Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold497
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: 340775
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:56 original size:1 final size:1
Alignment explanation
Indices: 45--84 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
35 CCACCACACA
* * *
45 CCCCCCACCCCCCCCCCCCCCCCTCCTCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
85 ACGATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.03, C:0.93, G:0.00, T:0.05
Consensus pattern (1 bp):
C
Found at i:2558 original size:154 final size:154
Alignment explanation
Indices: 2392--2858 Score: 491
Period size: 154 Copynumber: 3.0 Consensus size: 154
2382 TGTAAAACCA
* *
2392 GACTTGGTGACAATCTAGAAATCGATTCTAAAAAATTACGAAAATGCTCCTTGAG-GATACTTTC
1 GACTTGGTGACAATCTAGAACTCGATTCTAAAAAATTATGAAAATGC-CCTTGAGAGATACTTTC
* * * * *
2456 GATTTAAAAGTGCCTGATACCCCTAAAGGACTTTAAAAGGA-TATAAATGAGATAAACCTATCCT
65 GATGTAGAAGTGCCCGATACCCCTAAAGGAC-TAAAAAGGATTATAGATGAGATAAACCTATCCT
*
2520 AAATACCCACCTTTGACACAAAAGCG
129 AAATACCCACCTTTGACATAAAAGCG
* * * * * *
2546 GACTTGGTGACAACCTA-AGACTTGGTTCTAAAAAAATTATG-AAATACCCTT-AGGTGATACCT
1 GACTTGGTGACAATCTAGA-ACTCGATTCT-AAAAAATTATGAAAATGCCCTTGA-GAGATACTT
* * * * *
2608 TCGATGTAGAAGTGCCCGATACCCCTAAAAGACTAAAAAGGATTGTGGATGGGATGAACCTATCC
63 TCGATGTAGAAGTGCCCGATACCCCTAAAGGACTAAAAAGGATTATAGATGAGATAAACCTATCC
* * *
2673 TAAATACCCATCTTCGGCATAAAAGCG
128 TAAATACCCACCTTTGACATAAAAGCG
* **** * * * *
2700 AACCCAATGAC-ATCCTAGGACTCTATTTTAAGAAAATTATGAAAATGCCCCT-AGGAGATACTT
1 GACTTGGTGACAAT-CTAGAACTCGATTCTAA-AAAATTATGAAAATGCCCTTGA-GAGATACTT
*
2763 TCGACGTAGAAGTGCCCGATA-CCCTAAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATC
63 TCGATGTAGAAGTGCCCGATACCCCTAAAGGA-CTAAAAAGGATTATAGATGAGATAAACCTATC
* *
2827 CTAAATACACACCTTTGACATAAAAGAG
127 CTAAATACCCACCTTTGACATAAAAGCG
2855 GACT
1 GACT
2859 CAATGACAAC
Statistics
Matches: 254, Mismatches: 49, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
152 1 0.00
153 17 0.07
154 136 0.54
155 100 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (154 bp):
GACTTGGTGACAATCTAGAACTCGATTCTAAAAAATTATGAAAATGCCCTTGAGAGATACTTTCG
ATGTAGAAGTGCCCGATACCCCTAAAGGACTAAAAAGGATTATAGATGAGATAAACCTATCCTAA
ATACCCACCTTTGACATAAAAGCG
Found at i:2827 original size:155 final size:156
Alignment explanation
Indices: 2416--2894 Score: 560
Period size: 155 Copynumber: 3.1 Consensus size: 156
2406 CTAGAAATCG
* * * * * *
2416 ATTCTAA-AAAATTACGAAAATGCTCCT-TGAGGATACTTTCGATTTAAAAGTGCCTGATACCCC
1 ATTCTAAGAAAATTATGAAAATGCCCCTAGGA-GATACTTTCGATGTAGAAGTGCCCGATACCCC
* * * *
2479 TAAAGGACTTTAAAAGGA-TATAAATGAGATAAACCTATCCTAAATACCCACCTTTGACACAAAA
65 TAAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATCCTAAATACCCACCTTTGACATAAAA
***
2543 GCGGACTTGGTGACAACCTAAGACT-T
130 GCGGACTCAATGACAACCTAAGACTCT
* * * * * *
2569 GGTTCTAAAAAAATTATG-AAATACCCTTAGGTGATACCTTCGATGTAGAAGTGCCCGATACCCC
1 -ATTCTAAGAAAATTATGAAAATGCCCCTAGGAGATACTTTCGATGTAGAAGTGCCCGATACCCC
* * * * * * * *
2633 TAAAAGA-CTAAAAAGGATTGTGGATGGGATGAACCTATCCTAAATACCCATCTTCGGCATAAAA
65 TAAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATCCTAAATACCCACCTTTGACATAAAA
* * * *
2697 GCGAACCCAATGACATCCTAGGACTCT
130 GCGGACTCAATGACAACCTAAGACTCT
* *
2724 ATTTTAAGAAAATTATGAAAATGCCCCTAGGAGATACTTTCGACGTAGAAGTGCCCGATA-CCCT
1 ATTCTAAGAAAATTATGAAAATGCCCCTAGGAGATACTTTCGATGTAGAAGTGCCCGATACCCCT
*
2788 AAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATCCTAAATACACACCTTTGACATAAAAG
66 AAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATCCTAAATACCCACCTTTGACATAAAAG
*
2853 AGGACTCAATGACAACCTAAGACTC-
131 CGGACTCAATGACAACCTAAGACTCT
2878 AGTTCTAAGAAAATTAT
1 A-TTCTAAGAAAATTAT
2895 AAAGGACATT
Statistics
Matches: 265, Mismatches: 53, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
153 8 0.03
154 126 0.48
155 131 0.49
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (156 bp):
ATTCTAAGAAAATTATGAAAATGCCCCTAGGAGATACTTTCGATGTAGAAGTGCCCGATACCCCT
AAAGGACCTAAAAAGGATTATAGATGAGATAAACCTATCCTAAATACCCACCTTTGACATAAAAG
CGGACTCAATGACAACCTAAGACTCT
Found at i:5130 original size:166 final size:164
Alignment explanation
Indices: 4746--5158 Score: 540
Period size: 159 Copynumber: 2.5 Consensus size: 164
4736 ATTTCGAAGA
* * * * * ** ** *
4746 AAAAAATC-AAAATTCATGAAAATAAATGAATTTTTTAAAACTAATTTAATGTGAACCAAATGAT
1 AAAAAATCAAAAACTCATGAAGATGAGTGAATTTTTAAAAACTAATTTAAAATGAATTAAATAAT
*
4810 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCCGAAAATATTTACGAAGTAG
66 AATATTTGAT-AATTTTAAAAATTAAAAACCAAGAAAAATTCCCCCAAAAATATTTACGAAGTAG
* *
4875 AAAACTTCGTATTTTAAAAACAAGAGAATTTTAAG
130 AAAACTTCGTATTTTAAAAACAAAAAAATTTTAAG
* * *
4910 ----AA--AAAAACTCTTGAAGATGAGTGAATTTTTAAAAA-TAGATTTAACATAAATTAAATAA
1 AAAAAATCAAAAACTCATGAAGATGAGTGAATTTTTAAAAACTA-ATTTAAAATGAATTAAATAA
4968 TAATATTTGATAATTTTTAAAAATTAAAAACCAAGAAAAA-TCCCCGCAAAAATATTTACAGAA-
65 TAATATTTGATAA-TTTTAAAAATTAAAAACCAAGAAAAATTCCCC-CAAAAATATTTAC-GAAG
*
5031 TAGAAAACTTCGTATTTTCAAAACAAAAAAATTTTAAGG
127 TAGAAAACTTCGTATTTTAAAAACAAAAAAATTTTAA-G
5070 AAAAAATCAAAAACTCATGAAGATGAGTGAATTTTTAAAAACTAATTTAAAATGAATTAAATAAT
1 AAAAAATCAAAAACTCATGAAGATGAGTGAATTTTTAAAAACTAATTTAAAATGAATTAAATAAT
5135 AATATTTGATGAATTTTAAAAATT
66 AATATTTGAT-AATTTTAAAAATT
5159 TTAAACCTAT
Statistics
Matches: 216, Mismatches: 19, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
158 9 0.04
159 123 0.57
160 6 0.03
164 2 0.01
166 72 0.33
167 4 0.02
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (164 bp):
AAAAAATCAAAAACTCATGAAGATGAGTGAATTTTTAAAAACTAATTTAAAATGAATTAAATAAT
AATATTTGATAATTTTAAAAATTAAAAACCAAGAAAAATTCCCCCAAAAATATTTACGAAGTAGA
AAACTTCGTATTTTAAAAACAAAAAAATTTTAAG
Found at i:6350 original size:13 final size:13
Alignment explanation
Indices: 6332--6357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6322 CAATTTTTTG
6332 TGTATCGATACAT
1 TGTATCGATACAT
6345 TGTATCGATACAT
1 TGTATCGATACAT
6358 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8757 original size:21 final size:21
Alignment explanation
Indices: 8733--8779 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
8723 TTTGATGCTG
8733 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
8753 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
8774 ATTTTG
1 ATTTTG
8780 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:8918 original size:13 final size:13
Alignment explanation
Indices: 8900--8938 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8890 ATAATCACCC
*
8900 TGTATCGATACAG
1 TGTATCGATACAA
8913 TGTATCGATACAA
1 TGTATCGATACAA
8926 TGTATCGATACAA
1 TGTATCGATACAA
8939 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8949 original size:20 final size:20
Alignment explanation
Indices: 8924--9002 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
8914 GTATCGATAC
8924 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
8944 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
8969 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
8989 CATGTATCGATACA
1 AATGTATCGATACA
9003 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:11019 original size:15 final size:15
Alignment explanation
Indices: 10999--11029 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10989 ATTTCGTTTG
*
10999 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
11014 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
11029 G
1 G
11030 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:12862 original size:21 final size:21
Alignment explanation
Indices: 12833--12877 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12823 CAAGTTTCAT
*
12833 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
12853 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
12875 TTT
1 TTT
12878 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:16732 original size:154 final size:155
Alignment explanation
Indices: 16425--16902 Score: 567
Period size: 154 Copynumber: 3.1 Consensus size: 155
16415 AATGTCCTTT
* *
16425 ATAATTTTCTTAGAACT-GAGTCTTAGGTTGTCATTGAGTCCTCTTTTATGTCAAAGGTGTGTAT
1 ATAATTTTCTTAGAACTAGAGTCTTAGGTTGTCATTGAGTCCGCTTTTATGTCAAAGGTGGGTAT
*
16489 TTAGGATAGGTTTATCTCATCTATAATCCTTTTTAGGTCCTTTA-GGGTATCGGGCACTTCTACG
66 TTAGGATAGGTTTATCTCATCTA-AATCCTTTTTA-GTCCTTTAGGGGTATCGGGCACTTCTACA
* *
16553 TCGAAAGTATCTCCTAGGGGCATTTTC
129 TCGAAAGTATCACCTAAGGGCATTTTC
* * * * * * *
16580 ATAATTTTCTTA-AA-TAGAGTCCTAGGATGTCATTGGGTTCGCTTTTATGCCGAAGATGGGTAT
1 ATAATTTTCTTAGAACTAGAGTCTTAGGTTGTCATTGAGTCCGCTTTTATGTCAAAGGTGGGTAT
* * * *
16643 TTAGGATAGGTTCATCCCATCCACAATCCTTTTTAGTCTTTTAGGGGTATCGGGCACTTCTACAT
66 TTAGGATAGGTTTATCTCATCTA-AATCCTTTTTAGTCCTTTAGGGGTATCGGGCACTTCTACAT
* *
16708 CGAAGGTATCACCTAAGGGTATTTTC
130 CGAAAGTATCACCTAAGGGCATTTTC
* * *** *
16734 ATAATTTTTTTAGAACCA-AGTCTTAGGTTGTCACCAAGTCCGCTTTTGTGTCAAAGGTGGGTAT
1 ATAATTTTCTTAGAACTAGAGTCTTAGGTTGTCATTGAGTCCGCTTTTATGTCAAAGGTGGGTAT
* * * * * *
16798 TTAGGATAGGTTTATCTCATTTATATCCTTTTAAAGTCCTTTAGGGGTATCAGGCACTTTTAAAT
66 TTAGGATAGGTTTATCTCATCTAAATCCTTTT-TAGTCCTTTAGGGGTATCGGGCACTTCTACAT
16863 CGAAAGTAT--CCTCAAGGAGCATTTTC
130 CGAAAGTATCACCT-AAGG-GCATTTTC
*
16889 GTAATTTT-TTAGAA
1 ATAATTTTCTTAGAA
16903 TCGATTTCTA
Statistics
Matches: 271, Mismatches: 45, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
153 11 0.04
154 142 0.52
155 117 0.43
156 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (155 bp):
ATAATTTTCTTAGAACTAGAGTCTTAGGTTGTCATTGAGTCCGCTTTTATGTCAAAGGTGGGTAT
TTAGGATAGGTTTATCTCATCTAAATCCTTTTTAGTCCTTTAGGGGTATCGGGCACTTCTACATC
GAAAGTATCACCTAAGGGCATTTTC
Found at i:20418 original size:20 final size:19
Alignment explanation
Indices: 20385--20438 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
20375 AATTTTCTCC
*
20385 AAAACAAAAGAAAAAAAAGG
1 AAAAGAAAA-AAAAAAAAGG
* *
20405 AAAAGAAACAAAAAAGAATG
1 AAAAGAAA-AAAAAAAAAGG
*
20425 AAATGAAAAAAAAA
1 AAAAGAAAAAAAAA
20439 GTGTAGATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 22 0.76
