Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold83
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: 1211110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 9456 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:10704 original size:20 final size:20
Alignment explanation
Indices: 10657--10731 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
10647 AAAAAGACAT
*
10657 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
10676 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
10697 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
10717 AATGTATCGATACAT
1 AATGTATCGATACAT
10732 CAGGGTATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:10725 original size:40 final size:39
Alignment explanation
Indices: 10654--10731 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
10644 GGTAAAAAGA
* *
10654 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
10693 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
10732 CAGGGTATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:14068 original size:60 final size:60
Alignment explanation
Indices: 13878--14056 Score: 256
Period size: 60 Copynumber: 3.0 Consensus size: 60
13868 TTTATTGGTT
* *
13878 TTTTGCCTTACCAAATAAAG-AGGACAAAAGAAAAC-TTAAAAGGTACCAACTTTACTAGTC
1 TTTTGCCTAACCAAATAAAGTA-GAGAAAAGAAAACTTTAAAA-GTACCAACTTTACTAGTC
* *
13938 TTTTGCCTAACCAAATAAAATAGATG-AAAGAAAACTTTAAAGGTACCAACTTTACTAGTC
1 TTTTGCCTAACCAAATAAAGTAGA-GAAAAGAAAACTTTAAAAGTACCAACTTTACTAGTC
* *
13998 TTTTGCCTAACCAAATAAAGTAGAGAAAAGAAAACTTTAAAACTACCAATTTTACTAGT
1 TTTTGCCTAACCAAATAAAGTAGAGAAAAGAAAACTTTAAAAGTACCAACTTTACTAGT
14057 TTTGTTCCTA
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
59 1 0.01
60 100 0.93
61 6 0.06
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (60 bp):
TTTTGCCTAACCAAATAAAGTAGAGAAAAGAAAACTTTAAAAGTACCAACTTTACTAGTC
Found at i:16330 original size:20 final size:20
Alignment explanation
Indices: 16305--16381 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
16295 CTTTTACCTG
*
16305 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
16325 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
16345 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
16365 GTGTATTGATACATTTT
1 ATGTATCGATACATTTT
16382 GTCTTTTTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:16428 original size:91 final size:89
Alignment explanation
Indices: 16256--16429 Score: 258
Period size: 91 Copynumber: 1.9 Consensus size: 89
16246 TTTTACCTAG
* * *
16256 ATGTATCGATACATTTTTCAATGTATCAATACATTCTATCTTTTACCTGATGTATTGATACATTT
1 ATGTATCGATACATTCTTCAATGTATCAATACATTCTATCTTTTACCAGATGTATCGATACATTT
16321 TTCAATGTATCGATACATGTATGA
66 TTCAATGTATCGATACATGTATGA
* ** * *
16345 ATGTATCGATACATTCTTCAGTGTATTGATACATTTTGTCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCAATACATTCTATC-TTTTA-CCAGATGTATCGATACAT
16410 TTTTCAATGTATCGATACAT
64 TTTTCAATGTATCGATACAT
16430 CTAATTAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
89 34 0.45
90 5 0.07
91 36 0.48
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (89 bp):
ATGTATCGATACATTCTTCAATGTATCAATACATTCTATCTTTTACCAGATGTATCGATACATTT
TTCAATGTATCGATACATGTATGA
Found at i:19209 original size:22 final size:22
Alignment explanation
Indices: 19181--19224 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19171 GCATTCAAGA
19181 GGATCATATTGAAATAATATCG
1 GGATCATATTGAAATAATATCG
19203 GGATCATATTGAAATAATATCG
1 GGATCATATTGAAATAATATCG
19225 AGTTGAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
GGATCATATTGAAATAATATCG
Found at i:29401 original size:18 final size:18
Alignment explanation
Indices: 29371--29406 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
29361 AAAACATAGG
29371 AATATTAAAGAAATCTTAA
1 AATATTAAAGAAAT-TTAA
29390 AATATT-AAGAAATTTAA
1 AATATTAAAGAAATTTAA
29407 TCTTTCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (18 bp):
AATATTAAAGAAATTTAA
Found at i:30412 original size:15 final size:15
Alignment explanation
Indices: 30394--30422 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30384 ATACACAGAC
30394 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
30409 AAAAAAAATAAAAA
1 AAAAAAAATAAAAA
30423 AGCAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:30599 original size:14 final size:15
Alignment explanation
Indices: 30582--30610 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30572 ATTTTTCCTC
30582 CAAATTT-TTTTTTT
1 CAAATTTCTTTTTTT
30596 CAAATTTCTTTTTTT
1 CAAATTTCTTTTTTT
30611 TTTCGGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
CAAATTTCTTTTTTT
Found at i:30849 original size:51 final size:51
Alignment explanation
Indices: 30683--31255 Score: 922
Period size: 51 Copynumber: 11.1 Consensus size: 51
30673 CTTTTTTCCT
* *
30683 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCATGCTTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTTCTTTTTTA
*
30734 TT-TTTCCATTCCATAATG-TGACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTT-CATTCCATCATGCT-ACATTTTATTATTCATGCTTTTTCTTTTTTA
*
30785 TTATATTTCATTCCATCATGCTACATTTTATTATTAATGCTTTTTCTTTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
30838 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTCTTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATG-CTTTTTCTTTTTTA
*
30889 TTGTTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
30940 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
30991 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATG--CTTTTTCTTTTTTA
*
31044 TAATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
31095 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
31146 TTATTTCATTCCATCATGCTGCATTTTATTATTCATGCTTTTTTTTCTTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC---TTTTTCTTTTTTA
*
31199 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTGTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
31250 TTATTT
1 TTATTT
31256 TTTTGATTGA
Statistics
Matches: 490, Mismatches: 17, Indels: 30
0.91 0.03 0.06
Matches are distributed among these distances:
50 26 0.05
51 280 0.57
52 40 0.08
53 128 0.26
54 16 0.03
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.60
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:30937 original size:155 final size:155
Alignment explanation
Indices: 30683--31255 Score: 971
Period size: 155 Copynumber: 3.7 Consensus size: 155
30673 CTTTTTTCCT
* * *
30683 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCATG-CTTTTTTCTTTTTTATT-TTTCCATTC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTATTATTT-CATTC
*
30745 CATAATG-TGACATTTTATTATTCATGCTTTTTCTTTTTTATTATATTTCATTCCATCATGCTAC
65 CATCATGCT-ACATTTTATTATTCATGCTTTTTCTTTTTTA-T-TATTTCATTCCATCATGCTAC
*
30809 ATTTTATTATTAATGCTTTTTCTTTTTTA
127 ATTTTATTATTCATGCTTTTTCTTTTTTA
*
30838 TTATTTCATTCCATCATGCTACATTTTATTATTCATG-TTTTTTTCTTTTTT-TTGTTTCATTCC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTATTATTTCATTCC
30901 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
66 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
30966 TATTATTCATGCTTTTTCTTTTTTA
131 TATTATTCATGCTTTTTCTTTTTTA
*
30991 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTATAATTTCATTCC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTATTATTTCATTCC
31056 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
66 ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
31121 TATTATTCATGCTTTTTCTTTTTTA
131 TATTATTCATGCTTTTTCTTTTTTA
*
31146 TTATTTCATTCCATCATGCTGCATTTTATTATTCATGCTTTTTTTTCTTTTTT-TTATTTCATTC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATG-TTTTTTTTCTTTTTTATTATTTCATTC
*
31210 CATCATGCTACATTTTATTATTCATGCTTTTTGTTTTTTATTATTT
65 CATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTT
31256 TTTTGATTGA
Statistics
Matches: 402, Mismatches: 10, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
153 86 0.21
154 15 0.04
155 241 0.60
156 60 0.15
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.60
Consensus pattern (155 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGTTTTTTTTCTTTTTTATTATTTCATTCC
ATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTT
TATTATTCATGCTTTTTCTTTTTTA
Found at i:31044 original size:206 final size:204
Alignment explanation
Indices: 30683--31255 Score: 922
Period size: 206 Copynumber: 2.8 Consensus size: 204
30673 CTTTTTTCCT
* *
30683 TTATTT-ATTCCATCATGCTCCCTTTTATTATTCATGCTTTTTTCTTTTTTATT-TTTCCATTCC
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTTCTTTTTTATTATTT-CATTCC
*
30746 ATAATG-TGACATTTTATTATTCATGCTTTTTCTTTTTTATTATATTTCATTCCATCATGCTACA
64 ATCATGCT-ACATTTTATTATTCATGCTTTTTCTTTTTTA-T-TATTTCATTCCATCATGCTACA
*
30810 TTTTATTATTAATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATG
126 TTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATG
*
30875 TTTTTTTCTTTTTT-
191 -CTTTTTCTTTTTTA
*
30889 TTGTTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
30954 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
66 CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
* *
31019 TTATTCATGTTTTTTTTCTTTTTTATAATTTCATTCCATCATGCTACATTTTATTATTCATGCTT
131 TTATTCATG--CTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTT
31084 TTTCTTTTTTA
194 TTTCTTTTTTA
31095 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
*
31160 CATGCTGCATTTTATTATTCATGCTTTTTTTTCTTTTTT-TTATTTCATTCCATCATGCTACATT
66 CATGCTACATTTTATTATTCATGC---TTTTTCTTTTTTATTATTTCATTCCATCATGCTACATT
*
31224 TTATTATTCATGCTTTTTGTTTTTTATTATTT
128 TTATTATTCATGCTTTTTCTTTTTTATTATTT
31256 TTTTGATTGA
Statistics
Matches: 345, Mismatches: 13, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
204 35 0.10
205 13 0.04
206 215 0.62
207 33 0.10
208 37 0.11
209 12 0.03
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.60
Consensus pattern (204 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCAT
CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTA
TTATTCATGCTTTTTCTTTTTTATTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTT
TCTTTTTTA
Found at i:31268 original size:13 final size:11
Alignment explanation
Indices: 31243--31344 Score: 59
Period size: 11 Copynumber: 8.8 Consensus size: 11
31233 ATGCTTTTTG
31243 TTTTTTATTAT
1 TTTTTTATTAT
31254 TTTTTTGATTGAT
1 TTTTTT-ATT-AT
31267 TTTTTT-TTAAT
1 TTTTTTATT-AT
31278 TTTTTTATT-T
1 TTTTTTATTAT
31288 CTTGATTTTATTAT
1 -TT--TTTTATTAT
* * *
31302 TATATTGAATAT
1 T-TTTTTATTAT
*
31314 TATTATTT-TTAA
1 T-TT-TTTATTAT
31326 TTTTTT-TTAT
1 TTTTTTATTAT
31336 TTTTTTATT
1 TTTTTTATT
31345 TTATACCAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
10 13 0.18
11 22 0.31
12 17 0.24
13 18 0.25
14 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:31283 original size:27 final size:26
Alignment explanation
Indices: 31243--31296 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
31233 ATGCTTTTTG
31243 TTTTTTATTATTTT-TTTGATTGATTT
1 TTTTTTATTATTTTATTT-ATTGATTT
* *
31269 TTTTTTAATTTTTTTATTTCTTGATTT
1 TTTTTT-ATTATTTTATTTATTGATTT
31296 T
1 T
31297 ATTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.78
Consensus pattern (26 bp):
TTTTTTATTATTTTATTTATTGATTT
Found at i:31841 original size:42 final size:42
Alignment explanation
Indices: 31784--33407 Score: 1312
Period size: 42 Copynumber: 38.7 Consensus size: 42
31774 TATTCTCCCC
* * * *
31784 GGTCAAAACCAACAGGCAGACTTAGGGAAAGAAAAATCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * * * *
31827 GGTGAAA-CCGACAGGCACACTAAAGGATGAAAAGTCTTCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
31868 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTTCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* *
31910 GGTCAAAGCCGATAGGCAGACTAAGGGAAGAAAAGTCTCCAC
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * * *
31952 GATCAAAACGGACAGGCAGACTAAAGGACAGAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
* * * * ** * *
31995 GGTTAAA-CCGATAGGTAGACTGAGGGTTGAAAAGTCTCGAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
32036 GGTCAAAACCGACAGGCAGATTGAGGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
32078 GGTCAAAGCTGACAAGCAGACTAAGGGAAAAAAAGTCT-C--
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* *
32117 -GTCAAAGCCGACAGGCAGACTAAGGGTAGGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
32158 GGTCAAAGCCGATAGGCAGACTAAGGAAAGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* ** **
32200 GGTCAAAGCCGACATGCAGACTTTAAATG-AG-GTAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * * * *
32242 GGACGAAGCCGACAGGTAGACTGAAGGGTAGGAAAGTCTCAAG
1 GGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAGTCTCCAG
* * * *
32285 GGTCAAAGCCGACAGGCAGACTTTA--GATGAAGCAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGAC-TAAGGGAAGAA-AAGTCTCCAG
* * *
32327 GGTCAAAGCCGACAGTCAGAGTAA-GGAAAAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
32368 GGTCAAAACCGACAGGTAAACTAAGGGATAGAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
* ** ** *
32411 GGTCAAAGCCGATAGGCAGACTTTAAATG-AG-GTAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
*
32453 GGTCAAA-CCGACAGGCAGACTAAGGGAAGAAAAATCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
32494 GGTCAAAACCGACAAGCAGACTAAGGGAAGAAAAATCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * * *
32536 GGTCAAAGCCGACAAGCAGACTAAGGGTAGGAAAGCCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
