATGGGGAATAATGTTTAAGACCATATCTCAGCTATGACAACGAATGGTACTCTGCTGGGA
1 TAAACATGGGGAATAATGTGTAAGACCATATCTCAAATATGAAAACGAATGGTAATATGCTAGGA
* * * *
144447 CAATAAAGA-CGGGTAGTCGGCCATGACAT
66 CAATAAAAATCGGGAAGTCCGCCAGGACAT
* *
144476 TAAACATGGGGAATTATGATGTGTAAGACCATAGT-TCAAATATGAAAATGAATGGTAATATGTT
1 TAAACATGGGGAA-TA--ATGTGTAAGACCATA-TCTCAAATATGAAAACGAATGGTAATATGCT
* * *
144540 AGGATAATAAAAATGGGGAAGTCCGCCAGGACGT
62 AGGACAATAAAAATCGGGAAGTCCGCCAGGACAT
144574 TAAACATGGGGAA
1 TAAACATGGGGAA
144587 CTATATAAGA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
94 13 0.14
95 2 0.02
97 46 0.51
98 29 0.32
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (95 bp):
TAAACATGGGGAATAATGTGTAAGACCATATCTCAAATATGAAAACGAATGGTAATATGCTAGGA
CAATAAAAATCGGGAAGTCCGCCAGGACAT
Found at i:156629 original size:11 final size:11
Alignment explanation
Indices: 156613--156637 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
156603 GGTGACATAA
156613 TTTTTTTAAAT
1 TTTTTTTAAAT
156624 TTTTTTTAAAT
1 TTTTTTTAAAT
156635 TTT
1 TTT
156638 GGTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:167072 original size:17 final size:17
Alignment explanation
Indices: 167034--167075 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
167024 TTTGACATTT
167034 TTAAAGTTATTAATAAAA
1 TTAAA-TTATTAATAAAA
167052 -TAAATTATT-ATAAATA
1 TTAAATTATTAATAAA-A
167068 TTAAATTA
1 TTAAATTA
167076 AATAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.23
16 6 0.27
17 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAATTATTAATAAAA
Found at i:170579 original size:19 final size:19
Alignment explanation
Indices: 170555--170594 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
170545 TCATGTGCCT
170555 CAAT-CCATATTTCAATTCA
1 CAATCCCAT-TTTCAATTCA
*
170574 CAATCCCATTTTCATTTCA
1 CAATCCCATTTTCAATTCA
170593 CA
1 CA
170595 TATAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.38
Consensus pattern (19 bp):
CAATCCCATTTTCAATTCA
Found at i:170766 original size:49 final size:50
Alignment explanation
Indices: 170705--170804 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
170695 CAGTTTGGCA
* * *
170705 TCCAGTGCCTCATCGGA-TAATTCGAAGTAATAAATTGACACCCAGTGTC
1 TCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGACACCCAGTGTC
* *
170754 TCCAATGCCTCATCGAATTAATCCGAAGTAGTAAATTGACACCTAGTGTC
1 TCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGACACCCAGTGTC
170804 T
1 T
170805 TATCGACTCG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 15 0.33
50 30 0.67
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TCCAATGCCTCATCGAATTAATCCGAAGTAATAAATTGACACCCAGTGTC
Found at i:177732 original size:28 final size:28
Alignment explanation
Indices: 177661--177732 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
177651 TTACCCTTTC
*
177661 TTCTTTTTT-TATTTTTAGAATAGCATT
1 TTCTTTTTTCTTTTTTTAGAATAGCATT
* * * **