21 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAAGAAAAAAAAAAAAGG
Found at i:20489 original size:36 final size:37
Alignment explanation
Indices: 20395--20500 Score: 94
Period size: 36 Copynumber: 2.9 Consensus size: 37
20385 AAAACAAAAG
* ** *
20395 AAAAAAAAGGAAAAGA-AACAAAAAAGAATGAAATGA
1 AAAAAAAAGAAAAAGATAAGGAAAAAGAATAAAATGA
* *
20431 AAAAAAAAGTGTAGATAG-TAAGGAAAAAGAA-AAAATGA
1 AAAAAAAA--G-AAAAAGATAAGGAAAAAGAATAAAATGA
*
20469 AAAAAAAAGAAAAAGATAAGGAAATA-AATAAA
1 AAAAAAAAGAAAAAGATAAGGAAAAAGAATAAA
20501 TACTATATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
35 6 0.11
36 21 0.38
38 15 0.27
39 13 0.24
ACGTcount: A:0.73, C:0.01, G:0.17, T:0.09
Consensus pattern (37 bp):
AAAAAAAAGAAAAAGATAAGGAAAAAGAATAAAATGA
Found at i:21221 original size:112 final size:113
Alignment explanation
Indices: 21022--21231 Score: 268
Period size: 112 Copynumber: 1.9 Consensus size: 113
21012 GAAGAACATC
21022 AAATTTCTTTGATTTTTGAAGAAATTCATACTTCATACATTCCGATCCATTCATGCCTAGGAAAA
1 AAATTTCTTTGATTTTTGAAGAAATTCATACTTCATACATTCCGATCCATTCATGCCTAGGAAAA
*
21087 TAGGGCACGTATCCGATGAGTTTTGAAAATTTTGAGTCTAACAATATT
66 TAGGGCACGTATCCGATCAGTTTTGAAAATTTTGAGTCTAACAATATT
* * * * * *
21135 AAATTTGTTTGATTTTTG-AGGAATTCATGC-TC-TATATGATCTGATCCATTCGTGCCTAGGAA
1 AAATTTCTTTGATTTTTGAAGAAATTCATACTTCATACAT--TCCGATCCATTCATGCCTAGGAA
* *
21197 AAT-GAGGCATGTA-CCATATCAGTTTTGAAAATTTT
64 AATAG-GGCACGTATCC-GATCAGTTTTGAAAATTTT
21232 AAGGCCTACC
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
110 4 0.05
111 5 0.06
112 58 0.69
113 17 0.20
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (113 bp):
AAATTTCTTTGATTTTTGAAGAAATTCATACTTCATACATTCCGATCCATTCATGCCTAGGAAAA
TAGGGCACGTATCCGATCAGTTTTGAAAATTTTGAGTCTAACAATATT
Found at i:21820 original size:175 final size:176
Alignment explanation
Indices: 21520--21972 Score: 447
Period size: 175 Copynumber: 2.6 Consensus size: 176
21510 TGATGATTGC
* * * * * * * *
21520 ATTTGCATTGTCTCACCTACATTTGCATTTTAAATGATAGTGGTATTTGCATCAT-TGCAT-GTG
1 ATTTGCATCGTTTCACCTATATTTGCATTATACATGACATTGGTATCTGCATCATAT-CATAG-G
* * * * * * * **
21583 CGTTTGCCCCTTTGTTGATGCTTGCATTTGAATCATTTTACATG--CATTTGCA-TTCAGATAAC
64 CATTTGCCACTTTATTGATGCTTGCAATTGCATCA-TTT-CATGCACATTCGTAGTTTTGATAAC
*
21645 ATTGGCATTTGCAAT-ATTTAATATGCATTCGCCACTTTACTGATGCCTGT
127 ATTGGCATTTGC-ATCATTTAAGATGCATTCGCCACTTTACTGATGCCTGT
* * * *
21695 ATTTGCATTGTTTCATGC-ATATTTTCATTATACATGAC-TTGGTATCTGCATCATATCATATGC
1 ATTTGCATCGTTTCA-CCTATATTTGCATTATACATGACATTGGTATCTGCATCATATCATAGGC
*
21758 ATTTGCC-CTTTTATTGATGCTTGTAATTGCATCATTTCATGCACATTCGTAGTTTTGATAACAT
65 ATTTGCCAC-TTTATTGATGCTTGCAATTGCATCATTTCATGCACATTCGTAGTTTTGATAACAT
* * * * * * * *
21822 TTGCATTTGCATCGTTTCAGGTGCATTTGCTATTTTATTGATGCCTGT
129 TGGCATTTGCATCATTTAAGATGCATTCGCCACTTTACTGATGCCTGT
* * * *
21870 ATTTGCATCGTTTCACCTATATTTGCATTTTAGATGACATTGGTATTTGCATCATTTCATAGGCA
1 ATTTGCATCGTTTCACCTATATTTGCATTATACATGACATTGGTATCTGCATCATATCATAGGCA
* *
21935 TTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCA
66 TTTGCCACTTTATTGATGCTTGCAATTGCATCATTTCA
21973 CACATATCTG
Statistics
Matches: 228, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
172 4 0.02
173 4 0.02
174 55 0.24
175 107 0.47
176 57 0.25
177 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (176 bp):
ATTTGCATCGTTTCACCTATATTTGCATTATACATGACATTGGTATCTGCATCATATCATAGGCA
TTTGCCACTTTATTGATGCTTGCAATTGCATCATTTCATGCACATTCGTAGTTTTGATAACATTG
GCATTTGCATCATTTAAGATGCATTCGCCACTTTACTGATGCCTGT
Found at i:21859 original size:88 final size:89
Alignment explanation
Indices: 21486--21973 Score: 343
Period size: 88 Copynumber: 5.6 Consensus size: 89
21476 ATTTGTAGAT
* * * * * * *
21486 TTTCATA-TGCATTTGTCATTCTATTGATGATTGCATTTGCATTGTCTCACCTACATTTGCATTT
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCACCTACATTCGCATTT
* * * * *
21550 TAAATGATAGTGGTATTTGCATCA
66 TAGATAACATTGGCATTTGCATCA
* * ** * * * * * * * *
21574 TTGCAT-GTGCGTTTGCCCCTTTGTTGATGCTTGCATTTGAATCATTTTACATGCATTTGCA-TT
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCACCTACATTCGCATTT
*
21637 CAGATAACATTGGCATTTGCAAT-A
66 TAGATAACATTGGCATTTGC-ATCA
* * * * * * * * **
21661 TTTAATA-TGCATTCGCCACTTTACTGATGCCTGTATTTGCATTGTTTCATGC-ATATTTTCATT
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCA-CCTACATTCGCATT
* * * * *
21724 ATACATGAC-TTGGTATCTGCATCA
65 TTAGATAACATTGGCATTTGCATCA
* * * * * *
21748 TATCATA-TGCATTTGCCCTTTTATTGATGCTTGTAATTGCATCATTTCATGC-ACATTCGTAGT
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCA-CCTACATTCGCA-T
* *
21811 TTT-GATAACATTTGCATTTGCATCG
64 TTTAGATAACATTGGCATTTGCATCA
* * * * *
21836 TTTCA-GGTGCATTTGCTATTTTATTGATGCCTGTATTTGCATCGTTTCACCTATATTTGCATTT
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCACCTACATTCGCATTT
* *
21900 TAGATGACATTGGTATTTGCATCA
66 TAGATAACATTGGCATTTGCATCA
* *
21924 TTTCATAG-GCATTTGCCACTTTATTGATGCTTGCATTTGCATCGTTTCAC
1 TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCAC
21974 ACATATCTGC
Statistics
Matches: 302, Mismatches: 86, Indels: 24
0.73 0.21 0.06
Matches are distributed among these distances:
86 2 0.01
87 124 0.41
88 175 0.58
89 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (89 bp):
TTTCATAGTGCATTTGCCATTTTATTGATGCTTGTATTTGCATCGTTTCACCTACATTCGCATTT
TAGATAACATTGGCATTTGCATCA
Found at i:21874 original size:44 final size:43
Alignment explanation
Indices: 21826--21972 Score: 138
Period size: 44 Copynumber: 3.3 Consensus size: 43
21816 TAACATTTGC
* *
21826 ATTTGCATCGTTTCAGGTGCATTTGCTATTTTATTGATGCCTGT
1 ATTTGCATCGTTTCAAGTGCATTTGC-ATTTTATTGATGCTTGT
** **
21870 ATTTGCATCGTTTCACCTATATTTGCATTTTA--GATGACATTGGT
1 ATTTGCATCGTTTCAAGTGCATTTGCATTTTATTGATG-C-TT-GT
* * *
21914 ATTTGCATCATTTCATAG-GCATTTGCCACTTTATTGATGCTTGC
1 ATTTGCATCGTTTCA-AGTGCATTTG-CATTTTATTGATGCTTGT
21958 ATTTGCATCGTTTCA
1 ATTTGCATCGTTTCA
21973 CACATATCTG
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 7 0.08
44 58 0.70
45 8 0.10
46 1 0.01
47 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.46
Consensus pattern (43 bp):
ATTTGCATCGTTTCAAGTGCATTTGCATTTTATTGATGCTTGT
Found at i:22485 original size:90 final size:90
Alignment explanation
Indices: 22314--22547 Score: 294
Period size: 90 Copynumber: 2.6 Consensus size: 90
22304 AATTTGGAGT
* * * * *
22314 CCACACATT-CCCAGTCATATCCCTCCTT-CCCAACCACTAGATGGTATTAATG-ATCACAAAGC
1 CCACACATTCCCCAATCATATCCC-CTTTATCTAACCACTAGATGGTATTGATGCATCACAAAGC
*
22376 CCAATTTCCTTGGGGCAAGGTGCAGC
65 CCAATTTCCTTCGGGCAAGGTGCAGC
* *
22402 CCACATATTCCCTAATCATATCCCCTTTATCTAACCACTAGATGGTATTGATGCATCACAAAGCC
1 CCACACATTCCCCAATCATATCCCCTTTATCTAACCACTAGATGGTATTGATGCATCACAAAGCC
* *
22467 TAGTTTCCTTCGGGCAAGGTGCAGC
66 CAATTTCCTTCGGGCAAGGTGCAGC
* * * * * *
22492 TCACACATTCCCCAATCATATCCCTTTTCTTTAGCCACTAGATGGTACTGATGCAT
1 CCACACATTCCCCAATCATATCCCCTTTATCTAACCACTAGATGGTATTGATGCAT
22548 TACATGACCA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 11 0.09
89 33 0.26
90 81 0.65
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (90 bp):
CCACACATTCCCCAATCATATCCCCTTTATCTAACCACTAGATGGTATTGATGCATCACAAAGCC
CAATTTCCTTCGGGCAAGGTGCAGC
Found at i:25620 original size:19 final size:20
Alignment explanation
Indices: 25598--25644 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25588 ACATTGTATT
*
25598 GATACATGTTC-ATTATATC
1 GATACATGCTCTATTATATC
* *
25617 GATACATACTCTATTGTATC
1 GATACATGCTCTATTATATC
25637 GATACATG
1 GATACATG
25645 AAACTGGCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
GATACATGCTCTATTATATC
Found at i:25638 original size:20 final size:19
Alignment explanation
Indices: 25589--25643 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
25579 TGTATCGATA
* **
25589 CATTGTATTGATACATGTT
1 CATTGTATCGATACATACT
*
25608 CATTATATCGATACATACT
1 CATTGTATCGATACATACT
25627 CTATTGTATCGATACAT
1 C-ATTGTATCGATACAT
25644 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:29862 original size:13 final size:13
Alignment explanation
Indices: 29844--29869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29834 TACAGCAAGT
29844 ATGTATCGATACA
1 ATGTATCGATACA
29857 ATGTATCGATACA
1 ATGTATCGATACA
29870 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30391 original size:34 final size:35
Alignment explanation
Indices: 30328--30394 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
30318 CTAAGTGATT
30328 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
30364 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
30395 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:33606 original size:13 final size:13
Alignment explanation
Indices: 33588--33612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33578 TTTTCCAGAT
33588 TGTATCGATACAA
1 TGTATCGATACAA
33601 TGTATCGATACA
1 TGTATCGATACA
33613 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:35327 original size:20 final size:20
Alignment explanation
Indices: 35304--35377 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
35294 ACAATTCAAA
35304 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
35324 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
35345 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
35365 GTATCGATACATG
1 GTATCGATACATG
35378 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:35348 original size:21 final size:21
Alignment explanation
Indices: 35322--35397 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
35312 ACATGTTGCA
35322 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
35343 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
35363 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
35384 ATGTATCGATACAT
1 ATGTATCGATACAT
35398 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:35350 original size:41 final size:41
Alignment explanation
Indices: 35304--35397 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
35294 ACAATTCAAA
35304 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
35345 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
35386 GTATCGATACAT