32578 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTTTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*** **
32620 GGTCAAAGCCGACACTTAGACTTTAA---AAGAGGCAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGA-AAAGTCTCCAG
* * * * * *
32662 TGACGAAGCCGACAGGTAGACTGAAGGGTAGGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAGTCTCCAG
* ** ** * *
32705 GGTCAAAGTCGACAGGCAGACTTTAAATG-AG-GTAGTCTCTAA
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
*
32747 GGTCAAAGCCGACAGGCAGACTAAGGGAAAAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
32789 GGTCAAAGCCGATAGGTAAACTAAAGGAAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
** * * *
32831 GGTCAAAGCCGATTGGCAGACTAAGGGTAGGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * * *
32873 GGTCAAAGCCGACAGGTAGATTAAAGGAAAAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
*
32915 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* ** **
32957 GGTCAAAGCTGACAGGCAGACTTTAAATG-AG-GCAGTCTCCAAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCC-AG
* * * * * * * *
33000 GAT-GAAGTCGATAGGTAGACTGAAGGGTAGGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAGTCTCCAG
* * * * * *
33042 GGTCAAAGTCGACAGGAAGACTTTA--GATGAAGCAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGAC-TAAGGGAAGAA-AAGTCTCCAG
*
33084 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
* * *
33126 GGTCAAAACTGACAGGCAGACTAAGGGATAGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGA-AGAAAAGTCTCCAG
** ** * *
33169 GGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GTAGTCTTCAA
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * * * *
33211 GGTCAAATCCGACAGGCAGACTGAGGGAAAGGAAAGCCTCTAC
1 GGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* ** ** ** *
33254 GGTTAAA-CTAACAGGCAGACTTTAA-ATAAG-GTAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAGTCTCCAG
* * * *
33295 AGTCAAAGCCGACAGGCAGACTGAGGGAAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCTCCAG
* * * *
33338 GGTCAAAACCGATAGGCATACTAAGGGAA-AGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGAAGA-AAAGTCTCCAG
* *
33380 GGTTAAA-CCGACAGGCAGACTAAAGGAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGAA
33408 AACATAAAAT
Statistics
Matches: 1259, Mismatches: 265, Indels: 116
0.77 0.16 0.07
Matches are distributed among these distances:
38 32 0.03
39 5 0.00
40 14 0.01
41 142 0.11
42 818 0.65
43 220 0.17
44 19 0.02
45 9 0.01
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAG
Found at i:41637 original size:22 final size:19
Alignment explanation
Indices: 41589--41637 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
41579 TAATTAAGCA
41589 AATACTGATGAATGATTATG
1 AATA-TGATGAATGATTATG
*
41609 AAAATGATGAATGAATGTCATG
1 AATATGATGAATG-AT-T-ATG
41631 AATATGA
1 AATATGA
41638 ATGCCATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 5 0.21
21 1 0.04
22 9 0.38
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (19 bp):
AATATGATGAATGATTATG
Found at i:46087 original size:16 final size:15
Alignment explanation
Indices: 46061--46101 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
46051 AGATAAAAGA
46061 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
46076 ATTTTGTTATTATTTTTT
1 ATTTT-TTATTA--TTTT
46094 ATTTTTTA
1 ATTTTTTA
46102 ATTTTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 6 0.26
17 3 0.13
18 9 0.39
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:46913 original size:14 final size:14
Alignment explanation
Indices: 46896--46929 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
46886 ATATACACAA
46896 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
46910 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
46924 AAAAAA
1 AAAAAA
46930 GCAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:47217 original size:51 final size:51
Alignment explanation
Indices: 47170--47695 Score: 893
Period size: 51 Copynumber: 10.4 Consensus size: 51
47160 CTTTTTTCCT
*
47170 TTATTT-ATTCCATAATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
47220 TTATATTTCATTCCA-CATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 -T-TATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
* *
47272 TTATTTCATTCCATCATGCTACTTTTTATTATT-ATGCTTTTTTCTTTTTTT
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGC-TTTTTCTTTTTTA
47323 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
47374 TTATTTCATTCCATCATGCTACATTTTATTATTTATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
47425 TTATTTCAATCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
47476 TTTTTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTT-TCTTTTT-
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCT-TTTTTA
*
47526 TTATTTAATTCCATCATGCTACATTTTATTATTCATG-TTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
47576 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
47627 TTATTTCATTCCATCATGCTACATTTTATTATTGATGCTTTTTCTTTTTTA
1 TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
*
47678 TTATTTCAGTCCATCATG
1 TTATTTCATTCCATCATG
47696 TAGACACCTC
Statistics
Matches: 451, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
49 10 0.02
50 89 0.20
51 301 0.67
52 45 0.10
53 6 0.01
ACGTcount: A:0.20, C:0.17, G:0.04, T:0.59
Consensus pattern (51 bp):
TTATTTCATTCCATCATGCTACATTTTATTATTCATGCTTTTTCTTTTTTA
Found at i:49486 original size:70 final size:71
Alignment explanation
Indices: 49353--49513 Score: 247
Period size: 70 Copynumber: 2.3 Consensus size: 71
49343 GCAACCTTCA
* *
49353 AAAGTCCACAACTCTGTGGCATTTTTTTTCCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTT
1 AAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTT
49418 CCTTTTT
66 CC-TTTT
* * *
49425 AAAGCCCACAACTCAGTGGCACTCTTTTTCC-TTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTT
49488 CCTTTT
66 CCTTTT
49494 -AAGTCCACAACTCTGTGGCA
1 AAAGTCCACAACTCTGTGGCA
49514 TCCTTTTAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
68 18 0.22
69 4 0.05
70 29 0.35
71 4 0.05
72 27 0.33
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (71 bp):
AAAGTCCACAACTCTGTGGCACTCTTTTTCCTTTTTAAAGCCCACAACTCAGTGGCACTCTTTTT
CCTTTT
Found at i:49518 original size:27 final size:27
Alignment explanation
Indices: 49487--49574 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
49477 GCACTCTTTT
* *
49487 TCCTTTTAAGTCCACAACTCTGTGGCA
1 TCCTTTTAAGCCCACAACTCGGTGGCA
*
49514 TCCTTTTAAGCCCACAAGTCGGTGGCA
1 TCCTTTTAAGCCCACAACTCGGTGGCA
* * * *
49541 CCCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -TCCTTT-TAAGCCCACAACTCGGTGGCA
*
49570 ACCTT
1 TCCTT
49575 CAAAAGCATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.46
28 9 0.17
29 19 0.37
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (27 bp):
TCCTTTTAAGCCCACAACTCGGTGGCA
Found at i:49520 original size:34 final size:36
Alignment explanation
Indices: 49353--49513 Score: 231
Period size: 36 Copynumber: 4.6 Consensus size: 36
49343 GCAACCTTCA
* * * *
49353 AAAGTCCACAACTCTGTGGCATTTTTTTTCCTTTTT
1 AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
49389 AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
1 AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
49425 AAAGCCCACAACTCAGTGGCACTCTTTTTCC-TTTT
1 AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
*
49460 -AAGCCCACAACTCCGTGGCACTCTTTTTCC-TTTT
1 AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
* *
49494 -AAGTCCACAACTCTGTGGCA
1 AAAGCCCACAACTCAGTGGCA
49514 TCCTTTTAAG
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
34 51 0.43
35 4 0.03
36 63 0.53
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (36 bp):
AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTTTT
Found at i:49717 original size:50 final size:49
Alignment explanation
Indices: 49642--49774 Score: 176
Period size: 50 Copynumber: 2.7 Consensus size: 49
49632 TCTTCTAAGT
* ***
49642 CCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAATAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAA-AA
*
49692 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAAA
* ** *
49741 CCAATGTTACTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
49775 TAAGCCCAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (49 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAAA
Found at i:49793 original size:39 final size:39
Alignment explanation
Indices: 49750--49901 Score: 106
Period size: 39 Copynumber: 3.7 Consensus size: 39
49740 ACCAATGTTA
*
49750 CTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
1 CTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATCG
* * ** * * *
49789 CTGGCTTTGAATTGACGTATTGGCACCTTATCTTTAAGTCCAATGTCA
1 CTGGCCTTGAA-T--C--A---GCACATTGGC-ATAAGTCCAATATCG
* *
49837 CTGGCCTTGAATCAGCACATCGGCACAAGTCCAATATCG
1 CTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATCG
* * *
49876 TTGGCCGTGAATCAGCATATTGGCAT
1 CTGGCCTTGAATCAGCACATTGGCAT
49902 CTTTATCACT
Statistics
Matches: 82, Mismatches: 22, Indels: 18
0.67 0.18 0.15
Matches are distributed among these distances:
39 42 0.51
40 7 0.09
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
47 8 0.10
48 21 0.26
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
CTGGCCTTGAATCAGCACATTGGCATAAGTCCAATATCG
Found at i:49849 original size:87 final size:88
Alignment explanation
Indices: 49692--49900 Score: 287
Period size: 87 Copynumber: 2.4 Consensus size: 88
49682 TCTTTAATAA
*
49692 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAATGTTACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAATGTCACTGGCCT
* *
49757 TGAATCAGCACATTGGCATAAGC
66 TGAATCAGCACATCGGCACAAGC
* * * ** *
49780 CCAATATCGCTGGCTTTGAAT-TGACGTATTGGCACC-TTATCTTTAAGTCCAATGTCACTGGCC
1 CCAATATCGCTGGCCTTGAATCAG-CATATTGGCACCAGCATCTTTAAGACCAATGTCACTGGCC
*
49843 TTGAATCAGCACATCGGCACAAGT
65 TTGAATCAGCACATCGGCACAAGC
* *
49867 CCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
49901 TCTTTATCAC
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
87 72 0.69
88 32 0.31
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCAGCATCTTTAAGACCAATGTCACTGGCCT
TGAATCAGCACATCGGCACAAGC
Found at i:50734 original size:19 final size:19
Alignment explanation
Indices: 50706--50787 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
50696 AAACTGTAAC
*
50706 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
50725 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
50744 TTTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
50757 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
50776 TGTATCGATACA
1 TGTATCGATACA
50788 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 40 0.74
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:50766 original size:32 final size:32
Alignment explanation
Indices: 50725--50795 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
50715 ACATAAGTGT
50725 TGTATCGATACATAAGTGTTT-TATCGATACAA
1 TGTATCGATACATAAGT-TTTGTATCGATACAA
50757 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
50789 TGTATCG
1 TGTATCG
50796 CTATGAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 3 0.08
32 35 0.92
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:50896 original size:52 final size:52
Alignment explanation
Indices: 50836--50987 Score: 272
Period size: 52 Copynumber: 2.9 Consensus size: 52
50826 ATACATTACT
50836 CAAATGTATCGATACATTCATCTTTGTATCGATACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACATTCATCTTTGTATCGATACATGCAGGCAAATTTGCC
50888 CAAATGTATCGATACATTCATCTTTGTATCGATACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACATTCATCTTTGTATCGATACATGCAGGCAAATTTGCC
*
50940 CAAATGTATCGATACATT-ATTCTTTGTATC-ATACATGTAGGCAAATTT
1 CAAATGTATCGATACATTCA-TCTTTGTATCGATACATGCAGGCAAATTT
50988 TCATATTTCG
Statistics
Matches: 98, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 18 0.18
52 80 0.82
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (52 bp):
CAAATGTATCGATACATTCATCTTTGTATCGATACATGCAGGCAAATTTGCC
Found at i:53108 original size:24 final size:26
Alignment explanation
Indices: 53081--53131 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
53071 ATCAAAAATT
53081 TATTCAT-C-GGGGACACTCCAACCC
1 TATTCATCCAGGGGACACTCCAACCC
*
53105 TATTCCTCCGAGGGGACACTCCAACCC
1 TATTCATCC-AGGGGACACTCCAACCC
53132 CGTTTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
27 16 0.70
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.20
Consensus pattern (26 bp):
TATTCATCCAGGGGACACTCCAACCC
Found at i:57896 original size:28 final size:28
Alignment explanation
Indices: 57846--58547 Score: 661
Period size: 28 Copynumber: 24.6 Consensus size: 28
57836 AAGTCAGTGG
* * *
57846 CCACAAGTCACTAGCATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
57874 CCACAAGTCAGTGGTATCCTTTCAAATC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
57902 CCACAAGTCAGTGGCA-CCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
57930 TCACAAGTCAATGGCA-CCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* * *
57958 CCATAAGTTAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
57986 CCACAAGAT-AGTGGCATACATTTTTAAAGC
1 CCACAAG-TCAGTGGCAT-C-CTTTCAAAGC
* * *
58016 TCACAAGTCAGTGGTACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
58044 CCACAAGTCGGT-GCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
58071 TCACAAGTCAGTGGCACCCCTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
