Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1004101
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:266 original size:3 final size:3
Alignment explanation
Indices: 260--308 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
250 AATAATATGC
260 AAG AAG AAG AAG AA- AAG AAG AAG AGAG AAG AAG AA- AA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG
303 AAG AAG
1 AAG AAG
309 TGAATTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 6 0.14
3 34 0.79
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:292 original size:13 final size:12
Alignment explanation
Indices: 260--308 Score: 68
Period size: 11 Copynumber: 4.2 Consensus size: 12
250 AATAATATGC
260 AAGAAGAAGAAG
1 AAGAAGAAGAAG
272 AA-AAGAAGAAG
1 AAGAAGAAGAAG
283 AGAGAAGAAGAA-
1 A-AGAAGAAGAAG
295 AA-AAGAAGAAG
1 AAGAAGAAGAAG
306 AAG
1 AAG
309 TGAATTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 8 0.24
11 13 0.39
12 4 0.12
13 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAG
Found at i:564 original size:3 final size:3
Alignment explanation
Indices: 558--662 Score: 175
Period size: 3 Copynumber: 36.7 Consensus size: 3
548 AATAATATGC
558 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
605 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
651 AA- AAG AA- AAG AA
1 AAG AAG AAG AAG AA
663 AACACATGAA
Statistics
Matches: 97, Mismatches: 0, Indels: 10
0.91 0.00 0.09
Matches are distributed among these distances:
2 10 0.10
3 87 0.90
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:569 original size:298 final size:291
Alignment explanation
Indices: 1--607 Score: 1058
Period size: 298 Copynumber: 2.1 Consensus size: 291
* * *
1 GAAAAAAGAAAAACACA-TGAATTTAAAAAAATAGGAGTCACATAATACCTCTGTTAATGGGTTA
1 GAAAAAAGAAGAAGA-AGTGAATTTAAAAAAATAGGAGTCACATAATACCCCTGTTAATGGGTTA
65 ACAAACATTAAGGTTGGGGATTAAAATCGAATCGATCGATACGCAAGGGACCAAACACGCTTAAT
65 ACAAACATTAAGGTTGGGGATTAAAATCGAATCGATCGATACGCAAGGGACCAAACACGCTTAAT
130 TTTTTAACCATGACCAAAGTCGATCAGACCAAAAATAAAGGGTACATTCGCATAGTTTACCCAAA
130 TTTTTAACCATGACCAAAGTCGATCAGACCAAAAATAAAGGGTACATTCGCATAGTTTACCCAAA
195 TAATAAAGTTTATAAAATTTCATAACACAAATTATTTAATTTATAATAAAAATATAATAATATGC
195 TAATAAAGTTTATAAAATTTCATAACACAAATTATTTAATTTATAATAAAAATATAATAATATGC
260 AAGAAGAAGAAGAA-AAGAAGAAGAGAGAAGAA
260 AAGAAGAAGAAGAAGAAGAAGAAGA-AGAAGAA
292 GAAAAAAGAAGAAGAAGTGAATTT-AAAAAATAGGAGTCACATAATACCCCTGTTAATGGGTTAA
1 GAAAAAAGAAGAAGAAGTGAATTTAAAAAAATAGGAGTCACATAATACCCCTGTTAATGGGTTAA
356 CAAACATTAATGGTTGAGGGATTAAAATCGAATCGATCGATAACGCAAGGGACCAAACACGCTTA
66 CAAACATTAA-GGTTG-GGGATTAAAATCGAATCGATCGAT-ACGCAAGGGACCAAACACGCTTA
421 ATTTTTTAACCGATGACCAAAGTCGATCAGACCAAAAATAAAGGGTACTATTCGCATAGTTTACC
128 ATTTTTTAACC-ATGACCAAAGTCGATCAGACCAAAAATAAAGGGTAC-ATTCGCATAGTTTACC
486 CAAATAATAAAGTTTATAAGAAATTTCATAACACAAAATTATTTAATTTATAATAAAAATATAAT
191 CAAATAATAAAGTTTAT-A-AAATTTCATAACAC-AAATTATTTAATTTATAATAAAAATATAAT
551 AATATGCAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