1 GTATCGATACAT
35398 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:35454 original size:13 final size:13
Alignment explanation
Indices: 35436--35461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35426 TACAGCAAGT
35436 ATGTATCGATACA
1 ATGTATCGATACA
35449 ATGTATCGATACA
1 ATGTATCGATACA
35462 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35983 original size:34 final size:35
Alignment explanation
Indices: 35920--35986 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
35910 CTAAGTGATT
35920 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
35956 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
35987 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:41726 original size:42 final size:43
Alignment explanation
Indices: 41674--41799 Score: 179
Period size: 42 Copynumber: 3.0 Consensus size: 43
41664 AACAAAAAGG
*
41674 GGGGAGTAGTTATTAAAGGGGAGTACTAAAA-GAATTTTTTTT
1 GGGGAGTAGTTATTAAGGGGGAGTACTAAAACGAATTTTTTTT
* *
41716 GGGGAATAGTTATTAAGGGGGAGTACTAAAATGAATTTTTTTT
1 GGGGAGTAGTTATTAAGGGGGAGTACTAAAACGAATTTTTTTT
*
41759 ---GAGTAGTCATTAAGGGGGAGTACTAAAACGAAATTTTTTTT
1 GGGGAGTAGTTATTAAGGGGGAGTACTAAAACG-AATTTTTTTT
41800 CTTTAAACCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
40 27 0.35
41 10 0.13
42 29 0.38
43 11 0.14
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (43 bp):
GGGGAGTAGTTATTAAGGGGGAGTACTAAAACGAATTTTTTTT
Found at i:41771 original size:40 final size:40
Alignment explanation
Indices: 41676--41799 Score: 169
Period size: 40 Copynumber: 3.0 Consensus size: 40
41666 CAAAAAGGGG
*
41676 GGAGTAGTTATTAAAGGGGAGTACTAAAAGAATTTTTTTT
1 GGAGTAGTTATTAAGGGGGAGTACTAAAAGAATTTTTTTT
*
41716 GGGGAATAGTTATTAAGGGGGAGTACTAAAATGAATTTTTTTT
1 --GGAGTAGTTATTAAGGGGGAGTACTAAAA-GAATTTTTTTT
*
41759 -GAGTAGTCATTAAGGGGGAGTACTAAAACGAAATTTTTTTT
1 GGAGTAGTTATTAAGGGGGAGTACTAAAA-G-AATTTTTTTT
41800 CTTTAAACCT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
40 27 0.36
41 10 0.13
42 27 0.36
43 11 0.15
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (40 bp):
GGAGTAGTTATTAAGGGGGAGTACTAAAAGAATTTTTTTT
Found at i:48348 original size:20 final size:20
Alignment explanation
Indices: 48323--48377 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
48313 ACAAACATTA
*
48323 AATGTATGGATACATAAGTG
1 AATGTATCGATACATAAGTG
48343 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTG
*
48363 AATGCATCGATACAT
1 AATGTATCGATACAT
48378 GGTCGAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAAGTG
Found at i:48445 original size:20 final size:20
Alignment explanation
Indices: 48417--48456 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48407 TGCATTCTAG
48417 AAAGGAAATGTATCGATACA
1 AAAGGAAATGTATCGATACA
*
48437 AAAGTAAATGTATCGATACA
1 AAAGGAAATGTATCGATACA
48457 TGCTCACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (20 bp):
AAAGGAAATGTATCGATACA
Found at i:53189 original size:20 final size:20
Alignment explanation
Indices: 53164--53217 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
53154 GTTACAAGCA
*
53164 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
53184 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
53204 ATGTATCAATACAA
1 ATGTATCGATACAA
53218 ATAGTGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:53290 original size:19 final size:18
Alignment explanation
Indices: 53245--53302 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
53235 ACTGCTAGTT
53245 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
53264 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
53283 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
53302 T
1 T
53303 ATCGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:53304 original size:13 final size:13
Alignment explanation
Indices: 53286--53312 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53276 TACAATGATC
53286 ATGTATCGATACA
1 ATGTATCGATACA
53299 ATGTATCGATACA
1 ATGTATCGATACA
53312 A
1 A
53313 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53328 original size:33 final size:32
Alignment explanation
Indices: 53267--53330 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
53257 ACAATTGTCC
* *
53267 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
53299 ATGTATCGATACAAAGCATAATGTATCGATAC
1 ATGTATCGATACAAAG-ATAATGTATCGATAC
53331 TTCTGGGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:55857 original size:13 final size:13
Alignment explanation
Indices: 55839--55863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55829 CAAGGAATGT
55839 TGTATCGATACAA
1 TGTATCGATACAA
55852 TGTATCGATACA
1 TGTATCGATACA
55864 TGCTTCAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61728 original size:13 final size:13
Alignment explanation
Indices: 61710--61737 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61700 ACAACTCATC
61710 ATGTATCGATACA
1 ATGTATCGATACA
61723 ATGTATCGATACA
1 ATGTATCGATACA
61736 AT
1 AT
61738 ATACCACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:61741 original size:20 final size:20
Alignment explanation
Indices: 61718--61756 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
61708 TCATGTATCG
*
61718 ATACAATGTATCGATACAAT
1 ATACAACGTATCGATACAAT
*
61738 ATACCACGTATCGATACAA
1 ATACAACGTATCGATACAA
61757 ACAATGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (20 bp):
ATACAACGTATCGATACAAT
Found at i:61749 original size:33 final size:33
Alignment explanation
Indices: 61688--61756 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
61678 CCGCTACAAG
*
61688 CAATGTATCGATACAACTCATCATGTATCGATA
1 CAATGTATCGATACAACTCATCACGTATCGATA
61721 CAATGTATCGATACAA-T-ATACCACGTATCGATA
1 CAATGTATCGATACAACTCAT--CACGTATCGATA
61754 CAA
1 CAA
61757 ACAATGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 1 0.03
33 30 0.91
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (33 bp):
CAATGTATCGATACAACTCATCACGTATCGATA
Found at i:63447 original size:156 final size:156
Alignment explanation
Indices: 63061--63521 Score: 529
Period size: 156 Copynumber: 2.9 Consensus size: 156
63051 AGTTTGCCTT
* * * * * *
63061 AATTATGAAAGTGTTAATTT-ATTTAAATTTGTTT-TATTTCAAAAATATCATTTCGTATCTTAA
1 AATTATGAAAGTGTTAATTTAATTT-AATTTATTTGTTTTTGAAAAATACCATTTTGTACCTTAA
* * * *
63124 TGGAAGCCCAAAATGATACGAAAAGTTTTTGAAATCTTTTATACCCTCTACGAACCCTCATAAGA
65 TGGAAACCCAAAATGATACGAAAAGTTTTTGAAATCTTTTATACCCTATA-G-ACCTTCATAGGA
* * *
63189 ATATAAAAGATAAAAAATTAAAGTTCCTCTG
128 ATATAAAAGATTAAAAA--AAAGTTCATCTC
* * * * * * *
63220 AGTTATGAAAGTATTAATTTAATTTTATTTATTTGCTTTCGAAAAATACC-TTTTCGTACCGTAT
1 AATTATGAAAGTGTTAATTTAATTTAATTTATTTGTTTTTGAAAAATACCATTTT-GTACCTTAA
* *
63284 TGGAAACCCAAAATGATATGAAAAGTTTTTGAAATCTTTTATACTCCTATAGACCTTTATAGGAA
65 TGGAAACCCAAAATGATACGAAAAGTTTTTGAAATCTTTTATAC-CCTATAGACCTTCATAGGAA
* *
63349 TATAAAAGATTAGAAAAACA-TTTAT-TC
129 TATAAAAGATTA-AAAAAAAGTTCATCTC
*
63376 AATTATGAGAGTGTTAATTTAATTTAATTTATTTGTTTTTGAAAAATACCATTTTGTACCTTAAT
1 AATTATGAAAGTGTTAATTTAATTTAATTTATTTGTTTTTGAAAAATACCATTTTGTACCTTAAT
* ** *
63441 GAAAACCCGAAAA-GATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGACCTCCATAGGAA
66 GGAAACCC-AAAATGATACGAAAAGTTTTTGAAATCTTTTATA-CCCTATAGACCTTCATAGGAA
63505 TATAAAAGATTAAAAAA
129 TATAAAAGATTAAAAAA
63522 TGATTAATAT
Statistics
Matches: 256, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
155 5 0.02
156 116 0.45
157 12 0.05
158 2 0.01
159 49 0.19
160 67 0.26
161 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.37
Consensus pattern (156 bp):
AATTATGAAAGTGTTAATTTAATTTAATTTATTTGTTTTTGAAAAATACCATTTTGTACCTTAAT
GGAAACCCAAAATGATACGAAAAGTTTTTGAAATCTTTTATACCCTATAGACCTTCATAGGAATA
TAAAAGATTAAAAAAAAGTTCATCTC
Found at i:64012 original size:11 final size:11
Alignment explanation
Indices: 63996--64020 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
63986 ATGGATCATG
63996 AAGGCTAAATC
1 AAGGCTAAATC
64007 AAGGCTAAATC
1 AAGGCTAAATC
64018 AAG
1 AAG
64021 CATGAAACAA
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:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (11 bp):
AAGGCTAAATC
Found at i:67756 original size:21 final size:21
Alignment explanation
Indices: 67727--67767 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
67717 TTGGATTACA
*
67727 GTTGCATCGATGCAATTGCAT
1 GTTGCATCGATACAATTGCAT
* *
67748 GTTGTATCGATATAATTGCA
1 GTTGCATCGATACAATTGCA
67768 GATGTATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (21 bp):
GTTGCATCGATACAATTGCAT
Found at i:69199 original size:20 final size:20
Alignment explanation
Indices: 69174--69216 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69164 TGCCTTAAGG
* *
69174 ATTTTTGTGTCATTTTAGGT
1 ATTTTTATGACATTTTAGGT
*
69194 ATTTTTATGACATTTTAGTT
1 ATTTTTATGACATTTTAGGT
69214 ATT
1 ATT
69217 CTCCATTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (20 bp):
ATTTTTATGACATTTTAGGT
Found at i:69455 original size:58 final size:57
Alignment explanation
Indices: 69245--69476 Score: 198
Period size: 57 Copynumber: 4.1 Consensus size: 57
69235 TTTAGGTAAT
* * * ** * *
69245 TTTATACAATTGCATATATGTTAGGGTCATTTAGGTTTTTTTTAATGATCTAAAGAC
1 TTTATGCAATTTCATGTATGTTAGGGTCATTTAGGTCATTTTTCATGATCTAAGGAC
* * * * * * * **
69302 TTCTATGCAATTTTATGAAT-TTTGGGTCATTTAGGTTATTTTCCATTATTTGGGGAC
1 TT-TATGCAATTTCATGTATGTTAGGGTCATTTAGGTCATTTTTCATGATCTAAGGAC
* * * *
69359 TTT-TGCACATTTCATGTATGCTGGGGCCATTTAAGTCATTTTTCATGATCTAAGGAC
1 TTTATGCA-ATTTCATGTATGTTAGGGTCATTTAGGTCATTTTTCATGATCTAAGGAC
* * * * *
69416 TTATATGCAATTTCATGTATGTTAGGGTTAATTAGGTCATTTTTTATAATCTAGGGAC
1 TT-TATGCAATTTCATGTATGTTAGGGTCATTTAGGTCATTTTTCATGATCTAAGGAC
69474 TTT
1 TTT
69477 TGTGCATTTT
Statistics
Matches: 135, Mismatches: 35, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
55 4 0.03
56 10 0.07
57 62 0.46
58 55 0.41
59 4 0.03
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (57 bp):
TTTATGCAATTTCATGTATGTTAGGGTCATTTAGGTCATTTTTCATGATCTAAGGAC
Found at i:70366 original size:13 final size:13
Alignment explanation