58099 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
58127 CCATAAGTCAGTGGCA-CCTTTTTAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* * *
58155 CCATAAATCAATGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
58183 CCACAAGTCAGTGGCATCCCTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
58211 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
58239 CCACAAGTGAGAGGCACCCTTTTTAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
58268 CCACAAGAT-GGTAGCATACCCTTTCAAAGC
1 CCACAAG-TCAGTGGCAT--CCTTTCAAAGC
* * * *
58298 CCATAAGTCGGTGGCACCCTTTTAAA-C
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
58325 CCTACAAGAT-AGTGGCCTCCTTTCAAAGC
1 CC-ACAAG-TCAGTGGCATCCTTTCAAAGC
*
58354 CCACAAGAT-AGTGGCATCATTTCAAAGC
1 CCACAAG-TCAGTGGCATCCTTTCAAAGC
* * *
58382 CCACAACTTAGTGGCA-CCATTTCAATGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
*
58410 CCACAAGTCAGTGGTATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* ** *
58438 CTACAAGTTGGTGGCACCCTTTCAAAGCC
1 CCACAAGTCAGTGGCATCCTTTCAAAG-C
*
58467 CACACAAGTCAGTGGCAACTCTTTTCAAAGC
1 C-CACAAGTCAGTGGC-A-TCCTTTCAAAGC
* *
58498 CTACACAAGTTAATGGCA-CCTTTTTCTAAAGCC
1 C--CACAAGTCAGTGGCATCC--TTTC-AAAG-C
58531 CACACAAGTCAGTGGCA
1 C-CACAAGTCAGTGGCA
58548 ACCCTTTTCA
Statistics
Matches: 560, Mismatches: 85, Indels: 54
0.80 0.12 0.08
Matches are distributed among these distances:
27 32 0.06
28 387 0.69
29 37 0.07
30 52 0.09
31 10 0.02
32 40 0.07
33 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:58691 original size:49 final size:50
Alignment explanation
Indices: 58623--58747 Score: 184
Period size: 49 Copynumber: 2.6 Consensus size: 50
58613 TGGCATCTTT
* **
58623 ATTAGCCCATTGTCG-CTGGCCTTGAATCAACACATTGGTCCTTTTTTCC
1 ATTAGCCCAATGTCGTCTGGCCTTGAATCAACACATTGGTCCACTTTTCC
* *
58672 ATTGGCCCAATGT-TTCTGGCCTTGAATCAACACATTGGTCCACTTTTCC
1 ATTAGCCCAATGTCGTCTGGCCTTGAATCAACACATTGGTCCACTTTTCC
58721 ATTAGCCCAATGTCGT-TGGCCTTGAAT
1 ATTAGCCCAATGTCGTCTGGCCTTGAAT
58748 TGGCACATTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 66 0.99
50 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (50 bp):
ATTAGCCCAATGTCGTCTGGCCTTGAATCAACACATTGGTCCACTTTTCC
Found at i:59835 original size:20 final size:20
Alignment explanation
Indices: 59807--59884 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
59797 CTTTTACCCA
59807 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
59827 AATGCATCGATACATGTATG
1 AATGTATCGATACATTTTTC
*
59847 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
* *
59867 AATGTATCAAGACATTTT
1 AATGTATCGATACATTTT
59885 GTCTTTTTAC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:59918 original size:91 final size:90
Alignment explanation
Indices: 59760--59930 Score: 243
Period size: 91 Copynumber: 1.9 Consensus size: 90
59750 TTACCTAGAG
* * * * *
59760 GTATCGATATATTTTTTAATGTATTAATACATTCTATCTTTTACCCAAATGTATCGATACATTTT
1 GTATCGATACATTCTTCAATGTATCAAGACATTCTATCTTTTACCCAAATGTATCGATACATTTT
59825 TCAATGCATCGATACATGTATGAAT
66 TCAATGCATCGATACATGTATGAAT
* * * *
59850 GTATCGATACATTCTTCAATGTATCAAGACATTTTGTCTTTTTACCTAGATGTATCGATACATTT
1 GTATCGATACATTCTTCAATGTATCAAGACATTCTATC-TTTTACCCAAATGTATCGATACATTT
*
59915 TTCAATGTATCGATAC
65 TTCAATGCATCGATAC
59931 CTCCAGTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
90 31 0.44
91 39 0.56
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (90 bp):
GTATCGATACATTCTTCAATGTATCAAGACATTCTATCTTTTACCCAAATGTATCGATACATTTT
TCAATGCATCGATACATGTATGAAT
Found at i:60852 original size:33 final size:33
Alignment explanation
Indices: 60810--60873 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
60800 GTTACAAGCT
60810 ATGTATCGATACATT-T-CTTCATGTATCGATATA
1 ATGTATCGATACATTGTAC--CATGTATCGATATA
60843 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
60874 CAAATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATATA
Found at i:60935 original size:21 final size:21
Alignment explanation
Indices: 60909--60960 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
60899 CAGTTTCATA
**
60909 TATCGATACAATTTGTCCATG
1 TATCGATACAATTTGAACATG
60930 TATCGATAC-A-TTGAACATG
1 TATCGATACAATTTGAACATG
*
60949 TATTGATACAAT
1 TATCGATACAAT
60961 GTATTGATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 15 0.58
20 2 0.08
21 9 0.35
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
TATCGATACAATTTGAACATG
Found at i:60964 original size:13 final size:13
Alignment explanation
Indices: 60946--60972 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60936 TACATTGAAC
60946 ATGTATTGATACA
1 ATGTATTGATACA
60959 ATGTATTGATACA
1 ATGTATTGATACA
60972 A
1 A
60973 GGCAGCATGT
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:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:68056 original size:190 final size:187
Alignment explanation
Indices: 67722--68123 Score: 495
Period size: 190 Copynumber: 2.1 Consensus size: 187
67712 AAACTATATC
* * * * * * *
67722 CCCACTGTTCTAAGGGGATACTCTAATCCTATTCTGATAAATATTTAAATTTTTCTTTGTATAAT
1 CCCACTATTCCAAGGGGATACTCTAACCCCATTCTGAAAAAAATTTAAATTTTTCTTTATATAAT
* ** *
67787 TTTATCCTTGGAAAACTCCATCCCTACTACTCCAGGGGGTGCTCTAACCCTATTCTTCATAAAAA
66 TTTATCCTTGGAAAACTCCATCCCCACTACTCCAGGGAATACTCTAACCCTATTCTTCAT-AAAA
67852 AATAAAAATTAAATTTTCTCGTTACTCTTAAATATTTATATCTTCAAAAAAAACTCCAT
130 AATAAAAATTAAATTTTCTCGTTACTCTTAAATATTTATATCTT-AAAAAAAACTCCAT
* * *
67911 CTCCACTATTCCAAGGGGATACTTTAACCCCGTTGTGAAAAAAATTTAAA-TTTTCTTTCATATA
1 C-CCACTATTCCAAGGGGATACTCTAACCCCATTCTGAAAAAAATTTAAATTTTTCTTT-ATATA
* * *
67975 ATTTTATCTTTAGGGAAACTCCATCCCCACTACTCCGAGGGAATACTCTATTCCC-ATTCTTCAT
64 ATTTTATCCTT-GGAAAACTCCATCCCCACTACTCC-AGGGAATACTCTA-ACCCTATTCTTCAT
* * ***
68039 -AAAAATAAAAATTAAATTTTCTCTTTGCTCTTAAATATTTATATCTTTGGAAAAACTCCAT
126 AAAAAATAAAAATTAAATTTTCTCGTTACTCTTAAATATTTATATCTTAAAAAAAACTCCAT
**
68100 CCCTACTATTCCAAATGGATACTC
1 CCC-ACTATTCCAAGGGGATACTC
68124 CAGCCCTACT
Statistics
Matches: 182, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
188 2 0.01
189 38 0.21
190 98 0.54
191 22 0.12
192 19 0.10
193 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (187 bp):
CCCACTATTCCAAGGGGATACTCTAACCCCATTCTGAAAAAAATTTAAATTTTTCTTTATATAAT
TTTATCCTTGGAAAACTCCATCCCCACTACTCCAGGGAATACTCTAACCCTATTCTTCATAAAAA
ATAAAAATTAAATTTTCTCGTTACTCTTAAATATTTATATCTTAAAAAAAACTCCAT
Found at i:68095 original size:101 final size:95
Alignment explanation
Indices: 67785--68112 Score: 253
Period size: 101 Copynumber: 3.4 Consensus size: 95
67775 TCTTTGTATA
* * * *
67785 ATTTTATCCTTGGAAAACTCCATCCCTACTACTCCAGGGGGTGCTCTAACCCTATTCTTCATAAA
1 ATTTTATCTTTGGAAAACTCCATCCCCACTACTCCAGGGGATACTCTAACCC-ATTCTTCAT--A
67850 AAAATAAAAATTAAATTTTCTCGTTACTCTTAAAT
63 AAAATAAAAATTAAATTTTCTC-TT-CTCTTAAAT
*** * * * *
67885 ATTTATATCTTCAAAAAAAACTCCATCTCCACTATTCCAAGGGGATACTTTAACCC---CGTT-G
1 ATTT-TATCTT--TGGAAAACTCCATCCCCACTACTCC-AGGGGATACTCTAACCCATTC-TTCA
* * * *
67946 T-GAAA-AAAATTTAAA-TTT-TCTT-TCATATA-
61 TAAAAATAAAAATTAAATTTTCTCTTCTCTTAAAT
* * *
67975 ATTTTATCTTTAGGGAAACTCCATCCCCACTACTCCGAGGGAATACTCTATTCCCATTCTTCATA
1 ATTTTATCTTT-GGAAAACTCCATCCCCACTACTCC-AGGGGATACTCTA-ACCCATTCTTCATA
68040 AAAATAAAAATTAAATTTTCTCTTTGCTCTTAAAT
63 AAAATAAAAATTAAATTTTCTC-TT-CTCTTAAAT
* *
68075 ATTTATATCTTTGGAAAAACTCCATCCCTACTATTCCA
1 ATTT-TATCTTTGG-AAAACTCCATCCCCACTACTCCA
68113 AATGGATACT
Statistics
Matches: 174, Mismatches: 33, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
88 30 0.17
89 9 0.05
90 4 0.02
91 7 0.04
92 2 0.01
93 5 0.03
94 11 0.06
95 6 0.03
96 11 0.06
97 5 0.03
99 5 0.03
100 13 0.07
101 33 0.19
103 19 0.11
104 14 0.08
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.36
Consensus pattern (95 bp):
ATTTTATCTTTGGAAAACTCCATCCCCACTACTCCAGGGGATACTCTAACCCATTCTTCATAAAA
ATAAAAATTAAATTTTCTCTTCTCTTAAAT
Found at i:72607 original size:16 final size:16
Alignment explanation
Indices: 72571--72601 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72561 GGTTCGGATC
*
72571 GGATTATTTTATGTTA
1 GGATTATTTTAGGTTA
72587 GGATTATTTTAGGTT
1 GGATTATTTTAGGTT
72602 TAGATTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (16 bp):
GGATTATTTTAGGTTA
Found at i:72691 original size:32 final size:32
Alignment explanation
Indices: 72655--72715 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
72645 AGGTTTGATA
* * *
72655 TTTTTTGAGTTCAAGCTTATTCGATTTTGGTC
1 TTTTTCGAGTTCAAGCCTATTCGAGTTTGGTC
* *
72687 TTTTTCGGGTTCGAGCCTATTCGAGTTTG
1 TTTTTCGAGTTCAAGCCTATTCGAGTTTG
72716 AGCCCTTTCG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (32 bp):
TTTTTCGAGTTCAAGCCTATTCGAGTTTGGTC
Found at i:84260 original size:19 final size:17
Alignment explanation
Indices: 84229--84263 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
84219 TTAGAGATGC
84229 AATTATTTTTTTATTTT
1 AATTATTTTTTTATTTT
84246 AATTATATTTATTTATTT
1 AATTAT-TTT-TTTATTT
84264 ATTTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTATTTTTTTATTTT
Found at i:85157 original size:13 final size:13
Alignment explanation
Indices: 85139--85163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85129 TCTTCATGTA
85139 TCGATACATTGTT
1 TCGATACATTGTT
85152 TCGATACATTGT
1 TCGATACATTGT
85164 ACCATGTATC
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (13 bp):
TCGATACATTGTT
Found at i:85235 original size:21 final size:20
Alignment explanation
Indices: 85209--85264 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
85199 CTGCTAGTTT
**
85209 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
85230 CATGTATCGGTACAA-TGAA
1 CATGTATCGATACAATTGAA
85249 CATGTATCGATACAAT
1 CATGTATCGATACAAT
85265 GCATTGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:85925 original size:16 final size:15
Alignment explanation
Indices: 85895--85924 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85885 AAAAATTCTC
85895 CCCCTTTTTGTAAAA
1 CCCCTTTTTGTAAAA
85910 CCCCTTTTTGTAAAA
1 CCCCTTTTTGTAAAA
85925 ATTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
CCCCTTTTTGTAAAA
Found at i:87778 original size:13 final size:13
Alignment explanation
Indices: 87760--87787 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
87750 AATAGTACCT
87760 AATGTATCGATAC
1 AATGTATCGATAC
87773 AATGTATCGATAC
1 AATGTATCGATAC
87786 AA
1 AA
87788 GGAATGTTAT
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:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:93960 original size:13 final size:13
Alignment explanation
Indices: 93942--93969 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93932 ACAAGCTATT
93942 TATCGATACATTG
1 TATCGATACATTG
93955 TATCGATACATTG
1 TATCGATACATTG
93968 TA
1 TA
93970 CCATGTATCG
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:94059 original size:19 final size:19
Alignment explanation
Indices: 94014--94070 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
94004 CTACCAGTTT
**
94014 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
94035 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
94054 CATGTATCGATACAATG
1 CATGTATCGATACAATG
94071 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:94073 original size:13 final size:13
Alignment explanation
Indices: 94055--94081 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94045 TACAATGAAC
94055 ATGTATCGATACA
1 ATGTATCGATACA
94068 ATGTATCGATACA
1 ATGTATCGATACA
94081 A
1 A
94082 GGCAGCATGT
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:96284 original size:19 final size:19
Alignment explanation
Indices: 96262--96299 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96252 TCCAGTTAGA
96262 AAAGTATATTATAATTTAT
1 AAAGTATATTATAATTTAT
96281 AAAGTATATTATAATTTAT
1 AAAGTATATTATAATTTAT
96300 TTCAAGGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AAAGTATATTATAATTTAT
Found at i:97289 original size:113 final size:111
Alignment explanation
Indices: 97130--97331 Score: 305
Period size: 113 Copynumber: 1.8 Consensus size: 111
97120 AAAAAAATCA
** * *
97130 AAATATTATTTTATTACTATAAACTTAATCTTAAATTCAAAAATATGCTCTCATATCTTAAAAAA
1 AAATATTATTTTATTAAAATAAACTTAATCTTAAATTAAAAAATATGCTCTCATATCTCAAAAAA
97195 TCATTTTGATTGTCACATAAATTTAGATGCTATGAAATTTATTATT
66 TCATTTTGATTGTCACATAAATTTAGATGCTATGAAATTTATTATT
* * * *
97241 AAATATTATTTTATTAAAATAAATATTTAATCTTAAATTAAAAAATATGCTCTTATATCTCAGAT
1 AAATATTATTTTATTAAAAT-AA-ACTTAATCTTAAATTAAAAAATATGCTCTCATATCTCAAAA
*
97306 AATCATTTTGGTTGTCACATAAATTT
64 AATCATTTTGATTGTCACATAAATTT
97332 TTCATTTAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 18 0.22
112 2 0.03
113 60 0.75
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (111 bp):
AAATATTATTTTATTAAAATAAACTTAATCTTAAATTAAAAAATATGCTCTCATATCTCAAAAAA
TCATTTTGATTGTCACATAAATTTAGATGCTATGAAATTTATTATT
Found at i:100756 original size:60 final size:60
Alignment explanation
Indices: 100691--100866 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 60
100681 AAAAAAAATG
* * * **
100691 CCAACTATATTGGTTTTTTGCCAAACCAAATAAAGAGGACAAAAGAAAACTTAAAAGGTA
1 CCAACTTTACTGGTTTTTTGCCTAACCAAATAAAGAGGACAAAAGAAAACTTAAAAGAAA
* * * * * *
100751 CCAACTTTACTAGTCTTCTACCTAACTAAATAAA-ATGGACGAAAGAAAACTTAAAAGAAA
1 CCAACTTTACTGGTTTTTTGCCTAACCAAATAAAGA-GGACAAAAGAAAACTTAAAAGAAA
* * *
100811 CCAACTTTACTGGTTTTTTG-CTTACCAAATAAAGCA-AACAAAAAAAAACTTGAAAA
1 CCAACTTTACTGGTTTTTTGCCTAACCAAATAAAG-AGGACAAAAGAAAACTT-AAAA
100867 CTATCAATTT