177688 TTCTTTTATCCTCTTTTAGAAT-TTATTT
1 TTCTTTTTTCTTTTTTTAGAATAGCA-TT
177716 TTCTTTTTTCTTTTTTT
1 TTCTTTTTTCTTTTTTT
177733 CTTCTCATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.69
Consensus pattern (28 bp):
TTCTTTTTTCTTTTTTTAGAATAGCATT
Found at i:184664 original size:411 final size:412
Alignment explanation
Indices: 183892--184714 Score: 1639
Period size: 411 Copynumber: 2.0 Consensus size: 412
183882 TCTGCATCAA
183892 CACTACTAATTAGTGACTCAATTAGATTAGTAATTATTTTTTATAATTAATTTAATAATAAAATT
1 CACTACTAATTAGTGACTCAATTAGATTAGTAATTATTTTTTATAATTAATTTAATAATAAAATT
183957 CTCTAATCAAGAATCCCTTGGGTACAATGCTTGGAATACTTTCCAAGTGTATTGTTCTAAACAAA
66 CTCTAATCAAGAATCCCTTGGGTACAATGCTTGGAATACTTTCCAAGTGTATTGTTCTAAACAAA
184022 CTATATTACAATTTGGCTCGTATACTTGTGGACATCGTTTTTTTATTATATATCTTTTTTTTTTG
131 CTATATTACAATTTGGCTCGTATACTTGTGGACATCGTTTTTTTATTATATATCTTTTTTTTTTG
184087 TATTTCCAGTTCATAAGTTCGCACGTTAGGCGGTAGTCAAGTTGTTGAAGTCGTTGTAGGGGATT
196 TATTTCCAGTTCATAAGTTCGCACGTTAGGCGGTAGTCAAGTTGTTGAAGTCGTTGTAGGGGATT
184152 CCGACAGTGAAAATTGTTACTAATTTAAGTGTTTTGTAAGATAATACCAGTCGGAAGATAAACAA
261 CCGACAGTGAAAATTGTTACTAATTTAAGTGTTTTGTAAGATAATACCAGTCGGAAGATAAACAA
184217 GTTAGATAGTGTATCAATTTTTAAATATTTTTATTTTTATTTATTTAATTTTTTTAGATGCTTTG
326 GTTAGATAGTGTATCAATTTTTAAATATTTTTATTTTTATTTATTTAATTTTTTTAGATGCTTTG
184282 TTGACTATTTAATTTAATCATG
391 TTGACTATTTAATTTAATCATG
184304 CACTACTAA-TAGTGACTCAATTAGATTAGTAATTATTTTTTATAATTAATTTAATAATAAAATT
1 CACTACTAATTAGTGACTCAATTAGATTAGTAATTATTTTTTATAATTAATTTAATAATAAAATT
184368 CTCTAATCAAGAATCCCTTGGGTACAATGCTTGGAATACTTTCCAAGTGTATTGTTCTAAACAAA
66 CTCTAATCAAGAATCCCTTGGGTACAATGCTTGGAATACTTTCCAAGTGTATTGTTCTAAACAAA
184433 CTATATTACAATTTGGCTCGTATACTTGTGGACATCGTTTTTTTATTATATATCTTTTTTTTTTG
131 CTATATTACAATTTGGCTCGTATACTTGTGGACATCGTTTTTTTATTATATATCTTTTTTTTTTG
184498 TATTTCCAGTTCATAAGTTCGCACGTTAGGCGGTAGTCAAGTTGTTGAAGTCGTTGTAGGGGATT
196 TATTTCCAGTTCATAAGTTCGCACGTTAGGCGGTAGTCAAGTTGTTGAAGTCGTTGTAGGGGATT
184563 CCGACAGTGAAAATTGTTACTAATTTAAGTGTTTTGTAAGATAATACCAGTCGGAAGATAAACAA
261 CCGACAGTGAAAATTGTTACTAATTTAAGTGTTTTGTAAGATAATACCAGTCGGAAGATAAACAA
184628 GTTAGATAGTGTATCAATTTTTAAATATTTTTATTTTTATTTATTTAATTTTTTTAGATGCTTTG
326 GTTAGATAGTGTATCAATTTTTAAATATTTTTATTTTTATTTATTTAATTTTTTTAGATGCTTTG
184693 TTGACTATTTAATTTAATCATG
391 TTGACTATTTAATTTAATCATG
184715 ATTATAGTTG
Statistics
Matches: 411, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
411 402 0.98
412 9 0.02
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (412 bp):
CACTACTAATTAGTGACTCAATTAGATTAGTAATTATTTTTTATAATTAATTTAATAATAAAATT
CTCTAATCAAGAATCCCTTGGGTACAATGCTTGGAATACTTTCCAAGTGTATTGTTCTAAACAAA
CTATATTACAATTTGGCTCGTATACTTGTGGACATCGTTTTTTTATTATATATCTTTTTTTTTTG
TATTTCCAGTTCATAAGTTCGCACGTTAGGCGGTAGTCAAGTTGTTGAAGTCGTTGTAGGGGATT
CCGACAGTGAAAATTGTTACTAATTTAAGTGTTTTGTAAGATAATACCAGTCGGAAGATAAACAA