Indices: 70348--70373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70338 TACACCAAGT
70348 ATGTATCGATACA
1 ATGTATCGATACA
70361 ATGTATCGATACA
1 ATGTATCGATACA
70374 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70371 original size:32 final size:33
Alignment explanation
Indices: 70330--70393 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
70320 TAGCCAAACT
**
70330 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
70362 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
70394 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:72626 original size:21 final size:21
Alignment explanation
Indices: 72593--72642 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
72583 TTGCAAGTTG
*
72593 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
72615 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
72636 AAATAAA
1 AAATAAA
72643 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:76550 original size:13 final size:13
Alignment explanation
Indices: 76532--76570 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
76522 ACATTTTTCT
76532 TTGTATCGATACA
1 TTGTATCGATACA
*
76545 TTGTATCGATACG
1 TTGTATCGATACA
*
76558 TTTTATCGATACA
1 TTGTATCGATACA
76571 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:79080 original size:13 final size:13
Alignment explanation
Indices: 79062--79087 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79052 TACACCAAGT
79062 ATGTATCGATACA
1 ATGTATCGATACA
79075 ATGTATCGATACA
1 ATGTATCGATACA
79088 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:79085 original size:32 final size:33
Alignment explanation
Indices: 79044--79107 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
79034 TAGCCAAACT
**
79044 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
79076 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
79108 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:80581 original size:13 final size:13
Alignment explanation
Indices: 80563--80588 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80553 CAATTTTTTG
80563 TGTATCGATACAT
1 TGTATCGATACAT
80576 TGTATCGATACAT
1 TGTATCGATACAT
80589 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80600 original size:32 final size:33
Alignment explanation
Indices: 80543--80606 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
80533 TACAGGCCAA
**
80543 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
80576 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
80607 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:82695 original size:21 final size:20
Alignment explanation
Indices: 82666--82708 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
82656 GACTAGTGTG
* *
82666 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
82687 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
82707 GG
1 GG
82709 TGGTGTTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:83167 original size:13 final size:13
Alignment explanation
Indices: 83149--83174 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83139 ATAATCCCCC
83149 TGTATCGATACAA
1 TGTATCGATACAA
83162 TGTATCGATACAA
1 TGTATCGATACAA
83175 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85270 original size:15 final size:15
Alignment explanation
Indices: 85250--85280 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85240 ATTTCGTTTG
*
85250 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
85265 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
85280 G
1 G
85281 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:87114 original size:21 final size:21
Alignment explanation
Indices: 87085--87129 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
87075 AAGTTTTTAT
*
87085 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
87105 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
87127 TTT
1 TTT
87130 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:88800 original size:13 final size:13
Alignment explanation
Indices: 88782--88807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88772 CAATTTTTTG
88782 TGTATCGATACAT
1 TGTATCGATACAT
88795 TGTATCGATACAT
1 TGTATCGATACAT
88808 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:88819 original size:32 final size:33
Alignment explanation
Indices: 88762--88825 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
88752 TACAAGCCAA
**
88762 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
88795 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
88826 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:97091 original size:103 final size:102
Alignment explanation
Indices: 96880--97095 Score: 249
Period size: 102 Copynumber: 2.1 Consensus size: 102
96870 TTTGCAGGGG
* * * * *
96880 ATACTCTAACCTCGCTCTTCGAAATCTGTCAAGGTTTGAACTTTTCCTTTGTCAAATTATTTGTC
1 ATACTCCAACCACACTCTTCGAAATCTGTCAAGGTTTGAACTTTTCCTTTGTCAAATTATCTATC
* ** *
96945 CTCAATGGGAATACTCCAACCCCATCTTTTCGAAAGA
66 ATCAACAGCAATACTCCAACCCCATCTTTTCGAAAGA
* *
96982 ATACTCCAACCACACTCTTTGAAAT-TGATCAAGGTTTGAACTTTTTCTTTGTCAAAATTATCTA
1 ATACTCCAACCACACTCTTCGAAATCTG-TCAAGGTTTGAACTTTTCCTTTGTC-AAATTATCTA
** *
97046 TCATCAACAGCAATACTTTAACCCTATC-TTTCTGAGAA-A
64 TCATCAACAGCAATACTCCAACCCCATCTTTTC-GA-AAGA
97085 ATACTCCAACC
1 ATACTCCAACC
97096 TTGCTTTTCA
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
101 2 0.02
102 49 0.51
103 43 0.45
104 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (102 bp):
ATACTCCAACCACACTCTTCGAAATCTGTCAAGGTTTGAACTTTTCCTTTGTCAAATTATCTATC
ATCAACAGCAATACTCCAACCCCATCTTTTCGAAAGA
Found at i:102247 original size:51 final size:50
Alignment explanation
Indices: 102192--102337 Score: 127
Period size: 51 Copynumber: 3.0 Consensus size: 50
102182 CCTGTGCAGG
*
102192 TGCCAGCTAGTGTGGACTTGGATTCCATAGGGCTTGACCTCCCTATACGAC
1 TGCCAGCTAGTGTGGACTTGGATTCTATAGGGCTTGACCTCCCTATACG-C
* ** * * * * * *
102243 TGCCAACTTTTGTGGATTTGGATTTTATAGGGTTTG--GTCTCTATA-GG
1 TGCCAGCTAGTGTGGACTTGGATTCTATAGGGCTTGACCTCCCTATACGC
* ** * *
102290 TTCCAGCTAGAATAGACATGGATTCTATAGGGCTTGACCTCCCTATAC
1 TGCCAGCTAGTGTGGACTTGGATTCTATAGGGCTTGACCTCCCTATAC
102338 AGGTGCTAGC
Statistics
Matches: 69, Mismatches: 23, Indels: 7
0.70 0.23 0.07
Matches are distributed among these distances:
47 25 0.36
48 1 0.01
49 14 0.20
51 29 0.42
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (50 bp):
TGCCAGCTAGTGTGGACTTGGATTCTATAGGGCTTGACCTCCCTATACGC
Found at i:102376 original size:52 final size:52
Alignment explanation
Indices: 102315--102413 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
102305 ACATGGATTC
* * *
102315 TATAGGGCTTGACCTCCCTATACAGGTGCTAGCTAATATGGATTTTGGAATT
1 TATAAGGCTTGAACTCCCTATACAGGTGCTAGCTAATATGGACTTTGGAATT
* * *
102367 TATAAGGCTTGAACTCTCTATACATGTGCTAGCTAATGTGGACTTTG
1 TATAAGGCTTGAACTCCCTATACAGGTGCTAGCTAATATGGACTTTG
102414 TTTGGTTGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (52 bp):
TATAAGGCTTGAACTCCCTATACAGGTGCTAGCTAATATGGACTTTGGAATT
Found at i:104205 original size:79 final size:79
Alignment explanation
Indices: 104099--104932 Score: 698
Period size: 79 Copynumber: 10.6 Consensus size: 79
104089 GAGATAATAA
* * * **
104099 GGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
104164 CTCGAAAATAATGG
66 CTCGAAAATAACGG
* * * * * * *
104178 GGTTGGAGTATCCACAATGGTGAAAAATTGATAG-TTTAAAAATAAAATCGGAGTTGGAGTGTCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGAT-GTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
104242 CCTCGAAAATAATGG
65 CCTCGAAAATAACGG
* * * * *
104257 GGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAAATAAAACCGAGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
104322 CTCGAAAATAACAG
66 CTCGAAAATAACGG
* * * * * *
104336 GGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAAAAATAAAACTGAGATTAGAGTAT-CC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* ** *
104400 TTTAAAAATAACGA
66 CTCGAAAATAACGG
* * * * *** *
104414 GGTTGAAGGATCCTCGATGGTGAAAAATCAATGTTTTAGAAATAAAATTAGGGTTGGAGTATGCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
**
104479 CTCGAAAATAACAA
66 CTCGAAAATAACGG
* * * * **
104493 GGTTGGAGTATCCCTGATGATGAAAAATTGATATTTTAGAAATAAAATTGGGGTTGGAGTAT-CC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
104557 CTATGGAAATAACGG
66 CT-CGAAAATAACGG
* * *** * * * * * * *
104572 GGTTAGAATATTGTCGAT-GTCAAAAAAACAATATTTTAGAAATAAAATCGGGGTTGAAGTATTC
1 GGTTGGAGTATCCCCGATGGT-GAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* ** *
104636 CATAAAAAATAACAG
65 CCTCGAAAATAACGG
* * * * * * *
104651 CGTTGGAGTAT-CGCAATGGTCG-AAAATTGATATTTTAGAAATAAAACCGGAGTTGGAGTGTCC
1 GGTTGGAGTATCCCCGATGGT-GAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
104714 CCTCGAAAATAACGG
65 CCTCGAAAATAACGG
* ** * *
104729 GGTTAGAGTATCCCCGATTATGAAAAATC-A-GTGTTTAGAAATAAAACTGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGT-TTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
104792 CCTCTAAAAT-ATGG
65 CCTCGAAAATAACGG
* * * * **** *
104806 GGTTGGAGTATCCTCGATGGCGAAAAATCAATATTTTAGAAATAAAACCACAATTGGAATATCCC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
104871 CTC-AGAAATAATGG
66 CTCGA-AAATAACGG
** * * * *
104885 GGTCAGAGTATCCTCGATGGTGGAAAATCGGTGTTTTAGAGATAAAAC
1 GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAAC
104933 ATCAATGAAA
Statistics
Matches: 612, Mismatches: 129, Indels: 28
0.80 0.17 0.04
Matches are distributed among these distances:
77 29 0.05
78 194 0.32
79 385 0.63
80 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAAATAACGG
Found at i:104360 original size:158 final size:158
Alignment explanation
Indices: 104099--104932 Score: 783
Period size: 157 Copynumber: 5.3 Consensus size: 158
104089 GAGATAATAA
* * * * * *
104099 GGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCC
** * * * * *
104164 CTCGAAAATAATGGGGTTGGAGTATCCACAATGGTGAAAAATTGATAGTTTAAAAATAAAATCGG
66 CTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCGG
* *
104229 AGTTGGAGTGTCCCCTCGAAAATAATGG