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
59 24 0.26
60 67 0.73
61 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.24
Consensus pattern (60 bp):
CCAACTTTACTGGTTTTTTGCCTAACCAAATAAAGAGGACAAAAGAAAACTTAAAAGAAA
Found at i:101145 original size:46 final size:46
Alignment explanation
Indices: 101095--101206 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 46
101085 TCAATCAATT
* * *
101095 TTCTACTTAATCAAATGAAGCTAACAAAAGAAAAACTTCATTGGTC
1 TTCTACCTAATCAAATGAAACTAACAAAAGAAAAACATCATTGGTC
* * * * *
101141 TTCTACCTAA-CAAAATGAAACTTAGAAAATAAAAACATCGTTGTTC
1 TTCTACCTAATC-AAATGAAACTAACAAAAGAAAAACATCATTGGTC
*
101187 TTCTACCTAATCAGATGAAA
1 TTCTACCTAATCAAATGAAA
101207 TAGACTTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.02
46 53 0.96
47 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.29
Consensus pattern (46 bp):
TTCTACCTAATCAAATGAAACTAACAAAAGAAAAACATCATTGGTC
Found at i:105380 original size:20 final size:20
Alignment explanation
Indices: 105355--105426 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
105345 AAAAAGACAG
*
105355 AATGTATCAATACATTGAAA
1 AATGTATCGATACATTGAAA
* **
105375 AATGTATCGATACATTCATG
1 AATGTATCGATACATTGAAA
*
105395 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
*
105415 AATGCATCGATA
1 AATGTATCGATA
105427 AATCTGGGTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:115553 original size:16 final size:17
Alignment explanation
Indices: 115529--115565 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
115519 TCATTTTATG
*
115529 TTAGAATTATTTTGGGT
1 TTAGAATTATTTCGGGT
115546 TTAG-ATTATTTCGGGT
1 TTAGAATTATTTCGGGT
115562 TTAG
1 TTAG
115566 GCCTATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.51
Consensus pattern (17 bp):
TTAGAATTATTTCGGGT
Found at i:115681 original size:15 final size:16
Alignment explanation
Indices: 115631--115683 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
115621 CGATTTTGAT
115631 CTTTTTTGAGTTTGAGC
1 CTTTTTTG-GTTTGAGC
* *
115648 CTATTCT-GTTTGAGC
1 CTTTTTTGGTTTGAGC
115663 CTTTTTTGGTTTGAG-
1 CTTTTTTGGTTTGAGC
115678 CTTTTT
1 CTTTTT
115684 CAGGTTTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 19 0.61
16 7 0.23
17 5 0.16
ACGTcount: A:0.09, C:0.13, G:0.21, T:0.57
Consensus pattern (16 bp):
CTTTTTTGGTTTGAGC
Found at i:115868 original size:16 final size:16
Alignment explanation
Indices: 115829--115883 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
115819 TAAGTAAAAT
115829 TTTATT-ATAATATGTTA
1 TTTATTAAT-ATAT-TTA
115846 TTT-TTAATATATTTA
1 TTTATTAATATATTTA
* * *
115861 TTTATTAAAATCTATA
1 TTTATTAATATATTTA
115877 TTTATTA
1 TTTATTA
115884 TAAAATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 6 0.18
16 22 0.67
17 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTATTAATATATTTA
Found at i:115878 original size:20 final size:19
Alignment explanation
Indices: 115853--115914 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
115843 TTATTTTTAA
115853 TATATTTATTTATTAAAAT
1 TATATTTATTTATTAAAAT
115872 CTATATTTA-TTA-TAAAAT
1 -TATATTTATTTATTAAAAT
115890 TA-ATTT-TTTATATAAAAT
1 TATATTTATTTAT-TAAAAT
*
115908 TAAATTT
1 TATATTT
115915 TAAATATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.18
17 2 0.05
18 14 0.37
19 7 0.18
20 8 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTATTTATTAAAAT
Found at i:115895 original size:16 final size:18
Alignment explanation
Indices: 115853--115901 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 18
115843 TTATTTTTAA
115853 TATATTTATTTATTAAAATC
1 TATATTTA-TTA-TAAAATC
115873 TATATTTATTATAAAAT-
1 TATATTTATTATAAAATC
*
115890 TA-ATTTTTTATA
1 TATATTTATTATA
115902 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 9 0.32
17 2 0.07
18 6 0.21
19 3 0.11
20 8 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATTTATTATAAAATC
Found at i:115903 original size:18 final size:20
Alignment explanation
Indices: 115877--115915 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
115867 AAAATCTATA
115877 TTTATTATAAAATT-AATTT
1 TTTATTATAAAATTAAATTT
115896 TTTA-TATAAAATTAAATTT
1 TTTATTATAAAATTAAATTT
115915 T
1 T
115916 AAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATTATAAAATTAAATTT
Found at i:115921 original size:19 final size:18
Alignment explanation
Indices: 115882--115921 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
115872 CTATATTTAT
**
115882 TATAAAATTAATTTTTTA
1 TATAAAATTAATTTTAAA
115900 TATAAAATTAAATTTTAAA
1 TATAAAATT-AATTTTAAA
115919 TAT
1 TAT
115922 TTATTATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAAATTAATTTTAAA
Found at i:122159 original size:33 final size:33
Alignment explanation
Indices: 122119--122187 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
122109 CCGTTACAAG
* *
122119 CAATGTATCGATACAATT-CATCATGTATCGATA
1 CAATGTATCAATAC-ATTGCACCATGTATCGATA
* *
122152 CAATGTATTAATACATTGTACCATGTATCGATA
1 CAATGTATCAATACATTGCACCATGTATCGATA
122185 CAA
1 CAA
122188 ACAGTGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCAATACATTGCACCATGTATCGATA
Found at i:122261 original size:19 final size:19
Alignment explanation
Indices: 122216--122271 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
122206 CTGCCAATTT
**
122216 CATGTATCGATACAATTGCC
1 CATGTATCGATACAA-TGAA
122236 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
122255 TATGTATCGATACAATG
1 CATGTATCGATACAATG
122272 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:122274 original size:13 final size:13
Alignment explanation
Indices: 122256--122282 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
122246 TACAATGAAT
122256 ATGTATCGATACA
1 ATGTATCGATACA
122269 ATGTATCGATACA
1 ATGTATCGATACA
122282 A
1 A
122283 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:122278 original size:32 final size:33
Alignment explanation
Indices: 122237--122301 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
122227 ACAATTGCCC
*
122237 ATGTATCGATACAATGAAT-ATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
*
122269 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
122302 TCTGGGTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:122836 original size:23 final size:23
Alignment explanation
Indices: 122803--122861 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
122793 CAAGTTTTTG
122803 TTTTTCTCCCCTTTAATTAAAGAA
1 TTTTTC-CCCCTTTAATTAAAGAA
* *
122827 TTTTTCCCCC-TTAATTAAGGCA
1 TTTTTCCCCCTTTAATTAAAGAA
*
122849 TTTCTCCCCCTTT
1 TTTTTCCCCCTTT
122862 GTCAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.61
23 6 0.19
24 6 0.19
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTTCCCCCTTTAATTAAAGAA
Found at i:124616 original size:20 final size:19
Alignment explanation
Indices: 124575--124614 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
124565 TTTTGTTGAT
124575 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
124595 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
124615 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:131120 original size:39 final size:39
Alignment explanation
Indices: 131066--131147 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
131056 ACAATTTATC
*
131066 GATACAAAGCATAATGTATCGATA-ATCTGGGTGAGTATT
1 GATACAAAGCATAATGTA-CGATACATCTAGGTGAGTATT
131105 GATACAAAGCATAATGTACGATACATCTAGGTGAGTATT
1 GATACAAAGCATAATGTACGATACATCTAGGTGAGTATT
131144 GATA
1 GATA
131148 TATTCAAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 5 0.12
39 36 0.88
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (39 bp):
GATACAAAGCATAATGTACGATACATCTAGGTGAGTATT
Found at i:135201 original size:30 final size:28
Alignment explanation
Indices: 135166--135319 Score: 93
Period size: 29 Copynumber: 5.4 Consensus size: 28
135156 AACTTGTGTG
*
135166 GGCTTTGAAAACAGTTGCCACCGGCTCGTC
1 GGCTTTGAAAA-AGTTGCCACCGGCT-GTA
* * *
135196 GGCTTTG-AAAAGATGCCACTGACTTGTA
1 GGCTTTGAAAAAGTTGCCACCGGC-TGTA
*
135224 GGCTTTGAAAAGAGTTGCCACC-GCGTGTG
1 GGCTTTGAAAA-AGTTGCCACCGGC-TGTA
* * *
135253 GGCTTTG-AAAAGATGCCACTGACT-TA
1 GGCTTTGAAAAAGTTGCCACCGGCTGTA
* * *
135279 TGGGCTTTGAAAAGAG-TGCCACTGACTTGTG
1 --GGCTTTGAAAA-AGTTGCCACCGGC-TGTA
135310 GGCTTTGAAA
1 GGCTTTGAAA
135320 GGGTGCCATT
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.01
27 9 0.09
28 30 0.30
29 41 0.41
30 18 0.18
31 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (28 bp):
GGCTTTGAAAAAGTTGCCACCGGCTGTA
Found at i:135227 original size:28 final size:28
Alignment explanation
Indices: 135143--135422 Score: 269
Period size: 28 Copynumber: 9.7 Consensus size: 28
135133 CTTTTTTAAA
* *
135143 AAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
* * * * *
135173 AAAACAGTTGCCACCGGCTCGTCGGCTTTG
1 -AAA-AGATGCCACTGACTTGTGGGCTTTG
*
135203 AAAAGATGCCACTGACTTGTAGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
135231 AAAAGAGTTGCCACCG-CGTGTGGGCTTTG
1 AAAAGA--TGCCACTGACTTGTGGGCTTTG
*
135260 AAAAGATGCCACTGACTTATGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
135288 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTG
* * *
135317 AAAGGGTGCCATTGACTTGCGTGGGCTTTG
1 AAAAGATGCCACTGACTT--GTGGGCTTTG
* *
135347 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
135375 -AAAGATTGCCACTAAC-TGATGGGCTTTG
1 AAAAGA-TGCCACTGACTTG-TGGGCTTTG
* *
135403 AAAGGGTGCCACTGACTTGT
1 AAAAGATGCCACTGACTTGT
135423 TGCCACTAAC
Statistics
Matches: 210, Mismatches: 28, Indels: 25
0.80 0.11 0.10
Matches are distributed among these distances:
27 12 0.06
28 92 0.44
29 50 0.24
30 43 0.20
31 4 0.02
32 9 0.04
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (28 bp):
AAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:135242 original size:58 final size:58
Alignment explanation
Indices: 135143--135422 Score: 288
Period size: 57 Copynumber: 4.9 Consensus size: 58
135133 CTTTTTTAAA
* * * * * *
135143 AAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAACAGTTGCCACCGGCTCGTCGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
* *
135203 AAAAGATGCCACTGACTTGTAGGCTTTGAAAAGAGTTGCCACCG-CGTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
* *
135260 AAAAGATGCCACTGACTTATGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
* * * * *
135317 AAAGGGTGCCATTGACTTGCGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTT--GTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
* * *
135375 -AAAGATTGCCACTAAC-TGATGGGCTTTG-AAAG-GGTGCCACTGACTTGT
1 AAAAGA-TGCCACTGACTTG-TGGGCTTTGAAAAGAGTTGCCACCGACTTGT
135423 TGCCACTAAC
Statistics
Matches: 195, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
55 1 0.01
56 36 0.18
57 75 0.38
58 59 0.30
59 10 0.05
60 14 0.07
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (58 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGCTTTG
Found at i:135314 original size:86 final size:85
Alignment explanation
Indices: 135147--138353 Score: 2430
Period size: 86 Copynumber: 37.4 Consensus size: 85
135137 TTTAAAAAAA
* * * * * *
135147 GGTGCCACTAACTTGTGTGGGCTTTGAAAACAGTTGCCACCGGCTCGTCGGCTTTGAAAAGA-TG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGAGTG
*
135211 CCACTGACTTGTAGGCTTTGAAAAG
62 CCACTGACTTGTGGGCTTTG-AAAG
* * * *
135236 AGTTGCCACCG-CGTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCA
1 -GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
135300 CTGACTTGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
* * * *
135321 GGTGCCATTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGATTGCC
1 GGTGCCACTGACTT--GTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
*
135385 ACTAAC-TGATGGGCTTTGAAAG
64 ACTGACTTG-TGGGCTTTGAAAG
* * ** **** * ** * **
135407 GGTGCCACTGACTTGTTGCCACT-AACTTTTG-----GGCTT-T--G---AAAAGAGATGCCACC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGA-G-TGCC
* ** ** *
135460 GACT--CGTG-GGCTTTGAAAGG
64 -ACTGACTTGTGGGCTTTGAAAG
* * ** ** *
135480 ATG-CCACAGACT---TGTG-GGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTG-AAAGGG
1 -GGTGC-C--ACTGACT-TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGAG
*
135538 TGCCACTAACTTGCGTGGGCTTTGAAAG
60 TGCCACTGACTT--GTGGGCTTTGAAAG
* * * *
135566 GGTGCCACTAACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGGGGGCTTTGAAATG-GTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* * *
135629 CTGACTGGTGAGCTTTGGAAG
65 CTGACTTGTGGGCTTTGAAAG
* * * * * * *
135650 GGTGCTACTGA-TTCATGGGCTTT-AAAAGGATGTCACTAACTTATGAGCTTCGAAAAGAGTTGC
1 GGTGCCACTGACTT-GTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGC
* *
135713 CACCGACTCGTGGGCTTTGAAAG
63 CACTGACTTGTGGGCTTTGAAAG
* * * ** * * * *
135736 GATACCACTAACTTGTAGGG-TTTGAATGGATGCGAGTAACTTGTGGGCTTTGAAAAGAGTTACC
1 GGTGCCACTGACTTGT-GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCC
*
135800 ACTGACTTGTGGGCCTTGAAAG
64 ACTGACTTGTGGGCTTTGAAAG
* * * * * * *
135822 GATGGCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTTGGCTTTGAAAGGA-TGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA--TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
* *
135886 ACTGATTTGTGGGCTTTAAAAAG
64 ACTGACTTGTGGGCTTT-GAAAG
* * * ** * * * *
135909 AGTGCCACAGACTTGTAGGCTTTGAAAAG-TCGTAATTCACTTTTTGTGGACTTTGAAATG-GTG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGAT-GCCACTGAC---TTGTGGGCTTTGAAAAGAGTG
135972 CCACTGACTTGTGGGCTTTGAAAG
62 CCACTGACTTGTGGGCTTTGAAAG
* * * * *