253 AATATGCAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
*
590 GAAGAAGAGAAGAAGAAG
1 GAA-AAAAGAAGAAGAAG
608 AAGAAGAAGA
Statistics
Matches: 301, Mismatches: 4, Indels: 14
0.94 0.01 0.04
Matches are distributed among these distances:
290 50 0.17
291 25 0.08
292 24 0.08
293 34 0.11
294 36 0.12
295 33 0.11
296 1 0.00
297 14 0.05
298 61 0.20
299 23 0.08
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (291 bp):
GAAAAAAGAAGAAGAAGTGAATTTAAAAAAATAGGAGTCACATAATACCCCTGTTAATGGGTTAA
CAAACATTAAGGTTGGGGATTAAAATCGAATCGATCGATACGCAAGGGACCAAACACGCTTAATT
TTTTAACCATGACCAAAGTCGATCAGACCAAAAATAAAGGGTACATTCGCATAGTTTACCCAAAT
AATAAAGTTTATAAAATTTCATAACACAAATTATTTAATTTATAATAAAAATATAATAATATGCA
AGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA
Found at i:1413 original size:24 final size:25
Alignment explanation
Indices: 1376--1435 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
1366 AAATATAAAC
*
1376 AATTATT-AAGATATT-CAATACATTA
1 AATTATTAAAAATATTACAA-A-ATTA
1401 AA-TA-TAAAAATATTACAAAATTA
1 AATTATTAAAAATATTACAAAATTA
1424 AATTATTAAAAA
1 AATTATTAAAAA
1436 AATAGTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 7 0.23
24 12 0.40
25 11 0.37
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (25 bp):
AATTATTAAAAATATTACAAAATTA
Found at i:4536 original size:58 final size:58
Alignment explanation
Indices: 4466--4582 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
4456 GCTGTTGGTT
4466 TTATTAAAAGTAAGAAATATTCAAAATTACAATAAAAATTTACAACATAAACGTAAAC
1 TTATTAAAAGTAAGAAATATTCAAAATTACAATAAAAATTTACAACATAAACGTAAAC
*
4524 TTATTAAAAGTAAGAAATATTCAAAATTACAATGAAAATTTACAACATAAACGTAAAC
1 TTATTAAAAGTAAGAAATATTCAAAATTACAATAAAAATTTACAACATAAACGTAAAC
4582 T
1 T
4583 AACACATAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (58 bp):
TTATTAAAAGTAAGAAATATTCAAAATTACAATAAAAATTTACAACATAAACGTAAAC
Found at i:6015 original size:2 final size:2
Alignment explanation
Indices: 6008--6035 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5998 AGACAAGTTG
6008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6036 TCATGGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6963 original size:20 final size:20
Alignment explanation
Indices: 6938--6979 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6928 CCGATATATT
6938 TTATAAT-TAGATTAATTTTA
1 TTATAATATAGA-TAATTTTA
*
6958 TTATAATATAGATATTTTTA
1 TTATAATATAGATAATTTTA
6978 TT
1 TT
6980 TGAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATAATATAGATAATTTTA
Found at i:7122 original size:9 final size:9
Alignment explanation
Indices: 7110--7141 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7100 TAATATTTAA
7110 TAATTTGAT
1 TAATTTGAT
7119 TAATTTGAT
1 TAATTTGAT
*
7128 TAATTCGAT
1 TAATTTGAT
7137 TAATT
1 TAATT
7142 AACTGATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
TAATTTGAT
Found at i:10106 original size:21 final size:20
Alignment explanation
Indices: 10052--10110 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