131 AGTTGGAGTATCCCCTCGAAAATAACGG
* * * * * *
104257 GGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAAAAATAAAACCGAGGTTAGAGTATCCC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCC
* * * * *
104322 CTCGAAAATAACAGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAAAAATAAAA-CTG
66 CTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCGG
* * ** *
104386 AGATTAGAGTAT-CCTTTAAAAATAACGA
131 AG-TTGGAGTATCCCCTCGAAAATAACGG
* * * * *
104414 GGTT-GAAGGATCCTCGATGGTGAAAAATCAATGTTTTAGAAATAAAA-TTAGGGTTGGAGTATG
1 GGTTAG-AGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGA-GGTTGGAGTATC
* * * **
104477 CCCTCGAAAATAACAAGGTTGGAGTATCCCTGATGATGAAAAATTGATATTTTAGAAATAAAATT
64 CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACC
* * *
104542 GGGGTTGGAGTAT-CCCTATGGAAATAACGG
129 GGAGTTGGAGTATCCCCT-CGAAAATAACGG
* *** * * * * * * *
104572 GGTTAGAATATTGTCGAT-GTCAAAAAAACAATATTTTAGAAATAAAA-TCGGGGTTGAAGTATT
1 GGTTAGAGTATCCCCGATGGT-GAAAAATCAGTGTTTTAGAAATAAAACT-GAGGTTGGAGTATC
* ** * * *
104635 CCATAAAAAATAACAGCGTTGGAGTAT-CGCAATGGTCG-AAAATTGATATTTTAGAAATAAAAC
64 CCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGT-GAAAAATTGATATTTTAGAAATAAAAC
*
104698 CGGAGTTGGAGTGTCCCCTCGAAAATAACGG
128 CGGAGTTGGAGTATCCCCTCGAAAATAACGG
**
104729 GGTTAGAGTATCCCCGATTATGAAAAATCAGTG-TTTAGAAATAAAACTGAGGTTGGAGTATCCC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCC
* ** * * ** **
104793 CTCTAAAAT-ATGGGGTTGGAGTATCCTCGATGGCGAAAAATCAATATTTTAGAAATAAAACCAC
66 CTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCGG
* * *
104857 AATTGGAATATCCCCTC-AGAAATAATGG
131 AGTTGGAGTATCCCCTCGA-AAATAACGG
* * * * *
104885 GGTCAGAGTATCCTCGATGGTGGAAAATCGGTGTTTTAGAGATAAAAC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAAC
104933 ATCAATGAAA
Statistics
Matches: 551, Mismatches: 109, Indels: 33
0.80 0.16 0.05
Matches are distributed among these distances:
155 14 0.03
156 113 0.21
157 219 0.40
158 204 0.37
159 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (158 bp):
GGTTAGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAACTGAGGTTGGAGTATCCC
CTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAATAAAACCGG
AGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:104538 original size:236 final size:234
Alignment explanation
Indices: 104099--104853 Score: 738
Period size: 236 Copynumber: 3.2 Consensus size: 234
104089 GAGATAATAA
* * * ** * *
104099 GGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAACTGGGGTT-GAGTAT-CC
* ** * * *
104164 CTCGAAAATAATGGGGTTGGAGTATCCACAATGGTGAAAAATTGATAG-TTTAAAAATAAAATCG
64 ATAAAAAATAACGAGGTTGGAGTATCCACAATGGTGAAAAATTGAT-GTTTTAGAAATAAAATCG
* * * * *
104228 GAGTTGGAGTGTCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTT
128 GAGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATTGAT-TTT
* * * *
104293 TAAAAATAAAACCGAGGTTAGAGTATCCCCTCGAAAATAACAG
192 TAGAAATAAAACTGAGGTTGGAGTATCCCCTCGAAAATAACGG
* * * * * *
104336 GGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAAAAATAAAACTGAGATTAGAGTATCCT
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAACTGGGGTT-GAGTATCCA
* * * * * ** *
104401 TTAAAAATAACGAGGTTGAAGGATCCTCGATGGTGAAAAATCAATGTTTTAGAAATAAAATTAGG
65 TAAAAAATAACGAGGTTGGAGTATCCACAATGGTGAAAAATTGATGTTTTAGAAATAAAA-TCGG
* * ** *
104466 -GTTGGAGTATGCCCTCGAAAATAACAAGGTTGGAGTATCCCTGATGATGAAAAATTGATATTTT
129 AGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATTGAT-TTTT
* * * *
104530 AGAAATAAAATTGGGGTTGGAGTAT-CCCTATGGAAATAACGG
193 AGAAATAAAACTGAGGTTGGAGTATCCCCT-CGAAAATAACGG
* *** * *
104572 GGTTAGAATATTGTCGAT-GTCAAAAAAACAATATTTTAGAAATAAAA-TCGGGGTTGAAGTATT
1 GGTTAGAGTATCCCCGATGGT-GAAAAATCAATATTTTAGAAATAAAACT-GGGGTTG-AGTA-T
* *
104635 CCATAAAAAATAAC-AGCGTTGGAGTAT-CGCAATGGTCG-AAAATTGATATTTTAGAAATAAAA
62 CCATAAAAAATAACGAG-GTTGGAGTATCCACAATGGT-GAAAAATTGATGTTTTAGAAATAAAA
* * * *
104697 CCGGAGTTGGAGTGTCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAA-TCAGT
125 TCGGAGTTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATTGA-T
* * *
104761 GTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCTAAAAT-ATGG
189 TTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCGAAAATAACGG
* * *
104806 GGTTGGAGTATCCTCGATGGCGAAAAATCAATATTTTAGAAATAAAAC
1 GGTTAGAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAAC
104854 CACAATTGGA
Statistics
Matches: 419, Mismatches: 85, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
234 41 0.10
235 44 0.11
236 256 0.61
237 78 0.19
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (234 bp):
GGTTAGAGTATCCCCGATGGTGAAAAATCAATATTTTAGAAATAAAACTGGGGTTGAGTATCCAT
AAAAAATAACGAGGTTGGAGTATCCACAATGGTGAAAAATTGATGTTTTAGAAATAAAATCGGAG
TTGGAGTGTCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATGAAAAATTGATTTTTAGA
AATAAAACTGAGGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:108172 original size:20 final size:20
Alignment explanation
Indices: 108147--108194 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
108137 CTATCACTGT
*
108147 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
108167 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
108187 TTGTATCG
1 TTGTATCG
108195 CACATTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:109369 original size:30 final size:30
Alignment explanation
Indices: 109330--109395 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
109320 ATGCTAAAGC
*
109330 AATGCACACGTTGTTTTGTGCTCTTGGGCCA
1 AATG-ACACGTTGTTTTGTGCTCTCGGGCCA
109361 AATGACACGTTGTTTTGTGCTCTCGGGCCA
1 AATGACACGTTGTTTTGTGCTCTCGGGCCA
109391 AATGA
1 AATGA
109396 GTACAATCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (30 bp):
AATGACACGTTGTTTTGTGCTCTCGGGCCA
Found at i:109834 original size:9 final size:10
Alignment explanation
Indices: 109814--109850 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
109804 CAAGTCAACC
109814 ATGAATGATG
1 ATGAATGATG
109824 ATGAA-GATG
1 ATGAATGATG
109833 AT-AATGATG
1 ATGAATGATG
109842 AT-AATGATG
1 ATGAATGATG
109851 GTGACTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 2 0.08
9 19 0.73
10 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (10 bp):
ATGAATGATG
Found at i:113703 original size:33 final size:33
Alignment explanation
Indices: 113661--113725 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
113651 CACTATTTGC
*
113661 ATCGATACATGGT-ACAATGTATCGATACATTGA
1 ATCGATACATGATGA-AATGTATCGATACATTGA
*
113694 ATCGATACATGATGAATTGTATCGATACATTG
1 ATCGATACATGATGAAATGTATCGATACATTG
113726 CTTGTAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
ATCGATACATGATGAAATGTATCGATACATTGA
Found at i:119205 original size:13 final size:13
Alignment explanation
Indices: 119187--119228 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
119177 ACAATATTCC
119187 TTGTATCGATACA
1 TTGTATCGATACA
119200 TTGTATCGATACA
1 TTGTATCGATACA
*
119213 CTGTATCGATACA
1 TTGTATCGATACA
119226 TTG
1 TTG
119229 GGTACTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:121168 original size:13 final size:13
Alignment explanation
Indices: 121150--121174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121140 TTGATTAAGA
121150 GGGAGAAAAATGG
1 GGGAGAAAAATGG
121163 GGGAGAAAAATG
1 GGGAGAAAAATG
121175 AAAACTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (13 bp):
GGGAGAAAAATGG
Found at i:122077 original size:19 final size:20
Alignment explanation
Indices: 122053--122107 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
122043 GTATCAATAC
* **
122053 ATTGTATCGATATAT-GTTA
1 ATTGTATCGATACATGGACA
*
122072 ATTGTATCCATACATGGACA
1 ATTGTATCGATACATGGACA
122092 ATTGTATCGATACATG
1 ATTGTATCGATACATG
122108 AAATTGGTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:128330 original size:13 final size:13
Alignment explanation
Indices: 128312--128336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128302 CAATTTATAT
128312 TGTATCGATACAC
1 TGTATCGATACAC
128325 TGTATCGATACA
1 TGTATCGATACA
128337 TTGGGTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:130229 original size:34 final size:34
Alignment explanation
Indices: 130190--130259 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
130180 GAAAATAAAA
130190 AATTTTTTAGAGAAATGCTTTGATTAAGGGGGAG
1 AATTTTTTAGAGAAATGCTTTGATTAAGGGGGAG
** *
130224 AATTTTTTTTAGAAATTCTTTGATTAAGGGGGAG
1 AATTTTTTAGAGAAATGCTTTGATTAAGGGGGAG
130258 AA
1 AA
130260 AAATGAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.39
Consensus pattern (34 bp):
AATTTTTTAGAGAAATGCTTTGATTAAGGGGGAG
Found at i:132571 original size:16 final size:16
Alignment explanation
Indices: 132544--132586 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
132534 ATGTTTGTGT
132544 TAATTT-TCATTTTGA
1 TAATTTGTCATTTTGA
132559 TAATTTGTCATTTTGA
1 TAATTTGTCATTTTGA
132575 TAATTTGT-ATTT
1 TAATTTGTCATTT
132587 ATTAGTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (16 bp):
TAATTTGTCATTTTGA
Found at i:133483 original size:167 final size:166
Alignment explanation
Indices: 133190--133543 Score: 505
Period size: 167 Copynumber: 2.1 Consensus size: 166
133180 AACTAAAGTG
* * * *
133190 AAAATTTTTAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCATTTT
1 AAAATTTTCAAAAGTTTAGGGATTAAAGAGCAAAATTTAGTTTTTAGAGGTAAAATCATCATTTT
* * *
133255 AGTCATTTTTATAGATTTCTATTATTCCTAGAGCCTTCCATAGGGGTATAGAAATTTTCAAGACT
66 AGTCATTTTTAAAGATTTCTATTATTCCTAGAGCCTTCCATAGAGGTATAGAAAATTTCAAGACT
** **
133320 TTTTGTATCCTCTTGCTTTTTTCGTAGGATATC-AAAT
131 TTTCATAT-CTCTTGAATTTTTCGTAGGATA-CGAAAT
*
133357 GAAATTTTCAAAAGTTTAGGGATTAAAGAGCAAAATTTAGTTTTTAGAGGTAAAATCATCATTTT
1 AAAATTTTCAAAAGTTTAGGGATTAAAGAGCAAAATTTAGTTTTTAGAGGTAAAATCATCATTTT
* *
133422 AGTCATTTTTAAAGATTTCTATTATTCTTATG-GCCTTCCATAGAGGTCTAGAAAATTTCAAGAC
66 AGTCATTTTTAAAGATTTCTATTATTCCTA-GAGCCTTCCATAGAGGTATAGAAAATTTCAAGAC
* * * *
133486 TTTTCATATCTTTTTAATTTTTCGTTGGGTACGAAAT
130 TTTTCATATCTCTTGAATTTTTCGTAGGATACGAAAT
133523 AAAATTTTCAAAAGTTTAGGG
1 AAAATTTTCAAAAGTTTAGGG
133544 GCTTAATTGA
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