135996 AGTGCCACTGACTTGTGAGCTTT-AAAAGGGTGCCACTAAC-TGCTGGGCTTTG-AAAGGGTGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTG-TGGGCTTTGAAAAGAGTGCC
*
136058 ACTGATTTGTGGGCTTTGAAAG
64 ACTGACTTGTGGGCTTTGAAAG
* ** * * * * * *
136080 GATGTTACTGACTTATGGGCTTTGAAAAGAGATGCCACCGACTCGTGGGCTTTGAGAGGA-TGCT
1 GGTGCCACTGACTTGTGGGCTTTG-AAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
* *
136144 ACCGACTTATGGGCTTTGAAAAG
64 ACTGACTTGTGGGCTTTG-AAAG
** * * * *
136167 AATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCATGGGCTTTG-AGAGGGTGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCC
*
136231 ACTAACTTGTGGGCTTTGAAAG
64 ACTGACTTGTGGGCTTTGAAAG
* * * * * * * *
136253 AGTGCCACTGATTTGTGGGCTTTGAAATGGTGCTACTGACTCGTGGGTTTTGAAAGGA-TGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
136317 TGACTTATGAGCTTTGAAAAG
66 TGACTTGTGGGCTTTG-AAAG
* * * *
136338 AGTTGCCA-TCGACTCGTGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGGGCTTTGAAAGGA-T
1 -GGTGCCACT-GACTTGTGGGCTTTGAAAAGA--TGCCACT-GACTTGTGGGCTTTGAAAAGAGT
136400 GCCACTGACTTGTGGGCTTTGAAAG
61 GCCACTGACTTGTGGGCTTTGAAAG
* * * ** * * *
136425 GATGCCACTGACTTATGGGCTTTGAAAAGAGTTACCACTGACTCATGGGCTATGAAAGGA-TGTC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA--TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
*
136489 ACTGACTTGTGGGCTTTAAAAAG
64 ACTGACTTGTGGGCTTT-GAAAG
* * * * * *
136512 AGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTTTCGTGAGCTTTG-AAAGGGTGC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAC--TT-GTGGGCTTTGAAAAGAGTGC
* *
136576 CATTGACTCGTGGGCTTTGAAAG
63 CACTGACTTGTGGGCTTTGAAAG
* * * ** *
136599 GATGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCATGGGCTTTGAAAGGA-TGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA--TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
* *
136663 ACTAACTTGCGGGCTTTGAAAG
64 ACTGACTTGTGGGCTTTGAAAG
** * * * *
136685 AATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGAGTCGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGT-GCCA
* *
136750 CCGACTCGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
* *
136771 GATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTAGGCTTTGAAAAG-GTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* *
136835 TTGACTTTTCGTGGGCTTTGAAAA
65 CTGAC--TT-GTGGGCTTTGAAAG
* * * *
136859 GGTGCCACTGACTTTTGGGCTTTG-AAAGAATGCCACTGACTTATGGGCTTTG-AAAGGGTGCAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAG-ATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
*
136922 CTGACTGGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
* * *
136943 AGTGCCACTGACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCA
* * * *
137008 CCGACTAGTGGGTTTTGAAAA
65 CTGACTTGTGGGCTTTGAAAG
* * ** *
137029 GATGCCACTTACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCATG-GGGCTTTGAAAA-AATG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA--TGCCACTGACT--TGTGGGCTTTGAAAAGAGTG
* **
137092 CCACTAACTTGTTTG-TTGTGAAAAG
62 CCACTGACTTGTGGGCTT-TG-AAAG
* * * * * * *
137117 AGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACATATGGG-TTTTAAAAG-GATGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCA
* *
137180 TTAACTTGTGGGCTTTGATAAG
65 CTGACTTGTGGGCTTTGA-AAG
* * * * *
137202 AGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC-CAGCTTGTGGGCTTTG-AAAG-GTTGGC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA-CTTGTGGGCTTTGAAAAGAG-TGCC
*
137264 ATTGACTTGTGGGCTTTGAAAG
64 ACTGACTTGTGGGCTTTGAAAG
* * *
137286 GGTACCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGAGCTTT-AAAAGGGTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
* * *
137349 CTAACTGGTGGGCTTTAAAAG
65 CTGACTTGTGGGCTTTGAAAG
* * * * * ** * *
137370 GGCGCCATTGACTCGTAGGCTTTGAAAGGATGTTACTAACTTATGGGCTTTGAAAAGAGATGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCA
** * *
137435 CCAACTCGTGGGCTTTGAAAA
65 CTGACTTGTGGGCTTTGAAAG
* * * * * *
137456 GATGCCACCGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTATGGACTTTG-AAAGGGTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
*
137520 CTGACTTGCGTGGGCTTTGAGAG
65 CTGACTT--GTGGGCTTTGAAAG
* * *
137543 GGTGCCACTAACTTGTGGGCTTCG-AAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GTGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
*
137605 CTGAC-TGATGAGCTTTGAAAG
65 CTGACTTG-TGGGCTTTGAAAG
* * ** * * *
137626 GGTGCTACTAACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGA-TTCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
137690 TGATTTATGGGCTTTGAAAAG
66 TGACTTGTGGGCTTTG-AAAG
* * * * * * *
137711 AGTTACCACCGACTCGTGGGTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTACCA
1 -GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
137776 CTGACTTTTTGTGGGCTTTGAAAG
65 CTGAC---TTGTGGGCTTTGAAAG
* * * *
137800 GGTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTGAAAAGAGTTGCCT
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCA
* *
137865 CCGACTCGTGGGCTTTGAAAG
65 CTGACTTGTGGGCTTTGAAAG
* * * * * *
137886 GATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
137950 TGACTTATGGGCTTTGAAAAG
66 TGACTTGTGGGCTTTG-AAAG
* * ** ** * * *
137971 AGTTCC-CATCGACTCATGAACTTTCAAAGGATGCCACTGAGTTGTGGGCTTTGAAAAGAGTGCC
1 GGTGCCAC-T-GACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
*
138035 ACTGACTTGTGGGCTTTAAAAG
64 ACTGACTTGTGGGCTTTGAAAG
* * * *
138057 GGTGCCACTAACTTTTTGTGAGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTG-AAAGAGTGC
1 GGTGCCACTGAC---TTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
*
138121 CACTGACTTGTTGGCTTTGAAAG
63 CACTGACTTGTGGGCTTTGAAAG
* * * * * * * *
138144 GGTGCAACTGACTGGTAGGCTTTGAAAAGGTGCCACTGACTCGTGGGCTTTGAAAGGA-TACTAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
138208 TGACTTATGGGCTTTGAAAAG
66 TGACTTGTGGGCTTTG-AAAG
* * ** *
138229 AGTTGCCACCGACTCATGGGTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCC
1 -GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCC
* ** *
138294 ACCGACTCATGGGCTTTGAAAA
64 ACTGACTTGTGGGCTTTGAAAG
* * * ** *
138316 GATGCCACTAACTTGTTGATTTTGAAAAGGTGCCACTG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTG
138354 GGGGTTGTAG
Statistics
Matches: 2487, Mismatches: 485, Indels: 294
0.76 0.15 0.09
Matches are distributed among these distances:
73 15 0.01
74 9 0.00
75 5 0.00
76 6 0.00
77 1 0.00
78 4 0.00
79 4 0.00
80 1 0.00
81 3 0.00
82 4 0.00
83 73 0.03
84 436 0.18
85 236 0.09
86 901 0.36
87 435 0.17
88 301 0.12
89 33 0.01
90 20 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (85 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
TGACTTGTGGGCTTTGAAAG
Found at i:135478 original size:72 final size:70
Alignment explanation
Indices: 135353--135494 Score: 187
Period size: 72 Copynumber: 2.0 Consensus size: 70
135343 TTTGAAAGGG
* * * * *
135353 TGCCACTGACTTGTGGGCTTTGAAAGATTGCCACTAACTGATGGGCTTTGAAAGGGTGCCACTGA
1 TGCCACTAACTTGTGGGCTTTGAAAGAATGCCACCAACTGATGGGCTTTGAAAGGATGCCACAGA
135418 CTTGT
66 CTTGT
* *
135423 TGCCACTAACTTTTGGGCTTTGAAAAGAGATGCCACCGACTCG-TGGGCTTTGAAAGGATGCCAC
1 TGCCACTAACTTGTGGGCTTTG-AAAGA-ATGCCACCAACT-GATGGGCTTTGAAAGGATGCCAC
135487 AGACTTGT
63 AGACTTGT
135495 GGGCTTTGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
70 20 0.32
71 5 0.08
72 36 0.58
73 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (70 bp):
TGCCACTAACTTGTGGGCTTTGAAAGAATGCCACCAACTGATGGGCTTTGAAAGGATGCCACAGA
CTTGT
Found at i:135491 original size:28 final size:28
Alignment explanation
Indices: 135423--138353 Score: 2588
Period size: 28 Copynumber: 102.3 Consensus size: 28
135413 ACTGACTTGT
* *
135423 TGCCACTAACTTTTGGGCTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* *
135453 TGCCACCGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
135481 TGCCACAGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
135509 GTGCCACTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
135538 TGCCACTAACTTGCGTGGGCTTTGAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGA
* * *
135568 TGCCACTAACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
135596 TGCCACTGACTTGGGGGCTTTGAAATGG-
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * *
135624 TGCCACTGACTGGTGAGCTTTGGAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
135652 TGCTACTGA-TTCATGGGCTTTAAAAGGA
1 TGCCACTGACTT-GTGGGCTTTGAAAGGA
* * * * * *
135680 TGTCACTAACTTATGAGCTTCGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* *
135710 TGCCACCGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
135738 TACCACTAACTTGTAGGG-TTTGAATGGA
1 TGCCACTGACTTGT-GGGCTTTGAAAGGA
* * * *
135766 TGCGAGTAACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* *
135796 TACCACTGACTTGTGGGCCTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
135824 TGGCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * * *
135854 TACCACCGACTCGTTGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
135882 TGCCACTGATTTGTGGGCTTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
135910 GTGCCACAGACTTGTAGGCTTTGAAAAGTCGTAA
1 -TGCCACTGACTTGTGGGCTTTG-AAAG--G--A
* ** *
135944 T-TCACT-TTTTGTGGACTTTGAAATGG-
1 TGCCACTGACTTGTGGGCTTTGAAA-GGA
135970 TGCCACTGACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
135997 GTGCCACTGACTTGTGAGCTTTAAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136026 TGCCACTAAC-TGCTGGGCTTTGAAAGGG
1 TGCCACTGACTTG-TGGGCTTTGAAAGGA
*
136054 TGCCACTGATTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** *
136082 TGTTACTGACTTATGGGCTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * *
136112 TGCCACCGACTCGTGGGCTTTGAGAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
136140 TGCTACCGACTTATGGGCTTTGAAAAGAA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
*
136169 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136197 TGCCACTGACTTGCATGGGCTTTGAGAGGG
1 TGCCACTGACTTG--TGGGCTTTGAAAGGA
*
136227 TGCCACTAACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
136254 GTGCCACTGATTTGTGGGCTTTGAAATGG-
1 -TGCCACTGACTTGTGGGCTTTGAAA-GGA
* * *
136283 TGCTACTGACTCGTGGGTTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
136311 TGCCACTGACTTATGAGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* *
136341 TGCCA-TCGACTCGTGGGCTTTGAAAAGAGT
1 TGCCACT-GACTTGTGGGCTTTG-AAAG-GA
*
136371 TGCCA-TCGACTCGTGGGCTTTGAAAGGA
1 TGCCACT-GACTTGTGGGCTTTGAAAGGA
136399 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136427 TGCCACTGACTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* ** *
136457 TACCACTGACTCATGGGCTATGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
136485 TGTCACTGACTTGTGGGCTTTAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136513 GTGCCATTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136542 TGCCACTGACTTTTCGTGAGCTTTGAAAGGG
1 TGCCACTGAC--TT-GTGGGCTTTGAAAGGA
* *
136573 TGCCATTGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136601 TGCCATTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* **
136631 TGCCACCGACTCATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
136659 TGCCACTAACTTGCGGGCTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
136687 TGCCACTGACTTATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
136715 TGCCACTAACTTATGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136743 GTCGCCACCGACTCGTGGGCTTTGAAAGGA
1 -T-GCCACTGACTTGTGGGCTTTGAAAGGA
*
136773 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
136801 GTGCCACTGACTTGTAGGCTTTGAAAAGG-
1 -TGCCACTGACTTGTGGGCTTTG-AAAGGA
*
136830 TGCCATTGACTTTTCGTGGGCTTTGAAAAGG-
1 TGCCACTGAC--TT-GTGGGCTTTG-AAAGGA
* *
136861 TGCCACTGACTTTTGGGCTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136889 TGCCACTGACTTATGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
136917 TGCAACTGACTGGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
136944 GTGCCACTGACTTGTGGACTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
*
136973 TGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * * *
137003 TGCCACCGACTAGTGGGTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137031 TGCCACTTACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
** **
137061 TGCCACCAACTCATG-GGGCTTTGAAAAAA
1 TGCCACTGACT--TGTGGGCTTTGAAAGGA
* ** *
137090 TGCCACTAACTTGTTTG-TTGTGAAAAGA
1 TGCCACTGACTTGTGGGCTT-TGAAAGGA
*
137118 GTGCCACTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
137147 TGTCACTGACATATGGGTTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137175 TGCCATTAACTTGTGGGCTTTGATAA-GA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
*
137203 GTGCCACTAACTTGTGGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137232 TGCCAC-CAGCTTGTGGGCTTTGAAAGGT
1 TGCCACTGA-CTTGTGGGCTTTGAAAGGA
* * *
137260 TGGCATTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137288 TACCACTGACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
137315 GTGCCACTGACTTGTGAGCTTTAAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
137344 TGCCACTAACTGGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
137372 CGCCATTGACTCGTAGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** * *
137400 TGTTACTAACTTATGGGCTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
** * *
137430 TGCCACCAACTCGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* **
137458 TGCCACCGACTTGTGGGCTTTGAAAATA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
137486 GTGCCACTGACTTATGGACTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137515 TGCCACTGACTTGCGTGGGCTTTGAGAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGA
* *
137545 TGCCACTAACTTGTGGGCTTCGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137572 GTGCCACTAACTTGTGGGCTTTGAAAGG-
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137600 TGCCACTGAC-TGATGAGCTTTGAAAGGG
1 TGCCACTGACTTG-TGGGCTTTGAAAGGA
* * **
137628 TGCTACTAACTCATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137656 TGCCACTGACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
137684 TTCCACTGATTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * * *
137714 TACCACCGACTCGTGGGTTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137742 TGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137770 GTACCACTGACTTTTTGTGGGCTTTGAAAGGG
1 -TGCCACTGAC---TTGTGGGCTTTGAAAGGA
*
137802 TGCCACTGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
137830 TGCCACTGACTTGTGAGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * *
137860 TGCCTCCGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137888 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
137916 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
137944 TGCAACTGACTTATGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* ** ** *
137972 GTTCC-CATCGACTCATGAACTTTCAAAGGA
1 -TGCCAC-T-GACTTGTGGGCTTTGAAAGGA
* *
138002 TGCCACTGAGTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
138030 GTGCCACTGACTTGTGGGCTTTAAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
138059 TGCCACTAACTTTTTGTGAGCTTTGAAAAGG-
1 TGCCACTGAC---TTGTGGGCTTTG-AAAGGA
*
138090 TGCCACTAACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
138117 GTGCCACTGACTTGTTGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
138146 TGCAACTGACTGGTAGGCTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
*
138174 TGCCACTGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
138202 TACTACTGACTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* ** * *
138232 TGCCACCGACTCATGGGTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
138260 TGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GA
* ** *
138290 TGCCACCGACTCATGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * **
138318 TGCCACTAACTTGTTGATTTTGAAAAGG-
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
138346 TGCCACTG
1 TGCCACTG
138354 GGGGTTGTAG
Statistics
Matches: 2368, Mismatches: 419, Indels: 230
0.78 0.14 0.08
Matches are distributed among these distances:
26 5 0.00
27 57 0.02
28 1381 0.58
29 364 0.15
30 436 0.18
31 96 0.04
32 27 0.01
33 1 0.00
34 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:135498 original size:100 final size:99
Alignment explanation
Indices: 135338--135523 Score: 263
Period size: 100 Copynumber: 1.9 Consensus size: 99
135328 TTGACTTGCG
* * *
135338 TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGATTGCCACTAACTGATGGGCTTTG
1 TGGGCTTTGAAAGGATGCCACCGACTCGTGGGCTTTGAAAGATTGCCACTAACTGATGGGCTTTG
*
135403 -AAAGGGTGCCACTGACTTGTTGCCACTAACTTT
66 AAAAGAGTGCCACTGACTTGTTGCCACTAACTTT
135436 TGGGCTTTGAAAAGAGATGCCACCGACTCGTGGGCTTTGAAAGGA-TGCCAC-AGACTTG-TGGG
1 TGGGCTTTG-AAAG-GATGCCACCGACTCGTGGGCTTTGAAA-GATTGCCACTA-AC-TGATGGG
135498 CTTTGAAAAGAGTGCCACTGACTTGT
61 CTTTGAAAAGAGTGCCACTGACTTGT
135524 GGGCTTTGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
98 9 0.12
99 5 0.06
100 41 0.53
101 23 0.29
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (99 bp):
TGGGCTTTGAAAGGATGCCACCGACTCGTGGGCTTTGAAAGATTGCCACTAACTGATGGGCTTTG
AAAAGAGTGCCACTGACTTGTTGCCACTAACTTT
Found at i:135584 original size:58 final size:56
Alignment explanation
Indices: 135423--138353 Score: 2588
Period size: 58 Copynumber: 51.1 Consensus size: 56
135413 ACTGACTTGT
* * * * *
135423 TGCCACTAACTTTTGGGCTTTGAAAAGAGATGCCACCGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* *
135481 TGCCACAGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
135538 TGCCACTAACTTGCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
135596 TGCCACTGACTTGGGGGCTTTGAAATGG-TGCCACTGACTGGTGAGCTTTGGAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * * * * *
135652 TGCTACTGA-TTCATGGGCTTTAAAAGGATGTCACTAACTTATGAGCTTCGAAAAGAGT
1 TGCCACTGACTT-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* * * * * *
135710 TGCCACCGACTCGTGGGCTTTGAAAGGATACCACTAACTTGTAGGG-TTTGAATGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGT-GGGCTTTGAAAGGG
* * * * * * *
135766 TGCGAGTAACTTGTGGGCTTTGAAAAGAGTTACCACTGACTTGTGGGCCTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * * *
135824 TGGCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTTGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
135882 TGCCACTGATTTGTGGGCTTTAAAAAGAGTGCCACAGACTTGTAGGCTTTGAAAAGTCG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG-AAAG-GG
** ** * *
135941 TAATTCACT-TTTTGTGGACTTTGAAATGG-TGCCACTGACTTGTGGGCTTTGAAAGAG
1 T--GCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
135998 TGCCACTGACTTGTGAGCTTTAAAAGGGTGCCACTAAC-TGCTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG-TGGGCTTTGAAAGGG
* ** * *
136054 TGCCACTGATTTGTGGGCTTTGAAAGGATGTTACTGACTTATGGGCTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* * * * * * **
136112 TGCCACCGACTCGTGGGCTTTGAGAGGATGCTACCGACTTATGGGCTTTGAAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* *
136169 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCATGGGCTTTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG--TGGGCTTTGAAAGGG
* * *
136227 TGCCACTAACTTGTGGGCTTTGAAA-GAGTGCCACTGATTTGTGGGCTTTGAAATGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
136283 TGCTACTGACTCGTGGGTTTTGAAAGGATGCCACTGACTTATGAGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* * * *
136341 TGCCA-TCGACTCGTGGGCTTTGAAAAGAGTTGCCA-TCGACTCGTGGGCTTTGAAAGGA
1 TGCCACT-GACTTGTGGGCTTTG-AAAG-GATGCCACT-GACTTGTGGGCTTTGAAAGGG
* *
136399 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* ** * * * *
136457 TACCACTGACTCATGGGCTATGAAAGGATGTCACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAGGG
* * *
136514 TGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTTTCGTGAGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGAC--TT-GTGGGCTTTGAAAGGG
* * * *
136573 TGCCATTGACTCGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* ** * * **
136631 TGCCACCGACTCATGGGCTTTGAAAGGATGCCACTAACTTGCGGGCTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
136687 TGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
136744 TCGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 T-GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* * *
136802 TGCCACTGACTTGTAGGCTTTGAAAAGG-TGCCATTGACTTTTCGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGAC--TT-GTGGGCTTTGAAAGGG
* * *
136861 TGCCACTGACTTTTGGGCTTTGAAAGAATGCCACTGACTTATGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
136917 TGCAACTGACTGGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
136973 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTAGTGGGTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* * ** ***
137031 TGCCACTTACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCATG-GGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAGGG
* ** *
137090 TGCCACTAACTTGTTTG-TTGTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTT-TGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * * * *
137147 TGTCACTGACATATGGGTTTTAAAAGGATGCCATTAACTTGTGGGCTTTGATAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGG
* * *
137204 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC-CAGCTTGTGGGCTTTGAAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA-CTTGTGGGCTTTGAAAGGG
* * * * *
137260 TGGCATTGACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
137316 TGCCACTGACTTGTGAGCTTTAAAAGGGTGCCACTAACTGGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * ** * * *
137372 CGCCATTGACTCGTAGGCTTTGAAAGGATGTTACTAACTTATGGGCTTTGAAAAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
** * * * **
137430 TGCCACCAACTCGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAATAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* * * *
137487 TGCCACTGACTTATGGACTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTT--GTGGGCTTTGAAAGGG
* * *
137545 TGCCACTAACTTGTGGGCTTCGAAA-GAGTGCCACTAACTTGTGGGCTTTGAAA-GG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * ** *
137600 TGCCACTGAC-TGATGAGCTTTGAAAGGGTGCTACTAACTCATGGGCTTTGAAAGGA
1 TGCCACTGACTTG-TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * *
137656 TGCCACTGACTTGTGGGCTTTGAAATGATTCCACTGATTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* * * * *
137714 TACCACCGACTCGTGGGTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* * * *
137771 TACCACTGACTTTTTGTGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGAC---TTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
137830 TGCCACTGACTTGTGAGCTTTGAAAAGAGTTGCCTCCGACTCGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGG
* * *
137888 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * ** ** * *
137944 TGCAACTGACTTATGGGCTTTGAAAAGAGTTCC-CATCGACTCATGAACTTTCAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCAC-T-GACTTGTGGGCTTTGAAAGGG
* * *
138002 TGCCACTGAGTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGG
* * * *
138059 TGCCACTAACTTTTTGTGAGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAGAG
1 TGCCACTGAC---TTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * * *
138118 TGCCACTGACTTGTTGGCTTTGAAAGGGTGCAACTGACTGGTAGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
* * * * *
138174 TGCCACTGACTCGTGGGCTTTGAAAGGATACTACTGACTTATGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* ** * * *
138232 TGCCACCGACTCATGGGTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GG
* ** * * * ** *
138290 TGCCACCGACTCATGGGCTTTGAAAAGATGCCACTAACTTGTTGATTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
138346 TGCCACTG
1 TGCCACTG
138354 GGGGTTGTAG
Statistics
Matches: 2365, Mismatches: 416, Indels: 186
0.80 0.14 0.06
Matches are distributed among these distances:
54 2 0.00
55 61 0.03
56 728 0.31
57 379 0.16
58 867 0.37
59 221 0.09
60 98 0.04
61 9 0.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (56 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGG
Found at i:139262 original size:14 final size:14
Alignment explanation
Indices: 139243--139269 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
139233 TTTTCTTGGT
139243 TTTTTGTTTTTTTG
1 TTTTTGTTTTTTTG
139257 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
139270 TTTGGGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:148923 original size:13 final size:13
Alignment explanation
Indices: 148885--148914 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
148875 TTCAACGATT
148885 TGTATCGATACAA
1 TGTATCGATACAA
148898 TGTATCGATACAA
1 TGTATCGATACAA
148911 TGTA
1 TGTA
148915 CAGTTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148980 original size:13 final size:13
Alignment explanation
Indices: 148962--148986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148952 ATTACTCAAA
148962 TGTATCGATACAT
1 TGTATCGATACAT
148975 TGTATCGATACA
1 TGTATCGATACA
148987 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:149034 original size:52 final size:52
Alignment explanation
Indices: 149000--149121 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
148990 ATCTTTGTTG
* *
149000 CGATACATGCAGGCAAAGTTGCCCAGATGTATCGATGCACTATGAAATGTAT
1 CGATACATGCAGGAAAAGTTGCCCAGATGTATCGATACACTATGAAATGTAT
*
149052 CGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATGAAATGTAT
1 CGATACATGCAGGAAAAGTTGCCCAGATGTATCGATACACTATGAAATGTAT
149104 CGATACATGCAGGCAAAA
1 CGATACATGCAGG-AAAA
149122 TTTCATATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
52 62 0.94
53 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (52 bp):
CGATACATGCAGGAAAAGTTGCCCAGATGTATCGATACACTATGAAATGTAT
Found at i:150015 original size:20 final size:20
Alignment explanation
Indices: 149978--150016 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
149968 CCAACCTTGA
*
149978 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
149998 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
150017 CCAGCACCTC
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:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:163012 original size:9 final size:8
Alignment explanation
Indices: 162990--163121 Score: 81
Period size: 8 Copynumber: 15.9 Consensus size: 8
162980 CCTCCACAAA
162990 AAAAAAAC
1 AAAAAAAC
162998 AAAGAAAA-
1 AAA-AAAAC
* *
163006 AACAGAAC
1 AAAAAAAC
*
163014 AAAAAAAT
1 AAAAAAAC
*
163022 AACAAAAC
1 AAAAAAAC
163030 AAAACAAAAC
1 -AAA-AAAAC
*
163040 AAACAAAATA
1 AAA-AAAA-C
163050 AAAAAAAC
1 AAAAAAAC
*
163058 AAAGAGAAAG
1 AAA-A-AAAC
163068 AAAAAAA-
1 AAAAAAAC
* *
163075 ACAAAGA-
1 AAAAAAAC
* *
163082 AAAAACAG
1 AAAAAAAC
163090 AAAAAAAC
1 AAAAAAAC
163098 AAAAAAAC
1 AAAAAAAC
163106 AAAAAAAC
1 AAAAAAAC
163114 AACAAAAA
1 AA-AAAAA
163122 GGGTCCGGAT
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
7 13 0.13
8 46 0.47
9 25 0.26
10 14 0.14
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:163044 original size:19 final size:18
Alignment explanation
Indices: 162993--163120 Score: 99
Period size: 16 Copynumber: 7.2 Consensus size: 18