10042 TACTGGAATC
10052 CAAGGGATCGATCCTTT-CT
1 CAAGGGATCGATCCTTTGCT
* * *
10071 CAAGGATATCAATCCTTTGGT
1 CAAGG-GATCGATCCTTTGCT
10092 CAAAGGGATCGATCCTTTG
1 C-AAGGGATCGATCCTTTG
10111 AGCAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 5 0.16
20 10 0.31
21 13 0.41
22 4 0.12
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (20 bp):
CAAGGGATCGATCCTTTGCT
Found at i:10251 original size:11 final size:11
Alignment explanation
Indices: 10237--10261 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10227 ACTTTGAATT
10237 ATTTTTGATAA
1 ATTTTTGATAA
10248 ATTTTTGATAA
1 ATTTTTGATAA
10259 ATT
1 ATT
10262 CGATTAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
ATTTTTGATAA
Found at i:14781 original size:37 final size:37
Alignment explanation
Indices: 14711--14797 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
14701 TCTTTTTTAG
** * * **
14711 TTCTCTAGAAATTCATTTTTTTCATTCTTAGGATGGT
1 TTCTCTAGAAATTCAAATTTGTCATTCTCAGGATCAT
*
14748 TTCTCTAGAAATTCAAATTTGTCTTTCTCAGGATCAT
1 TTCTCTAGAAATTCAAATTTGTCATTCTCAGGATCAT
*
14785 TTTTCTAGAAATT
1 TTCTCTAGAAATT
14798 TGTTTTAGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.48
Consensus pattern (37 bp):
TTCTCTAGAAATTCAAATTTGTCATTCTCAGGATCAT
Found at i:15067 original size:45 final size:45
Alignment explanation
Indices: 14953--15538 Score: 649
Period size: 45 Copynumber: 13.0 Consensus size: 45
14943 GAAGCTTCAA
* * *
14953 CTTGACTTTCT-TTGGAAGAGGAGTCAACCTTTTAGTGTT-TCATA
1 CTTGACTTTCTCGT-GAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* **
14997 CTTGACTTTCTCATGAAGAAAAGTCAATCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
15042 ATTGACTTTCTTGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
15087 CAAT-ACTTTCTCGTGAAGAGGAGTTAATCTTTTGGTGATGTTATT
1 C-TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * *
15132 CTTGCCTTTCTCGTTAAGAAGAGCCAATCCTTTAGTGTTGTCATA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
15177 CTTGACTTTCTCGTGAAAAGGAGCCAATCTTTTAGTGATATTATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
15222 CTTGACTTTCTCGTGAAAAGGAGTCAATCTTTTAGTGATGTTATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
15267 CTTGACTATCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCCTT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * * *
15312 CTTGACTTTCTCGTGAGGAGGAGTAAACCTTTTGGTGATATCATA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
15357 CTTGAATTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATC
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
15402 CTTGTCTTTCTCGCGAAGATGAGTAAACCTTTTAGTGTTGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
15447 CTTGACTTTTTCGCGAAGAGTAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * *
15492 CTTGACTTTCTTGGGAAGAGGAGTCAACCTTTTAGTGATT-TCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTG-TTGTCATT
15537 CT
1 CT
15539 CAACATGACT
Statistics
Matches: 456, Mismatches: 81, Indels: 9
0.84 0.15 0.02
Matches are distributed among these distances:
44 34 0.07
45 420 0.92
46 2 0.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
Found at i:16563 original size:130 final size:128
Alignment explanation
Indices: 16330--16690 Score: 445
Period size: 130 Copynumber: 2.8 Consensus size: 128
16320 TCCTCCGTAC
* *
16330 TTGATCTTCTCTGAAGAGCAGTGAAACAAATTTACCTCGATTCAATCTTCTCTTAAGAGTAGTAA
1 TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTC-CTTAAGAG-AGTTA
* * * * * *
16395 AGTGAGTTAACGTTTCTAGATCTGATCTACCCTAAAGAGAAGCGGAGCAGATCCCTTTTTCAGAT
64 AGTGAATAAAAGTTTCTAGATCTGATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTCCAAAT
* * * *
16460 TTGATCTTCCCTGAGGAGCAGTGGAACAAATATGCCTCGATTCAATCTTCCTTGAAGAGCAGTTA
1 TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTCCTT-AAGAG-AGTTA
* * * * * * * *
16525 TGTGAATCAAAGTTTCCAGATCTGATATACCTTGAAGAGCAGCGGAGTATATCCCTTTTCCAAAT
64 AGTGAATAAAAGTTTCTAGATCTGATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTCCAAAT
* *
16590 TTGATCTTCTCTGAAGAGCAGT-AAAGTAAATCTACCTCGATTCAATCTTCCCTTAAGAGATGTT
1 TTGATCTTCTCTGAAGAGCAGTGAAA-CAAATATACCTCGATTCAATCTT-CCTTAAGAGA-GTT
*
16654 AAGTGAATAAAACTTTCTAGATCTGATCTACCCTGAA
63 AAGTGAATAAAAGTTTCTAGATCTGATCTACCCTGAA
16691 ACACGATAGA
Statistics
Matches: 195, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
129 6 0.03
130 185 0.95
131 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (128 bp):
TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTCCTTAAGAGAGTTAAG
TGAATAAAAGTTTCTAGATCTGATCTACCCTGAAGAGAAGCGGAGCAGATCCCTTTTCCAAAT
Found at i:16722 original size:130 final size:128
Alignment explanation
Indices: 16330--16737 Score: 393
Period size: 130 Copynumber: 3.1 Consensus size: 128
16320 TCCTCCGTAC
* * *
16330 TTGATCTTCTCTGAAGAGCAGTGAAACAAATTTACCTCGATTCAATCTTCTCTTAAGAG-TAGTA
1 TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTCCCTTAAGAGAT-GTT
* * *
16394 AAGTGAGTTAACGTTTCTAGATCTGATCTACCCT-AAAGA-GAAGCGGAGCAGATCCCTTTTTCA
65 AAGTGAATAAAC-TTTCTAGATCTGATCTACCCTGAAACACGAA---GAGCAGATCCCTTTTTCA
*
16457 GAT
126 AAT
* * * *
16460 TTGATCTTCCCTGAGGAGCAGTGGAACAAATATGCCTCGATTCAATCTT-CCTTGAAGAGCA-GT
1 TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTCCCTT-AAGAG-ATGT
* * * * * * * *
16523 TATGTGAATCAAAGTTTCCAGATCTGATATACCTTGAAGAGCAGCG--GAGTATATCCCTTTTCC
64 TAAGTGAAT-AAACTTTCTAGATCTGATCTACCCTGAA-A-CA-CGAAGAGCAGATCCCTTTTTC
16586 AAAT
125 AAAT
* *
16590 TTGATCTTCTCTGAAGAGCAGT-AAAGTAAATCTACCTCGATTCAATCTTCCCTTAAGAGATGTT
1 TTGATCTTCTCTGAAGAGCAGTGAAA-CAAATATACCTCGATTCAATCTTCCCTTAAGAGATGTT
** *
16654 AAGTGAATAAAACTTTCTAGATCTGATCTACCCTGAAACACGATAGAGCAGATCTTTTTTTCATA
65 AAGTGAAT-AAACTTTCTAGATCTGATCTACCCTGAAACACGA-AGAGCAGATCCCTTTTTCAAA
16719 T
128 T
*
16720 TTGATATTC-CTTGAAGAG
1 TTGATCTTCTC-TGAAGAG
16738 AAGAGAAGCG
Statistics
Matches: 224, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
127 2 0.01
128 2 0.01
129 8 0.04
130 201 0.90
131 8 0.04
132 1 0.00
133 1 0.00
135 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (128 bp):