165 1 0.01
166 40 0.24
167 124 0.75
168 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (166 bp):
AAAATTTTCAAAAGTTTAGGGATTAAAGAGCAAAATTTAGTTTTTAGAGGTAAAATCATCATTTT
AGTCATTTTTAAAGATTTCTATTATTCCTAGAGCCTTCCATAGAGGTATAGAAAATTTCAAGACT
TTTCATATCTCTTGAATTTTTCGTAGGATACGAAAT
Found at i:140817 original size:12 final size:13
Alignment explanation
Indices: 140790--140818 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
140780 TTTCGAATGG
140790 TTTGAAGGACAAA
1 TTTGAAGGACAAA
140803 TTTGAAGGA-AAA
1 TTTGAAGGACAAA
140815 TTTG
1 TTTG
140819 TGTCTTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (13 bp):
TTTGAAGGACAAA
Found at i:141030 original size:33 final size:33
Alignment explanation
Indices: 140993--141076 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
140983 ATAGTACCCT
* *
140993 TGTATCAATACAAAGAACGTAGTATCGATACAA
1 TGTATCGATACAAAGAACGCAGTATCGATACAA
* *
141026 TGTATCGATACAAAGAATGCAGTATCGATATAA
1 TGTATCGATACAAAGAACGCAGTATCGATACAA
*
141059 TGTATCGATACTAAGAAC
1 TGTATCGATACAAAGAAC
141077 AAAGTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (33 bp):
TGTATCGATACAAAGAACGCAGTATCGATACAA
Found at i:141032 original size:13 final size:13
Alignment explanation
Indices: 141014--141038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141004 AAAGAACGTA
141014 GTATCGATACAAT
1 GTATCGATACAAT
141027 GTATCGATACAA
1 GTATCGATACAA
141039 AGAATGCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:147180 original size:20 final size:20
Alignment explanation
Indices: 147155--147209 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
147145 GTTGGGCTTA
* *
147155 ATGTATCGATACATTTCACC
1 ATGTATCGATACAATCCACC
**
147175 ATGTATCGATACAATCCTTC
1 ATGTATCGATACAATCCACC
147195 ATGTATCGATACAAT
1 ATGTATCGATACAAT
147210 GTATCGACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATCCACC
Found at i:147213 original size:13 final size:13
Alignment explanation
Indices: 147195--147224 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
147185 ACAATCCTTC
*
147195 ATGTATCGATACA
1 ATGTATCGACACA
147208 ATGTATCGACACA
1 ATGTATCGACACA
147221 ATGT
1 ATGT
147225 GAGTTTTAGC
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:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTATCGACACA
Found at i:148384 original size:13 final size:13
Alignment explanation
Indices: 148366--148391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
148356 CAATTTTTTG
148366 TGTATCGATACAT
1 TGTATCGATACAT
148379 TGTATCGATACAT
1 TGTATCGATACAT
148392 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:148406 original size:32 final size:33
Alignment explanation
Indices: 148346--148409 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
148336 TACAAGCCAA
** *
148346 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
148379 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
148410 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:150395 original size:21 final size:20
Alignment explanation
Indices: 150371--150413 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
150361 GACTAGTGTG
*
150371 GGGACTACCCGGTTGTGACCT
1 GGGACT-CCCGGTCGTGACCT
* *
150392 GGGAGTGCCGGTCGTGACCT
1 GGGACTCCCGGTCGTGACCT
150412 GG
1 GG
150414 TGGTGCTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTCCCGGTCGTGACCT
Found at i:154833 original size:21 final size:21
Alignment explanation
Indices: 154804--154848 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
154794 AAGTTTTTAT
*
154804 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
154824 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
154846 TTT
1 TTT
154849 CACCTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:159409 original size:17 final size:15
Alignment explanation
Indices: 159387--159461 Score: 69
Period size: 16 Copynumber: 4.5 Consensus size: 15
159377 CATTCTTTTC
159387 AAAAAAAAAAAGGCAA
1 AAAAAAAAAAAGG-AA
159403 AAAAAAAAAAAGGAA
1 AAAAAAAAAAAGGAA
**
159418 AAAAACAAAAAAACAA
1 AAAAA-AAAAAAGGAA
159434 AACAAAGAAAAAGAGAGAA
1 AA-AAA-AAAAA-AG-GAA
159453 AAGAAAAAA
1 AA-AAAAAA
159462 CCTACTTAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.14
16 23 0.47
17 8 0.16
18 4 0.08
19 7 0.14
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGGAA
Found at i:160511 original size:55 final size:55
Alignment explanation
Indices: 160422--161216 Score: 1137
Period size: 55 Copynumber: 14.4 Consensus size: 55
160412 TCTCCTTCCG
160422 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
160477 -TTTTCCAGTCCTCAAAGAGCGGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* * *
160532 CCTTTTTAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGCCA
1 -CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
160588 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
160643 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
160698 -TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
*
160753 -TTTTCCAGTCCTCAAAGAGCAGGACACCACTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* * *
160808 CCTTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
160863 -TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTC-AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
160918 CCTTTT-AGTCCCCAAAGAGCAAGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
160973 -TTTTCTAGTCATCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTC-AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
161028 -TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
161083 CCTTTCATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* * *
161138 CCTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
* * *
161193 CTTTTTACTCCTCAATGAGCAGGA
1 CTTTTCAGTCCTCAAAGAGCAGGA
161217 TACAATTTAT
Statistics
Matches: 678, Mismatches: 42, Indels: 40
0.89 0.06 0.05
Matches are distributed among these distances:
53 4 0.01
54 21 0.03
55 585 0.86
56 60 0.09
57 8 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
CTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
Found at i:161144 original size:29 final size:29
Alignment explanation
Indices: 160997--161144 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
160987 AAGAACAGGA
*
160997 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
161026 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
161052 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
161081 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
161107 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
161136 CACCTTTCA
1 CACCTTTCA
161145 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:161838 original size:21 final size:21
Alignment explanation
Indices: 161812--161887 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
161802 AAAAATTCCA
*
161812 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTATAG
161833 AATGTATCGATACATTTAT-G
1 AATGTATCGATACATTTATAG
*
161853 AATGTATCGATACATTCTACA-
1 AATGTATCGATACATT-TATAG
161874 AATGTATCGATACA
1 AATGTATCGATACA
161888 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.33
21 34 0.67
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:161961 original size:32 final size:32
Alignment explanation
Indices: 161925--161987 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
161915 TTCAACGATT
* *
161925 TGTATCGATACATGAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
161957 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
161988 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:161962 original size:13 final size:13
Alignment explanation
Indices: 161944--161968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
161934 ACATGAGTTT
161944 TGTATCGATACAA
1 TGTATCGATACAA
161957 TGTATCGATACA
1 TGTATCGATACA
161969 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:161990 original size:19 final size:19
Alignment explanation
Indices: 161924--161990 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
161914 ATTCAACGAT
* *
161924 TTGTATCGATACATGAGTT
1 TTGTATCGATACATAAGTA
161943 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
161957 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
161975 TTGTATCGATACATAA
1 TTGTATCGATACATAA
161991 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.27
16 2 0.05
18 1 0.02
19 27 0.66
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:166057 original size:13 final size:13
Alignment explanation
Indices: 166039--166064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
166029 CAATTTTTTG
166039 TGTATCGATACAT
1 TGTATCGATACAT
166052 TGTATCGATACAT
1 TGTATCGATACAT
166065 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166079 original size:32 final size:33
Alignment explanation
Indices: 166019--166082 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
166009 TACAAGCCAA
** *
166019 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
166052 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
166083 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:168147 original size:24 final size:24
Alignment explanation
Indices: 168077--168148 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
168067 ACTATTTATT
*
168077 ACTATTCATCAATGTTCATGTACC
1 ACTATTCATCAATGTTCATGTATC
* *
168101 AC-AGTTCATTACTGTTCATGTATC
1 ACTA-TTCATCAATGTTCATGTATC
*
168125 ACTATTCATCATTGTTCATGTATC
1 ACTATTCATCAATGTTCATGTATC
168149 GATACAGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (24 bp):
ACTATTCATCAATGTTCATGTATC
Found at i:168695 original size:32 final size:34
Alignment explanation
Indices: 168614--168698 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 34
168604 AAGAGATTGT
*
168614 GAGGTTCTATCTTAGCCATTGAAAAAGATAAGGA
1 GAGGTTCTATCTTAGCCAGTGAAAAAGATAAGGA
*
168648 GAAAGGTTCTATCTTAGCCCGTG-AAAAGAT-A-GA
1 G--AGGTTCTATCTTAGCCAGTGAAAAAGATAAGGA
168681 GAGGTTTCTATCTTAGCC
1 GAGG-TTCTATCTTAGCC
168699 TTGAAAGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
31 3 0.07
32 13 0.28
33 3 0.07