162983 CCACAAAAAA
*
162993 AAAAC-AAAGAAA-AAAC
1 AAAACAAAAAAAACAAAC
* *
163009 AGAAC-AAAAAAA-TAAC
1 AAAACAAAAAAAACAAAC
163025 AAAACAAAACAAAACAAAC
1 AAAACAAAA-AAAACAAAC
* *
163044 AAAATAAAAAAAACAAAG
1 AAAACAAAAAAAACAAAC
* *
163062 AGAAAGAAAAAAAACAAAGAA
1 A-AAACAAAAAAAAC-AA-AC
163083 AAAACAGAAAAAAACAAA-
1 AAAACA-AAAAAAACAAAC
163101 AAAAC-AAAAAAAC-AAC
1 AAAACAAAAAAAACAAAC
163117 AAAA
1 AAAA
163121 AGGGTCCGGA
Statistics
Matches: 94, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
15 2 0.02
16 29 0.31
17 3 0.03
18 18 0.19
19 24 0.26
20 8 0.09
21 10 0.11
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (18 bp):
AAAACAAAAAAAACAAAC
Found at i:163055 original size:37 final size:35
Alignment explanation
Indices: 162989--163120 Score: 105
Period size: 37 Copynumber: 3.7 Consensus size: 35
162979 TCCTCCACAA
*
162989 AAAAAAAACAAAGA-AAA-AACAGAACAAAAAAATAAC
1 AAAAAAAACAAA-ACAAACAA-AAAACAAAAAAA-AAC
*
163025 AAAACAAAACAAAACAAACAAAATAA-AAAAAACAAAG
1 AAAA-AAAACAAAACAAACAAAA-AACAAAAAA-AAAC
* *
163062 AGAAAGAAAA-AAAACAAAGAAAAAACAGAAAAAAAC
1 A-AAA-AAAACAAAACAAACAAAAAACAAAAAAAAAC
163098 -AAAAAAACAAAA-AAACAACAAAA
1 AAAAAAAACAAAACAAACAA-AAAA
163121 AGGGTCCGGA
Statistics
Matches: 80, Mismatches: 7, Indels: 20
0.75 0.07 0.19
Matches are distributed among these distances:
33 9 0.11
34 11 0.14
36 10 0.12
37 38 0.47
38 12 0.15
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.02
Consensus pattern (35 bp):
AAAAAAAACAAAACAAACAAAAAACAAAAAAAAAC
Found at i:163121 original size:1 final size:1
Alignment explanation
Indices: 162987--163112 Score: 54
Period size: 1 Copynumber: 126.0 Consensus size: 1
162977 CGTCCTCCAC
* * * * * * * * * * * *
162987 AAAAAAAAAACAAAGAAAAAACAGAACAAAAAAATAACAAAACAAAACAAAACAAACAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
163052 AAAAACAAAGAGAAAGAAAAAAAACAAAGAAAAAACAGAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
163113 CAACAAAAAG
Statistics
Matches: 81, Mismatches: 44, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.83, C:0.10, G:0.06, T:0.02
Consensus pattern (1 bp):
A
Found at i:163121 original size:19 final size:18
Alignment explanation
Indices: 162987--163121 Score: 94
Period size: 18 Copynumber: 7.2 Consensus size: 18
162977 CGTCCTCCAC
* *
162987 AAAAA-AAAAACAAAGAA
1 AAAAACAAAAAAAAACAA
* *
163004 AAAACAGAACAAAAAAATAA
1 AAAA-ACAA-AAAAAAACAA
* *
163024 CAAAACAAAACAAAACAA
1 AAAAACAAAAAAAAACAA
*
163042 ACAAAA-TAAAAAAAACAA
1 A-AAAACAAAAAAAAACAA
* *
163060 AGAGAAAGAAAAAAAACAAAGA
1 A-A-AAACAAAAAAAA-ACA-A
*
163082 AAAAACAGAAAAAAACAA
1 AAAAACAAAAAAAAACAA
163100 AAAAACAAAAAAACAACAA
1 AAAAACAAAAAAA-AACAA
163119 AAA
1 AAA
163122 GGGTCCGGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.04
18 34 0.37
19 22 0.24
20 28 0.30
21 3 0.03
22 2 0.02
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.01
Consensus pattern (18 bp):
AAAAACAAAAAAAAACAA
Found at i:164732 original size:34 final size:33
Alignment explanation
Indices: 164629--164784 Score: 161
Period size: 34 Copynumber: 4.6 Consensus size: 33
164619 TAAAGTCCAT
* * *
164629 AACTCCATGGCACCTTTTTTTCTTTTTAAAGCCTAC
1 AACTCCGTGGCACC--TTTTTCCTTTT-AAGCCCAC
* * *
164665 AACTCTGTGGCA-CTCTTTTCCTTCTAAGTCCAC
1 AACTCCGTGGCACCT-TTTTCCTTTTAAGCCCAC
164698 AACTCCGTGGCACCTTTCTTCCTTTTAAGCCCAC
1 AACTCCGTGGCACCTTT-TTCCTTTTAAGCCCAC
*
164732 AACTCCGTGGCACTCTTTTTCCTTTTAAGTCCAC
1 AACTCCGTGGCAC-CTTTTTCCTTTTAAGCCCAC
* * *
164766 AATTCTGTGGCACCCTTTT
1 AACTCCGTGGCACCTTTTT
164785 AAGCCCACAA
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
33 25 0.24
34 63 0.61
35 5 0.05
36 10 0.10
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.38
Consensus pattern (33 bp):
AACTCCGTGGCACCTTTTTCCTTTTAAGCCCAC
Found at i:164765 original size:68 final size:69
Alignment explanation
Indices: 164614--164784 Score: 220
Period size: 68 Copynumber: 2.5 Consensus size: 69
164604 CCAGTGGCAA
* * * * * *
164614 CCTTCTAAAGTCCATAACTCCATGGCACCTTTTTTTCTTTTTAAAGCCTACAACTCTGTGGCACT
1 CCTTCT-AAGTCCACAACTCCGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACT
164679 CTTTT
65 CTTTT
164684 CCTTCTAAGTCCACAACTCCGTGGCACC-TTTCTTCCTTTT-AAGCCCACAACTCCGTGGCACTC
1 CCTTCTAAGTCCACAACTCCGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTC
164747 TTTTT
66 -TTTT
* * *
164752 CCTTTTAAGTCCACAATTCTGTGGCACCCTTTT
1 CCTTCTAAGTCCACAACTCCGTGGCA-CCTTTT
164785 AAGCCCACAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
67 21 0.24
68 37 0.42
69 22 0.25
70 9 0.10
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.37
Consensus pattern (69 bp):
CCTTCTAAGTCCACAACTCCGTGGCACCTTTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTC
TTTT
Found at i:164792 original size:27 final size:28
Alignment explanation
Indices: 164752--164825 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
164742 CACTCTTTTT
* *
164752 CCTTTTAAGTCCACAA-TTCTGTGGCA-C
1 CCTTTTAAGCCCACAAGTT-GGTGGCACC
164779 CCTTTTAAGCCCACAAGTTGGTGGCACC
1 CCTTTTAAGCCCACAAGTTGGTGGCACC
164807 CCTTTTAAAGCCCACAAGT
1 CCTTTT-AAGCCCACAAGT
164826 CATTGGCAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.50
28 9 0.21
29 12 0.29
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (28 bp):
CCTTTTAAGCCCACAAGTTGGTGGCACC
Found at i:164838 original size:28 final size:26
Alignment explanation
Indices: 164752--164838 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 26
164742 CACTCTTTTT
* *
164752 CCTTTTAAGTCCACAATTCTGTGGCAC
1 CCTTTTAAGCCCACAAGTCT-TGGCAC
164779 CCTTTTAAGCCCACAAGT-TGGTGGCACC
1 CCTTTTAAGCCCACAAGTCT--TGGCA-C
*
164807 CCTTTTAAAGCCCACAAGTCATTGGCAA
1 CCTTTT-AAGCCCACAAGTC-TTGGCAC
164835 CCTT
1 CCTT
164839 CAAAAGCACA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
28 11 0.21
29 17 0.33
31 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (26 bp):
CCTTTTAAGCCCACAAGTCTTGGCAC
Found at i:164879 original size:29 final size:30
Alignment explanation
Indices: 164785--164890 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 30
164775 GCACCCTTTT
* * *
164785 AAGCCCACAAGTTGGTGGCACCCCTTT-TA
1 AAGCCCACAAGTTGATGGCAACCCTTTCAA
*
164814 AAGCCCACAAG-TCATTGGCAA-CC-TTCAA
1 AAGCCCACAAGTTGA-TGGCAACCCTTTCAA
*
164842 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTTGATGGCAACCCTTTCAA
164871 AAGCCCACACAAGTTGATGG
1 AAG-CC-CACAAGTTGATGG
164891 TGTCTTCTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
27 6 0.10
28 17 0.27
29 26 0.42
30 1 0.02
31 11 0.18
32 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (30 bp):
AAGCCCACAAGTTGATGGCAACCCTTTCAA
Found at i:165109 original size:101 final size:100
Alignment explanation
Indices: 164901--165242 Score: 403
Period size: 101 Copynumber: 3.4 Consensus size: 100
164891 TGTCTTCTTC
* * * * * *
164901 TAAGTCCAATATCA-CTGGCCTTGAACCAACATATTGGCACCTTT--ATCTTTAAAACTCAATAT
1 TAAGTCCAATGT-AGCTGGCCTTGAATCAGCACATTGGCACCTTTACATCTTTAAGAC-CAATGT
*
164963 CGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCT
64 CGCTGGCCATGAATCAGCATATTGGCACC--TTTCATCT
* *
165002 TGAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTAACCATCTTTAAGACCAATGT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT-A-CATCTTTAAGACCAATGT
* * *
165066 CGCTGGCCGTGAATCAGCACATTGGCACC-CTCATCTT
64 CGCTGGCCATGAATCAGCATATTGGCACCTTTCATC-T
* *
165103 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTTAC--CTTTAAGTCCAATAG-C
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTACATCTTTAAGACCAAT-GTC
165165 GCTGGCCATGAATCAGCATATTGGCACCTTTTCCATCT
65 GCTGGCCATGAATCAGCATATTGGCACC-TTT-CATCT
*
165203 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
165243 AAGTCCAATA
Statistics
Matches: 211, Mismatches: 19, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
98 39 0.18
99 1 0.00
100 50 0.24
101 75 0.36
102 4 0.02
103 32 0.15
104 10 0.05
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (100 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTACATCTTTAAGACCAATGTCG
CTGGCCATGAATCAGCATATTGGCACCTTTCATCT
Found at i:165120 original size:49 final size:49
Alignment explanation
Indices: 164896--165242 Score: 358
Period size: 49 Copynumber: 6.9 Consensus size: 49
164886 GATGGTGTCT
* * * * * *
164896 TCTTCTAAGTCCAATATCACTGGCCTTGAACCAACATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * *
164946 TCTTTAAAACTCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCA
1 TCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACC---TTCA
* *
164999 TC-TTGAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTAACCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* * *
165050 TCTTTAAGACCAATGTCGCTGGCCGTGAATCAGCACATTGGCACCCTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
165099 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTTA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
165148 CCTTTAAGTCCAATAG-CGCTGGCCATGAATCAGCATATTGGCACCTTTTCCA
1 TCTTTAAGTCCAAT-GTCGCTGGCCTTGAATCAGCACATTGGCACC--TT-CA
* *
165200 TC-TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAC
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
165243 AAGTCCAATA
Statistics
Matches: 250, Mismatches: 34, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.01
49 87 0.35
50 38 0.15
51 73 0.29
52 45 0.18
53 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:166016 original size:32 final size:32
Alignment explanation
Indices: 165980--166043 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
165970 TTCAACGATT
*
165980 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGAATCGATACAA
* *
166012 TGTATTGATACATAAGTTTTGAATCGATACAA
1 TGTATCGATACATAAGTGTTGAATCGATACAA
166044 CGTACAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGAATCGATACAA
Found at i:166113 original size:13 final size:13
Alignment explanation
Indices: 166095--166119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
166085 ATTACTCAAA
166095 TGTATCGATACAT
1 TGTATCGATACAT
166108 TGTATCGATACA
1 TGTATCGATACA
166120 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:166172 original size:52 final size:52
Alignment explanation
Indices: 166128--166253 Score: 243
Period size: 52 Copynumber: 2.4 Consensus size: 52
166118 CACTGATCTT
166128 TGTATCGATACATGCAGGCAAAGTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCTAGATGTATCGATACACTATGAAA
*
166180 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCTAGATGTATCGATACACTATGAAA
166232 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
166254 ATTTCATATT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCTAGATGTATCGATACACTATGAAA
Found at i:167147 original size:20 final size:20
Alignment explanation
Indices: 167110--167148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
167100 ACAACCTTGA
*
167110 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
167130 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
167149 CCAGCACCTC
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:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:169592 original size:76 final size:76
Alignment explanation
Indices: 169464--169648 Score: 282
Period size: 76 Copynumber: 2.4 Consensus size: 76
169454 TTTTAATCTC
* *
169464 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTCATTGGGGATACTCCAATCC-
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAA-CCT
*
169528 CGTTATTTTCGA
65 CGTTATTTCCGA
* *
169540 GGGGATATTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCTC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCTC
169605 GTTATTTCCGA
66 GTTATTTCCGA
* * *
169616 GGGGATACTCCAAACCCGGCTTTATATCTAAAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAA
169649 ATATTATTTG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 2 0.02
76 96 0.98
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (76 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCTC
GTTATTTCCGA
Found at i:169707 original size:28 final size:28
Alignment explanation
Indices: 169669--169741 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
169659 TTTCATAATC
* * **
169669 GGGGGTACTCCAACCCTATTATTTCATC
1 GGGGATACTCCAACCCCATTATTTCAGA
* *
169697 TGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCAGA
169725 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
169742 CGCTTTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:169817 original size:108 final size:109
Alignment explanation
Indices: 169581--169819 Score: 399
Period size: 109 Copynumber: 2.2 Consensus size: 109
169571 AACATCAATT
* * *
169581 TTTCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAAACCCGGCTTTATATCTA
1 TTTCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAAACCCCGCTTTATATCTA
169646 AAAATATTATTTGTTTCATAATCGGGGGTACTCCAACCCTATTA
66 AAAATATTATTTGTTTCATAATCGGGGGTACTCCAACCCTATTA
* *
169690 TTTCATCTGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCCGCTTTATATCTA
1 TTTCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAAACCCCGCTTTATATCTA
* *
169755 AAAATATTGTTT-TTTCATAATCGGGGGTACTCCAACCCTGTTA
66 AAAATATTATTTGTTTCATAATCGGGGGTACTCCAACCCTATTA
*
169798 TTTCATCGGGGACACTCCAACC
1 TTTCATCGGGGATACTCCAACC
169820 TAATTTCTCA
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
108 50 0.41
109 71 0.59
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (109 bp):
TTTCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAAACCCCGCTTTATATCTA
AAAATATTATTTGTTTCATAATCGGGGGTACTCCAACCCTATTA