GTTAGATAGTGTATCAATTTTTAAATATTTTTATTTTTATTTATTTAATTTTTTTAGATGCTTTG
TTGACTATTTAATTTAATCATG
Found at i:187604 original size:33 final size:33
Alignment explanation
Indices: 187562--187628 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
187552 ATGTCAAAAG
187562 TATGTTTTTAATTTTCTATTTTAGTTTCTTGTT
1 TATGTTTTTAATTTTCTATTTTAGTTTCTTGTT
187595 TATGTTTTTAATTTTCTATTTTAGTTTCTTGTT
1 TATGTTTTTAATTTTCTATTTTAGTTTCTTGTT
187628 T
1 T
187629 TAATTAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (33 bp):
TATGTTTTTAATTTTCTATTTTAGTTTCTTGTT
Found at i:187753 original size:30 final size:30
Alignment explanation
Indices: 187719--187780 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
187709 AGGGGAAAAC
187719 AACTCGACTAACCTCGTAACACATTCACAA
1 AACTCGACTAACCTCGTAACACATTCACAA
187749 AACTCGACTAACCTCGTAACACATTCACAA
1 AACTCGACTAACCTCGTAACACATTCACAA
187779 AA
1 AA
187781 AACTGAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.32, G:0.06, T:0.19
Consensus pattern (30 bp):
AACTCGACTAACCTCGTAACACATTCACAA
Found at i:192212 original size:18 final size:19
Alignment explanation
Indices: 192180--192239 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 19
192170 AAATTTAAAT
192180 AAATTTAAATATTATTTTA
1 AAATTTAAATATTATTTTA
*
192199 AAATTT-AATTTTATTTTA
1 AAATTTAAATATTATTTTA
*
192217 AAATTTTAA-A--ATTTTA
1 AAATTTAAATATTATTTTA
192233 AAATTTA
1 AAATTTA
192240 TATTTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.32
18 17 0.46
19 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTTAAATATTATTTTA
Found at i:192222 original size:8 final size:8
Alignment explanation
Indices: 192211--192238 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
192201 ATTTAATTTT
192211 ATTTTAAA
1 ATTTTAAA
192219 ATTTTAAA
1 ATTTTAAA
192227 ATTTTAAA
1 ATTTTAAA
192235 ATTT
1 ATTT
192239 ATATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATTTTAAA
Found at i:192298 original size:33 final size:33
Alignment explanation
Indices: 192228--192298 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 33
192218 AATTTTAAAA
* *
192228 TTTTAAAATTTATATTTATATTTATATATTAAT
1 TTTTAAAATTTATATTTAAATTTATATATGAAT
192261 TTTTAAAATTGT-TATCTTAAATTT-TAT-TGAAT
1 TTTTAAAATT-TATAT-TTAAATTTATATATGAAT
192293 CTTTTA
1 -TTTTA
192299 TATATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
32 4 0.12
33 21 0.64
34 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTTAAAATTTATATTTAAATTTATATATGAAT
Found at i:192766 original size:21 final size:21
Alignment explanation
Indices: 192707--192759 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
192697 TAAATCGAAA
*
192707 TTTAATTTTTAT-ATTTTATAT
1 TTTAATTTTTATCA-TTAATAT
192728 TTTAATTTTTATCATTAATAT
1 TTTAATTTTTATCATTAATAT
192749 TATTAATTTTT
1 T-TTAATTTTT
192760 TTGTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATTTTTATCATTAATAT
Found at i:201378 original size:18 final size:18