34 2 0.04
35 7 0.15
36 18 0.39
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
GAGGTTCTATCTTAGCCAGTGAAAAAGATAAGGA
Found at i:178092 original size:6 final size:6
Alignment explanation
Indices: 178077--178143 Score: 59
Period size: 6 Copynumber: 11.2 Consensus size: 6
178067 ATTTTGTTTA
* *
178077 TAATTAT TAATTT TAACTT TAATTT TAATTT T--TCTT TAATTT TTATTT
1 TAATT-T TAATTT TAATTT TAATTT TAATTT TAAT-TT TAATTT TAATTT
*
178125 T-ATTT TATTTTT TAATTT T
1 TAATTT TA-ATTT TAATTT T
178144 TTTTACTAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
4 1 0.02
5 8 0.16
6 30 0.60
7 11 0.22
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (6 bp):
TAATTT
Found at i:178115 original size:17 final size:17
Alignment explanation
Indices: 178066--178148 Score: 71
Period size: 17 Copynumber: 4.7 Consensus size: 17
178056 TCATTTCCAA
*
178066 AATTTTGTTTATAATTATT
1 AATTTTATTT-TAATT-TT
*
178085 AATTTTAACTTTAATTTT
1 AATTTT-ATTTTAATTTT
178103 AATTTT-TCTTTAATTTT
1 AATTTTAT-TTTAATTTT
* *
178120 TATTTTATTTTATTTTTT
1 AATTTTATTTTA-ATTTT
178138 AATTTT-TTTTA
1 AATTTTATTTTA
178149 CTAGTTTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
17 23 0.43
18 18 0.33
19 11 0.20
20 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (17 bp):
AATTTTATTTTAATTTT
Found at i:178116 original size:11 final size:11
Alignment explanation
Indices: 178099--178147 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
178089 TTAACTTTAA
178099 TTTTAATTTTT
1 TTTTAATTTTT
*
178110 CTTTAATTTTT
1 TTTTAATTTTT
*
178121 ATTTTATTTTATT
1 -TTTTAATTT-TT
178134 TTTTAATTTTT
1 TTTTAATTTTT
178145 TTT
1 TTT
178148 ACTAGTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 15 0.47
12 15 0.47
13 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:179623 original size:165 final size:166
Alignment explanation
Indices: 179313--179625 Score: 395
Period size: 165 Copynumber: 1.9 Consensus size: 166
179303 TTAGTGACTA
* ** *
179313 AAATGAAAATTTTTAAAAATTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAGTCACC
1 AAATGAAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGATAAAGTCACC
* * * * **
179378 ATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCACTTCGTATGGGTATTAAAATTTTCA
66 ATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTTCATATGGGTACAAAAATTTTCA
* *
179443 TGACTTTCGTATCCTCTCGATTTTTTGTCGAGTATG
131 AGACTTTCATATCCTCTCGATTTTTTGTCGAGTATG
* * *
179479 AAATG-AAATTTTTAAAAGTTTAAGGATTAAATAGTAAATTTTAACTTTTAGA-ATCAAA-TCAT
1 AAATGAAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGAT-AAAGTCAC
*
179541 TATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGC-CTTGCATA-GAGGTACAAAAACTT
65 CATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTT-CATATG-GGTACAAAAA-TT
179604 TT-AAGACTTTTCATATCCTCTC
127 TTCAAGAC-TTTCATATCCTCTC
179626 AGTTTTTCAT
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
163 4 0.03
164 55 0.44
165 62 0.49
166 5 0.04
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (166 bp):
AAATGAAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGATAAAGTCACC
ATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTTCATATGGGTACAAAAATTTTCA
AGACTTTCATATCCTCTCGATTTTTTGTCGAGTATG
Found at i:179655 original size:165 final size:165
Alignment explanation
Indices: 179311--179668 Score: 390
Period size: 165 Copynumber: 2.2 Consensus size: 165
179301 ATTTAGTGAC
* ** *
179311 TAAAATGAAAATTTTTAAAAATTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAGTCA
1 TAAAAT-AAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGATAAAGTCA
* * * * **
179376 CCATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCACTTCGTATGGGTATTAAAATTTT
65 CCATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTTCATATGGGTACAAAAATTTT
* * **
179441 CATGACTTTCGTATCCTCTCGATTTTTTGTCGAGTA
130 CAAGACTTTCATATCCTCTCGATTTTTCATCGAGTA
* * * *
179477 TGAAATGAAATTTTTAAAAGTTTAAGGATTAAATAGTAAATTTTAACTTTTAGA-ATCAAA-TCA
1 TAAAATAAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGAT-AAAGTCA
**
179540 TTATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGC-CTTGCATA-GAGGTACAAAAACT
65 CCATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTT-CATATG-GGTACAAAAA-T
179603 TTT-AAGACTTTTCATATCCTCTC-AGTTTTTCATC-AGGT-
127 TTTCAAGAC-TTTCATATCCTCTCGA-TTTTTCATCGA-GTA
*
179641 TCAAAATAAAATTTTCAAAAATTTAAGG
1 T-AAAATAAAATTTTTAAAAATTTAAGG
179669 GTTTAATTGA
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
163 4 0.03
164 58 0.36
165 93 0.58
166 5 0.03
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (165 bp):
TAAAATAAAATTTTTAAAAATTTAAGGATTAAATAGCAAATTTTAACTTTTAGAGATAAAGTCAC
CATTTTAATCATTTTTAAAGATTTCTATTATTCCTACGGCACTTCATATGGGTACAAAAATTTTC
AAGACTTTCATATCCTCTCGATTTTTCATCGAGTA
Found at i:186073 original size:14 final size:14
Alignment explanation
Indices: 186054--186082 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
186044 GCTTATGGTA
186054 ATCTCCATTGATTG
1 ATCTCCATTGATTG
186068 ATCTCCATTGATTG
1 ATCTCCATTGATTG
186082 A
1 A
186083 GGCTAACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (14 bp):
ATCTCCATTGATTG
Found at i:191811 original size:79 final size:79
Alignment explanation
Indices: 191650--191909 Score: 300
Period size: 79 Copynumber: 3.3 Consensus size: 79
191640 TCATTCATGT
* * * *
191650 TTTTATTTCTAAAATACCGATTTTCCACCATC-AGGATATTCCAA-CTCCATTA-TTTCTGAGGG
1 TTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCCAACCT-CGTTATTTTC-GAGGG
191712 GATACTCCAACCTCGA
64 GATACTCCAACCTCGA
* *
191728 TTTTATTTCTAAAACATCGATTTTCTACCATCAAGGATACTCTAACCTCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCCAACCTCGTTATTTTCGAGGGGA
* *
191793 TACTTCAACC-CTA
66 TACTCCAACCTCGA
* * * *
191806 GTTTTATTT-TCAAAACA-CTGATTTTCCACAACCAGGGATACTCCAACC-CTGTTATTTCCGAG
1 -TTTTATTTCT-AAAACATC-GATTTTCCACCATCAAGGATACTCCAACCTC-GTTATTTTCGAG
191868 GGGATACTCCAACCTCGA
62 GGGATACTCCAACCTCGA
*
191886 TTTTATTTCTAAAACATCAATTTT
1 TTTTATTTCTAAAACATCGATTTT
191910 TCATTATCGG
Statistics
Matches: 155, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
78 34 0.22
79 111 0.72
80 10 0.06
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCCAACCTCGTTATTTTCGAGGGGA
TACTCCAACCTCGA
Found at i:191943 original size:130 final size:131
Alignment explanation
Indices: 191788--192061 Score: 353
Period size: 130 Copynumber: 2.1 Consensus size: 131
191778 TTATTTTCGA
*
191788 GGGGATACT-TCAACCCTAGTTTTATTT-TCAAAACA-CTGATTTTCCACAACCAGGGATACTCC
1 GGGGATACTCTCAACCCCAGTTTTATTTCT-AAAACATC-GATTTTCCACAACCAGGGATACTCC
* * * *
191850 AACCCTGTTATTTCCGAGGGGATACTCCAA-CCTCGATTTTATTTCTAAAACATCAATTTTTCAT
64 AACCCTGTTATTTCCGAAGGGATACTCAAATCC-CGATTTTATTTCCAAAACATCAATTTTCCAT
*
191914 TATC
128 AATC
* * * *
191918 GGGGATACTCT-AACCCCGGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTTCAA
1 GGGGATACTCTCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCACAACCAGGGATACTCCAA
* * **
191982 CCCTGTTATTTCTGAAGGGATACTCAAATCCCGGTTTTATTTCCAAAACATTGATTTTCCATAAT
66 CCCTGTTATTTCCGAAGGGATACTCAAATCCCGATTTTATTTCCAAAACATCAATTTTCCATAAT
192047 C
131 C
192048 GGGGATACTC-CAAC
1 GGGGATACTCTCAAC
192062 TCCATTATTT
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
130 120 0.96
131 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (131 bp):
GGGGATACTCTCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCACAACCAGGGATACTCCAA
CCCTGTTATTTCCGAAGGGATACTCAAATCCCGATTTTATTTCCAAAACATCAATTTTCCATAAT
C
Found at i:191974 original size:51 final size:51
Alignment explanation
Indices: 191868--191984 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
191858 TATTTCCGAG
* * ** *
191868 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCATTATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACCATCA
* * *
191919 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCACCATCA
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACCATCA
*
191970 GGGATACTTCAACCC
1 GGGATACTCCAACCC
191985 TGTTATTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCACCATCA
Found at i:192084 original size:209 final size:209
Alignment explanation
Indices: 191709--192093 Score: 539
Period size: 209 Copynumber: 1.8 Consensus size: 209
191699 TTATTTCTGA
* *
191709 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCTACCATCAAGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCTAAC
* *
191774 CTCGTTATTTTCGAGGGGATACTTCAACCCTAGTTTTATTTTCAAAACACTGATTTTCCACAACC
66 CTCGTTATTTTCGAAGGGATACTTCAACCCTAGTTTTATTTCCAAAACACTGATTTTCCACAACC
* *
191839 AGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAACATC
131 AGGGATACTCCAACCCTATTATTTCCGAGAGGATACTCCAACCTCGATTTTATTTCTAAAACATC
191904 AATTTTTCATTATC
196 AATTTTTCATTATC
* * *
191918 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACT-TCAA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCT-AA
* *
191982 CC-CTGTTA-TTTCTGAAGGGATAC-TCAAATCCC-GGTTTTATTTCCAAAACATTGATTTTCCA
65 CCTC-GTTATTTTC-GAAGGGATACTTC-AA-CCCTAGTTTTATTTCCAAAACACTGATTTTCCA
* * * *
192043 TAATCGGGGATACTCCAACTCC-ATTATTTTCGAGAGGATACTCCAACCTCG
126 CAACCAGGGATACTCCAAC-CCTATTATTTCCGAGAGGATACTCCAACCTCG
192094 TTATTTCTGA
Statistics
Matches: 155, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
208 8 0.05
209 142 0.92
210 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (209 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCTAAC
CTCGTTATTTTCGAAGGGATACTTCAACCCTAGTTTTATTTCCAAAACACTGATTTTCCACAACC
AGGGATACTCCAACCCTATTATTTCCGAGAGGATACTCCAACCTCGATTTTATTTCTAAAACATC
AATTTTTCATTATC
Found at i:192085 original size:79 final size:79
Alignment explanation
Indices: 191919--192071 Score: 209
Period size: 79 Copynumber: 1.9 Consensus size: 79
191909 TTCATTATCG
* * * *
191919 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCACCATCAGGGATACTTCAACC
1 GGGATACTCAAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACC
*
191984 CTGTTATTTCTGAA
66 CTATTATTTCTGAA
* * * *
191998 GGGATACTCAAATCCCGGTTTTATTTCCAAAACATTGATTTTCCATAATCGGGGATACTCCAACT
1 GGGATACTCAAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAAC-