Found at i:171941 original size:12 final size:12
Alignment explanation
Indices: 171924--171958 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
171914 TTTTGAGGTG
171924 TTTATTTGTTTA
1 TTTATTTGTTTA
* *
171936 TTTATTTATTGA
1 TTTATTTGTTTA
171948 TTTATTTGTTT
1 TTTATTTGTTT
171959 TGTTTTATCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTATTTGTTTA
Found at i:182240 original size:15 final size:15
Alignment explanation
Indices: 182219--182261 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
182209 TTCTTTTTCA
182219 AAAAAAAACAAAAA-
1 AAAAAAAACAAAAAT
*
182233 ACAAAAAAATAAAAAT
1 A-AAAAAAACAAAAAT
182249 AAAATAAAACAAA
1 AAAA-AAAACAAA
182262 GAAAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 15 0.62
16 8 0.33
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAAAAACAAAAAT
Found at i:182246 original size:24 final size:25
Alignment explanation
Indices: 182218--182266 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
182208 ATTCTTTTTC
*
182218 AAAAAAAAACAAAAAACAAA-AAAAT
1 AAAAATAAA-AAAAAACAAAGAAAAT
*
182243 AAAAATAAAATAAAACAAAGAAAA
1 AAAAATAAAAAAAAACAAAGAAAA
182267 AAGAGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.86, C:0.06, G:0.02, T:0.06
Consensus pattern (25 bp):
AAAAATAAAAAAAAACAAAGAAAAT
Found at i:183414 original size:54 final size:55
Alignment explanation
Indices: 183287--183503 Score: 330
Period size: 55 Copynumber: 4.0 Consensus size: 55
183277 AGGACGCCTT
183287 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGA
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGA
* * *
183342 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCT-TAAGAGCAGGA
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGA
* *
183396 TGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCATGA
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGA
* * * *
183451 CGCCTTTTACAGCCCACACAAGTTGGTGGC-GCTTCCCAGTCCTCAAAGAGCAA
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAA
183504 TACACTCTCT
Statistics
Matches: 147, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
54 53 0.36
55 94 0.64
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGA
Found at i:183492 original size:109 final size:110
Alignment explanation
Indices: 183288--183502 Score: 344
Period size: 109 Copynumber: 2.0 Consensus size: 110
183278 GGACGCCTTC
183288 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAA
1 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAA
** *
183353 GCCCACACAAGTTGGTGGCACCTTTTAGTCCT-TAAGAGCAGGAT
66 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAT
* * *
183397 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCATGACGCCTTTTACA
1 GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAA
*
183462 GCCCACACAAGTTGGTGGC-GCTTCCCAGTCCTCAAAGAGCA
66 GCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCA
183503 ATACACTCTC
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
108 3 0.03
109 87 0.90
110 7 0.07
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (110 bp):
GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAA
GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAT
Found at i:183587 original size:55 final size:55
Alignment explanation
Indices: 183522--184122 Score: 618
Period size: 55 Copynumber: 10.4 Consensus size: 55
183512 CTCCTTTCAC
183522 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
183576 CCTTTCAGTCCTCAAAGAGCAGGACACTTTCTCCTTTTAAAGCCCACA-AAGTTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
183636 CCTTTCAGTCCTCAAAGAGCAGGACATCTTCTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGG--A----CGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
183697 CC-CTCTAGTCCTTAAAGAGCAGGACGTATTTTCCTTTTAAAGCCCACATAAGCTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
*
183758 CC-TTCAGTCCTCAAAGAGCAGGATGCTTTCGCCTTTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
183818 CCTTTCAGTCCTTAAAGAGCAAGACACTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
183873 CCTTTTAGTCCTTAAAGAGCATGACGTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
183928 CCTTTCAGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
183983 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTGT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTT-TCAAAGCCCACACAAGTTGGTGGCA
* * * *
184038 CCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTGTTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGG--A-C--GCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
184099 CTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAGTCCTCAAAGAGCAGGA
184123 TGCAATTTAT
Statistics
Matches: 471, Mismatches: 46, Indels: 55
0.82 0.08 0.10
Matches are distributed among these distances:
54 5 0.01
55 216 0.46
56 1 0.00
57 2 0.00
58 1 0.00
59 2 0.00
60 106 0.23
61 136 0.29
66 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:183594 original size:94 final size:95
Alignment explanation
Indices: 183427--183612 Score: 277
Period size: 94 Copynumber: 2.0 Consensus size: 95
183417 GTTGGTGGCA
* * * *
183427 CCTTTCAGTCCTCAAAGAGCATGACGCCTTTTACAGCCCACACAAGTTGGTGGCGCTTCCCAGTC
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCCCTTCCCAGTC
*
183492 CTCAAAGAGCAATACACTCTCTCCTTTCAC
66 CTCAAAGAGCAAGACACTCTCTCCTTTCAC
*
183522 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC-CCTTCCCAGT
* *
183585 CCTCAAAGAGCAGGACACTTTCTCCTTT
65 CCTCAAAGAGCAAGACACTCTCTCCTTT
183613 TAAAGCCCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 74 0.90
95 8 0.10
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (95 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCCCTTCCCAGTC
CTCAAAGAGCAAGACACTCTCTCCTTTCAC
Found at i:184981 original size:19 final size:18
Alignment explanation
Indices: 184957--185019 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
184947 AAGCAGTAAA
184957 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
184976 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
184989 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
185008 TATATCGATACA
1 TGTATCGATACA
185020 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:184994 original size:13 final size:13
Alignment explanation
Indices: 184976--185000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
184966 ACATAAGTGT
184976 TGTATCGATACAA
1 TGTATCGATACAA
184989 TGTATCGATACA
1 TGTATCGATACA
185001 TAAGTTTTAT
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:184996 original size:32 final size:32
Alignment explanation
Indices: 184955--185027 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
184945 ACAAGCAGTA
*
184955 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
*
184987 AATGTATCGATACATAAGTTTTATATCGATAC
1 AATGTATCGATACATAAGTGTTATATCGATAC
185019 AATGTATCG
1 AATGTATCG
185028 CTACGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTATATCGATAC
Found at i:185090 original size:13 final size:13
Alignment explanation
Indices: 185072--185097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185062 ATTAAGGGAG
185072 TGTATCGATACAT
1 TGTATCGATACAT
185085 TGTATCGATACAT
1 TGTATCGATACAT
185098 CGATCTTTGT
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:187549 original size:76 final size:76
Alignment explanation
Indices: 187423--187607 Score: 298
Period size: 76 Copynumber: 2.4 Consensus size: 76
187413 TTTTCATCTC
* *
187423 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAATCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
*
187488 GTTATTTTCGA
66 GTTATTTCCGA
*
187499 GGGGATATTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
187564 GTTATTTCCGA
66 GTTATTTCCGA
* * * *
187575 GAGGATACTCCAACCCCAGCTTTATATCTAAAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAA
187608 ATATTTTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 100 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (76 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
GTTATTTCCGA
Found at i:187618 original size:76 final size:75
Alignment explanation
Indices: 187424--187671 Score: 245
Period size: 76 Copynumber: 3.2 Consensus size: 75
187414 TTTCATCTCG
* ** * *
187424 GGGATACTCCAACCCTGGTTTTATTTCTAAAACATCA-ATTTTTCATCGGGGATACTCCAATCCC
1 GGGATATTCCAACCCCAGCTTTATATCTAAAACATCATATTTTTCATCGGGGATACTCCAA-CCC
*
187488 GTTATTTTCGA
65 GTTATTTCCGA
* * *
187499 GGGGATATTCCAACCCCGGTTTTATTTCTAAAACATCA-ATTTTTCATCGGGGATACTCCAACCC
1 -GGGATATTCCAACCCCAGCTTTATATCTAAAACATCATATTTTTCATCGGGGATACTCCAA-CC
187563 CGTTATTTCCGA
64 CGTTATTTCCGA
* * *
187575 GAGGATACTCCAACCCCAGCTTTATATCTAAAA-AT-ATTTTTTTTTCATAATCGGGGGTACTCC
1 G-GGATATTCCAACCCCAGCTTTATATCTAAAACATCA--TATTTTTC---ATCGGGGATACTCC
*
187638 AACCTGTTATTTCATCG-
60 AACCCGTTATTTC--CGA
187655 GGGATATTCCAACCCCA
1 GGGATATTCCAACCCCA
187672 TTATTTTCGA
Statistics
Matches: 151, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
74 1 0.01
75 3 0.02
76 98 0.65
77 6 0.04
79 25 0.17
80 16 0.11
81 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (75 bp):
GGGATATTCCAACCCCAGCTTTATATCTAAAACATCATATTTTTCATCGGGGATACTCCAACCCG
TTATTTCCGA
Found at i:187676 original size:107 final size:108
Alignment explanation
Indices: 187540--187805 Score: 428
Period size: 107 Copynumber: 2.5 Consensus size: 108
187530 AACATCAATT
*
187540 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGATACTCCAACCCCAGCTTTATATCTA
1 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
*
187605 AAAATATTTTTTTTTCATAATCGGGGGTACTCCAA-CCTGTTA
66 AAAATATTATTTTTTCATAATCGGGGGTACTCCAACCCTGTTA
* * * **
187647 TTTCATCGGGGATATTCCAACCCCATTATTTTCGAGGGGATACTCCAA-CCTGGCTTTATATCTA
1 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
*
187711 AAAATATTATTTTTTCATAATTGGGGGTACTCCAACCCTGTTA
66 AAAATATTATTTTTTCATAATCGGGGGTACTCCAACCCTGTTA
* *
187754 TTTCATTGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCC
1 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC
187806 GATTTTATTT
Statistics
Matches: 143, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
106 47 0.33
107 94 0.66
108 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (108 bp):
TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
AAAATATTATTTTTTCATAATCGGGGGTACTCCAACCCTGTTA
Found at i:187769 original size:28 final size:27
Alignment explanation
Indices: 187730--187804 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
187720 TTTTTTCATA
*
187730 ATTGGGGGTACTCCAACCCTGTTATTTC
1 ATTGGGGATACTCCAACCC-GTTATTTC
187758 ATTGGGGATACTCCAATCCCGTTATTTC
1 ATTGGGGATACTCCAA-CCCGTTATTTC
***
187786 CGAGGGGATACTCCAACCC
1 ATTGGGGATACTCCAACCC
187805 CGATTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 36 0.86
29 3 0.07
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (27 bp):
ATTGGGGATACTCCAACCCGTTATTTC
Found at i:187852 original size:51 final size:50
Alignment explanation
Indices: 187791--187955 Score: 199
Period size: 51 Copynumber: 3.2 Consensus size: 50
187781 ATTTCCGAGG
187791 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCAA
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC-A
* * * * * *
187842 GGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTCTCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC-A
* *
187893 GGATACTCCAACCCCGATTTTATTT-TCAAAATACCGA-TTTTCTATAATCA
1 GGATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTC-ACAATCA
187943 GGCATACTCCAAC
1 GG-ATACTCCAAC
187956 TCTATTTCTT
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
50 6 0.06
51 90 0.94
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (50 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCA
Found at i:189517 original size:12 final size:13
Alignment explanation
Indices: 189488--189525 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
189478 CACTACTAGA
189488 TGTATCGATACAT
1 TGTATCGATACAT
189501 TGTATCGATAC-T
1 TGTATCGATACAT
189513 TGTATCGATACAT
1 TGTATCGATACAT
189526 GGACAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:189614 original size:13 final size:13
Alignment explanation
Indices: 189596--189621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
189586 CATGGGACAA
189596 TGTATCGATACAT
1 TGTATCGATACAT
189609 TGTATCGATACAT
1 TGTATCGATACAT
189622 GATGAAATTG
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:192682 original size:20 final size:21
Alignment explanation
Indices: 192652--192690 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
192642 CTATATTTTC
192652 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
192673 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
192691 TACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:194846 original size:21 final size:21
Alignment explanation
Indices: 194813--194857 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
194803 TTGCAAGTTG
*
194813 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
194835 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
194855 AAA
1 AAA
194858 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:196681 original size:15 final size:15
Alignment explanation
Indices: 196661--196691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
196651 TAAAAATGTC
*
196661 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
196676 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
196691 C
1 C
196692 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Done.