Alignment explanation
Indices: 201355--201497 Score: 69
Period size: 18 Copynumber: 7.8 Consensus size: 18
201345 ATCGTTTTCC
201355 TCTTTTTCATTTTCTTTT
1 TCTTTTTCATTTTCTTTT
*** *
201373 TCTTTTTCAAAGTCATTT
1 TCTTTTTCATTTTCTTTT
** ** *
201391 TCTTGCTCGCTCTCTTTT
1 TCTTTTTCATTTTCTTTT
*
201409 TCTTTCTTTC-TTTTTTTCTT
1 TC-TT-TTTCATTTTCTT-TT
** *
201429 TCAATTTCTTTTTCTTTT
1 TCTTTTTCATTTTCTTTT
201447 TCGTTTTTC-TTTT-TTTGT
1 TC-TTTTTCATTTTCTTT-T
201465 TCTTTTTCATTCTT-TTTT
1 TCTTTTTCATT-TTCTTTT
* *
201483 ACTTGTTCATTTTCT
1 TCTTTTTCATTTTCT
201498 CTCCACTTTT
Statistics
Matches: 93, Mismatches: 23, Indels: 18
0.69 0.17 0.13
Matches are distributed among these distances:
17 11 0.12
18 55 0.59
19 21 0.23
20 6 0.06
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.70
Consensus pattern (18 bp):
TCTTTTTCATTTTCTTTT
Found at i:201426 original size:16 final size:17
Alignment explanation
Indices: 201405--201441 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
201395 GCTCGCTCTC
201405 TTTTTCTTTC-TTTCTT
1 TTTTTCTTTCATTTCTT
201421 TTTTTCTTTCAATTTCTT
1 TTTTTCTTTC-ATTTCTT
201439 TTT
1 TTT
201442 CTTTTTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCATTTCTT
Found at i:201428 original size:12 final size:11
Alignment explanation
Indices: 201415--201471 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 11
201405 TTTTTCTTTC
201415 TTTCTTTTTTT
1 TTTCTTTTTTT
* *
201426 CTTTCAATTTCTT
1 -TTTC-TTTTTTT
201439 TTTCTTTTTCGTT
1 TTTCTTTTT--TT
201452 TTTCTTTTTTT
1 TTTCTTTTTTT
*
201463 GTTCTTTTT
1 TTTCTTTTT
201472 CATTCTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 13 0.35
12 8 0.22
13 16 0.43
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:201442 original size:6 final size:6
Alignment explanation
Indices: 201403--201472 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
201393 TTGCTCGCTC
**
201403 TCTTTT TCTTTCTT TCTTTT T-TTCTT TCAATT TCTTTT TCTTTT TCGTTTT
1 TCTTTT TC-TT-TT TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT TC-TTTT
*
201454 TCTTTT T-TTGT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TC
201473 ATTCTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.12
6 32 0.62
7 10 0.19
8 4 0.08
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:201442 original size:16 final size:14
Alignment explanation
Indices: 201403--201481 Score: 56
Period size: 16 Copynumber: 5.5 Consensus size: 14
201393 TTGCTCGCTC
201403 TCTTTTTCTTTCTT
1 TCTTTTTCTTTCTT
201417 TCTTTTTTTCTTTCAATT
1 TC--TTTTTCTTTC--TT
201435 TCTTTTTC-TT-TT
1 TCTTTTTCTTTCTT
*
201447 TCGTTTTTCTTTTTT
1 TC-TTTTTCTTTCTT
* * *
201462 TGTTCTT-TTTCAT
1 TCTTTTTCTTTCTT
201475 TCTTTTT
1 TCTTTTT
201482 TACTTGTTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
12 4 0.08
13 15 0.29
14 8 0.15
15 5 0.10
16 16 0.31
18 4 0.08
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTCTT
Done.