192063 CC-ATTATTT
65 CCTATTATTT
192072 TCGAGAGGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 62 0.97
80 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGATACTCAAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACC
CTATTATTTCTGAA
Found at i:192097 original size:28 final size:29
Alignment explanation
Indices: 192050--192118 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
192040 CCATAATCGG
192050 GGATACTCCAA-CTCCATTATTT-TCGAGA
1 GGATACTCCAACCTCCATTATTTCT-GAGA
* *
192078 GGATACTCCAACCT-CGTTATTTCTGAGG
1 GGATACTCCAACCTCCATTATTTCTGAGA
*
192106 GGATATTCCAACC
1 GGATACTCCAACC
192119 CTAGTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (29 bp):
GGATACTCCAACCTCCATTATTTCTGAGA
Found at i:192161 original size:107 final size:105
Alignment explanation
Indices: 191969--192304 Score: 369
Period size: 107 Copynumber: 3.2 Consensus size: 105
191959 TTCCACCATC
* * * * *
191969 AGGGATACTTCAACCCTGTTATTTCTGAAGGGATACTCAAATCCC-GGTTTTATTTCCAAAACAT
1 AGGGATACTCCAACCCTGTTATTTCTGAGGGGATATTCCAA-CCCTGGTTTTATTTTCAAAACAT
* *
192033 TGATTTTCCATAATCGGGGATACTCCAACTCCATTATTTTCG
65 TGATTTTTCACAATCGGGGATACTCCAACTCC-TTATTTTCG
*
192075 AGAGGATACTCCAA-CCTCGTTATTTCTGAGGGGATATTCCAACCCTAGTTTTATTTTCAAAACA
1 AG-GGATACTCCAACCCT-GTTATTTCTGAGGGGATATTCCAACCCTGGTTTTATTTTCAAAACA
* *
192139 TTGATTTTTCACAATCGAGGATACTCCAAC-CCTAATATTTCTG
64 TTGATTTTTCACAATCGGGGATACTCCAACTCCTTAT-TTTC-G
* *
192182 AGGGATACTCTAACCCTGTTATTTCTGTGGGGATACTT-CAA-CCTCGGTTTTA-TTTCTAAAAC
1 AGGGATACTCCAACCCTGTTATTTCTGAGGGGATA-TTCCAACCCT-GGTTTTATTTTC-AAAAC
*** * **
192244 ACCAATTTTTCACAACCGGGGATACTCCAACTTTGTTATTTTCG
63 ATTGATTTTTCACAATCGGGGATACTCCAAC-TCCTTATTTTCG
192288 AGGAGATACTCCAACCC
1 AGG-GATACTCCAACCC
192305 CGGTTTTATT
Statistics
Matches: 196, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
105 10 0.05
106 85 0.43
107 98 0.50
108 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (105 bp):
AGGGATACTCCAACCCTGTTATTTCTGAGGGGATATTCCAACCCTGGTTTTATTTTCAAAACATT
GATTTTTCACAATCGGGGATACTCCAACTCCTTATTTTCG
Found at i:192196 original size:27 final size:28
Alignment explanation
Indices: 192157--192224 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
192147 TCACAATCGA
192157 GGATACTCCAACCCTAATATTTCTG-AG
1 GGATACTCCAACCCTAATATTTCTGTAG
* ** *
192184 GGATACTCTAACCCTGTTATTTCTGTGG
1 GGATACTCCAACCCTAATATTTCTGTAG
*
192212 GGATACTTCAACC
1 GGATACTCCAACC
192225 TCGGTTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
GGATACTCCAACCCTAATATTTCTGTAG
Found at i:192362 original size:79 final size:80
Alignment explanation
Indices: 192213--192410 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 80
192203 TTTCTGTGGG
* * * * **
192213 GATACTTCAACCTCGGTTTTA-TTTCTAAAACACCAATTTTTCACAACCGGGGATACTCCAACTT
1 GATACTTCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCCACAACCGAGGATACTCCAACCC
** * * *
192277 TGTTATTTTC-GAGGA
65 CATTATTTCCAAAGCA
* *
192292 GATACTCCAACCCCGGTTTTATTTTCAAAGCACTAATTTTCCACAACCGAGGATACTCCAACCCC
1 GATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCACAACCGAGGATACTCCAACCCC
192357 ATTATTTCCAAAGCA
66 ATTATTTCCAAAGCA
* * *
192372 G-TACTTCAACCCCGATTTTATTTCCAAAACACTGATTTT
1 GATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTT
192411 TTGTAATCAC
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 91 0.92
80 8 0.08
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (80 bp):
GATACTTCAACCCCGGTTTTATTTTCAAAACACTAATTTTCCACAACCGAGGATACTCCAACCCC
ATTATTTCCAAAGCA
Found at i:192591 original size:80 final size:79
Alignment explanation
Indices: 192497--192647 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 79
192487 TTCCATCATC
** * * * *
192497 GGAGATACGCCAACCCCGGTTTTATTTTCAAAATACTAAATTTTTCACAATTGGGGATACTCCAA
1 GGAGATACGCCAACCCCAATTTTATTTCCAAAACA-TAAATTTTTCACAATCGGAGATACTCCAA
192562 CCCCGTTATTTTTGA
65 CCCCGTTATTTTTGA
** * ** *
192577 GGAGATACTTCAACCCCAATTTTGTTTCCAAAACATCGATTTTTCACCATCGGAGATACTCCAAC
1 GGAGATACGCCAACCCCAATTTTATTTCCAAAACATAAATTTTTCACAATCGGAGATACTCCAAC
192642 CCCGTT
66 CCCGTT
192648 TCCAAAATAT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
79 31 0.53
80 28 0.47
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGAGATACGCCAACCCCAATTTTATTTCCAAAACATAAATTTTTCACAATCGGAGATACTCCAAC
CCCGTTATTTTTGA
Found at i:195625 original size:49 final size:49
Alignment explanation
Indices: 195553--195651 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
195543 ACATGAATCG
*
195553 ACATGAACAAGACATGATAATTATTATAAAAAATATATTCATAGAAACA
1 ACATGAACAAGACATGATAATTATTACAAAAAATATATTCATAGAAACA
* * * * *
195602 ACATGAACATGGCATGATAATTATTACAAAACATATTTTCATAGAGACA
1 ACATGAACAAGACATGATAATTATTACAAAAAATATATTCATAGAAACA
195651 A
1 A
195652 TACCGTTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (49 bp):
ACATGAACAAGACATGATAATTATTACAAAAAATATATTCATAGAAACA
Found at i:196082 original size:21 final size:19
Alignment explanation
Indices: 196045--196088 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
196035 TTGTTTTTAT
*
196045 ATTTTTATTTATTCTTTTG
1 ATTTTTAATTATTCTTTTG
196064 ATTTTGTAATTATTACTTTTG
1 ATTTT-TAATTATT-CTTTTG
196085 ATTT
1 ATTT
196089 GGATTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (19 bp):
ATTTTTAATTATTCTTTTG
Found at i:200330 original size:36 final size:37
Alignment explanation
Indices: 200285--200358 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
200275 TAGCTAAGAG
*
200285 TAAATTTTCTTATAGAAATAGGGGAATAGATGAAAAT
1 TAAATTTTCTTATAGAAATAGGGGAATAGATCAAAAT
200322 TAAA-TTTCTTATAGAAATAGGGGAATAGATCAAAAT
1 TAAATTTTCTTATAGAAATAGGGGAATAGATCAAAAT
200358 T
1 T
200359 CTACCTTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (37 bp):
TAAATTTTCTTATAGAAATAGGGGAATAGATCAAAAT
Found at i:201048 original size:18 final size:18
Alignment explanation
Indices: 201025--201059 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
201015 CCATCGAGTC
* *
201025 GCTACCTTAGTGAAACTG
1 GCTACCCTAGTCAAACTG
201043 GCTACCCTAGTCAAACT
1 GCTACCCTAGTCAAACT
201060 ATTTGAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
GCTACCCTAGTCAAACTG
Found at i:207145 original size:156 final size:154
Alignment explanation
Indices: 206726--207322 Score: 652
Period size: 156 Copynumber: 3.8 Consensus size: 154
206716 ATAAGGTTAC
* * * *
206726 CGGGTCCGCTTTTATGCTAGAGGTGGGTATTTAGGATAGGTTCACCCCAGCTATAATCATTTTAA
1 CGGGTCCGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAGCTATAACCTTTTTAA
* * * * **
206791 GT-CTCTTAAGGTTACTGAGATACTTTCATGTCGAAGATATACCCAAAAAGGTATTTTTGTAATT
66 GTCCT-TTAGGGTTACTGAGATACTTTCATGTCAAAGGTATACCC--AAGGGTATTTTCATAATT
206855 TTCTAGAACCAAGT-CTAAGGTTATCAT
128 TTCTAGAACCAAGTCCTAA-GTTATCAT
* * *
206882 CGGGTCCACTTTTATGCTGAAGGTGAGTATTTA-GATA-GTTCATCCCAGCTATAACCTTTTTAA
1 CGGGTCCGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAGCTATAACCTTTTTAA
* *
206945 GTTCTTGAGGGTTACT-AGGATACTTTCATGTCAAAGGTATACCCACAGGGTATTTTCATAATTT
66 GTCCTTTAGGGTTACTGA-GATACTTTCATGTCAAAGGTATACCCA-AGGGTATTTTCATAATTT
* * *
207009 TTTGGAACCAAGTCCTAAGTTACCA-
129 TCTAGAACCAAGTCCTAAGTTATCAT
** * * ***
207034 CTGGGTTTGCTTTTATG-TCAAAGGTGGGTATTTATGATTGGTTCATCCTTTCTATAATCCTTTT
1 C-GGGTCCGCTTTTATGCT-AAAGGTGGGTATTTAGGATAGGTTCATCCCAGCTATAA-CCTTTT
* ** * *
207098 TAAGTCCTTTAGGGTTACTGGGATACTTTCATGTTGAAGGTATACCCATAGAGGCATTTTCGTAA
63 TAAGTCCTTTAGGGTTACTGAGATACTTTCATGTCAAAGGTATACCCA-AG-GGTATTTTCATAA
* *
207163 TTTTCTAGAACCAAGTCCCAAGTTGTCAT
126 TTTTCTAGAACCAAGTCCTAAGTTATCAT
* * * *
207192 CGAGTCCGATTTTATGATAAAGGAT-GGTATTTAGGATAGGTTCATCTCAGCTATAACCTTTTTA
1 CGGGTCCGCTTTTATGCTAAAGG-TGGGTATTTAGGATAGGTTCATCCCAGCTATAACCTTTTTA
* * * *
207256 AGTCTTTTAGGGTTACCGAGATACTTTCATATCAAAGGTATATACCTAAGGGTATTTTCATAATT
65 AGTCCTTTAGGGTTACTGAGATACTTTCATGTCAAAGG--TATACCCAAGGGTATTTTCATAATT
207321 TT
128 TT
207323 TTTAAGATCG
Statistics
Matches: 367, Mismatches: 58, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
152 3 0.01
153 58 0.16
154 65 0.18
155 20 0.05
156 134 0.37
157 77 0.21
158 10 0.03
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (154 bp):
CGGGTCCGCTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAGCTATAACCTTTTTAA
GTCCTTTAGGGTTACTGAGATACTTTCATGTCAAAGGTATACCCAAGGGTATTTTCATAATTTTC
TAGAACCAAGTCCTAAGTTATCAT
Found at i:211226 original size:16 final size:16
Alignment explanation
Indices: 211206--211239 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
211196 AGATAGTAAA
211206 AAAAATAGAAAAAAATG
1 AAAAA-AGAAAAAAATG
*
211223 AAAAAAGAAAAATATG
1 AAAAAAGAAAAAAATG
211239 A
1 A
211240 GGAAATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAAAAGAAAAAAATG
Found at i:211502 original size:10 final size:9
Alignment explanation
Indices: 211486--211518 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
211476 ATAGCATGAT
211486 GAAAAAAAA
1 GAAAAAAAA
211495 GAAAAAAAA
1 GAAAAAAAA
*
211504 GAAAAAAAT
1 GAAAAAAAA
211513 GAAAAA
1 GAAAAA
211519 TGGGAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:212000 original size:111 final size:112
Alignment explanation
Indices: 211791--212008 Score: 294
Period size: 111 Copynumber: 2.0 Consensus size: 112
211781 GGGAACTTGG
** * *
211791 AATAACATCAAATTTGTTTGATTTTCAATGAAATTCATACCTTATACATTTCGATCCATTCGTGC
1 AATAACATCAAATTTGCCTAATTTTCAATGAAATTCATACCTTATACATTCCGATCCATTCGTGC
* * **
211856 CTAGGAAAATGGGGCATGTATCTTATCACTTTTGAAATTTTTGACAC
66 CTAGGAAAATAGGGCATGTACCCAATCACTTTTGAAATTTTTGACAC
* ** * *
211903 AATAACATCAAATTTGCCTAATTTTCGA-GAAATTCATATTTTGTACATTCCGATCCATTTGTGC
1 AATAACATCAAATTTGCCTAATTTTCAATGAAATTCATACCTTATACATTCCGATCCATTCGTGC
* *
211967 CTAGGAAAATAGGGCATGTACCCAATTAGTTTTGAAATTTTT
66 CTAGGAAAATAGGGCATGTACCCAATCACTTTTGAAATTTTT
212009 AGGCCAACCA
Statistics
Matches: 91, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
111 67 0.74
112 24 0.26
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (112 bp):
AATAACATCAAATTTGCCTAATTTTCAATGAAATTCATACCTTATACATTCCGATCCATTCGTGC
CTAGGAAAATAGGGCATGTACCCAATCACTTTTGAAATTTTTGACAC
Done.