TTGATCTTCTCTGAAGAGCAGTGAAACAAATATACCTCGATTCAATCTTCCCTTAAGAGATGTTA
AGTGAATAAACTTTCTAGATCTGATCTACCCTGAAACACGAAGAGCAGATCCCTTTTTCAAAT
Found at i:17202 original size:132 final size:130
Alignment explanation
Indices: 16800--17264 Score: 540
Period size: 131 Copynumber: 3.5 Consensus size: 130
16790 ATCAAAACTA
** * ** *
16800 ATTCAATCTTCCCTGAAGATGAGTGAAGTGAGTCAAATTTTAAAATCTGATATACCCTGAAGA-G
1 ATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAATTTCCAAATCTGATCTACCCTGAA-ACG
* ** * *
16864 CAGCGGAGCATATCTCTTTTGCCAAATTTGATATTCTCTGAAGAGCAATGAAGTAAATCCACCTC
65 CAGCGGAGCATATCTATTTTTTCAAATTTGATCTTCTCTGAAGAGCAGTGAAGTAAATCCACCTC
16929 G
130 G
* * * * *
16930 ATTCAATCTTCCCTTAGGAGCAGTGAAGTGAATCAAAATTTCCAAATATGATCTACCCTAAAACG
1 ATTCAATCTTCCCTGAAGAACAGTGAAGTGAATC-AAATTTCCAAATCTGATCTACCCTGAAACG
* * * *
16995 CAGCGAAACATAT-TATTTTTTCTAGATTTGATCTTCTCTGAAGAGAAGTGAAGTAAATCCACCT
65 CAGCGGAGCATATCTATTTTTTC-AAATTTGATCTTCTCTGAAGAGCAGTGAAGTAAATCCACCT
17059 CG
129 CG
* * * *
17061 ATTCAATTTTCCCTGAAGAACATTGAAGTGAATCAAACTTTCCAGATCTGATCTACCTTGAAACG
1 ATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAA-TTTCCAAATCTGATCTACCCTGAAACG
* * * * * * * *
17126 TAGCGGAGCAAATCCTTTTTTTTCATATTTGATCTTCCCTGAAGAGCAGTTAAGCAAATCAACCT
65 CAGCGGAGCATAT-CTATTTTTTCAAATTTGATCTTCTCTGAAGAGCAGTGAAGTAAATCCACCT
17191 CG
129 CG
* *
17193 ATTCAATTTTCCCTGAAGAACAGTGAAGTGAATCAAAGTTTCCAGATCTGATCTACCCTGAAGA-
1 ATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAA-TTTCCAAATCTGATCTACCCTGAA-AC
17257 GCAGCGGA
64 GCAGCGGA
17265 TTTTAAAAAA
Statistics
Matches: 285, Mismatches: 43, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
130 39 0.14
131 134 0.47
132 103 0.36
133 9 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (130 bp):
ATTCAATCTTCCCTGAAGAACAGTGAAGTGAATCAAATTTCCAAATCTGATCTACCCTGAAACGC
AGCGGAGCATATCTATTTTTTCAAATTTGATCTTCTCTGAAGAGCAGTGAAGTAAATCCACCTCG
Found at i:20486 original size:30 final size:30
Alignment explanation
Indices: 20430--20495 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
20420 CTTGTACTTG
20430 TTTTATTTTTATTTTATGTTGTTTTTACTA
1 TTTTATTTTTATTTTATGTTGTTTTTACTA
* * *
20460 TTTT-TTTATTATTTATTTGTTGTTTTAATTA
1 TTTTATTT-TTATTT-TATGTTGTTTTTACTA
20491 TTTTA
1 TTTTA
20496 ATTATGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 3 0.10
30 10 0.33
31 17 0.57
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (30 bp):
TTTTATTTTTATTTTATGTTGTTTTTACTA
Found at i:20511 original size:20 final size:19
Alignment explanation
Indices: 20460--20513 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
20450 GTTTTTACTA
*
20460 TTTTTTTATTATTTATTTGT
1 TTTTTTTATT-TTAATTTGT
20480 TGTTTTAATTATTTTAATTATGT
1 T-TTTT--TTATTTTAATT-TGT
20503 TTTTTTTATTT
1 TTTTTTTATTT
20514 GTATTGATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 7 0.24
21 4 0.14
22 9 0.31
23 9 0.31
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTAATTTGT
Found at i:30702 original size:17 final size:17
Alignment explanation
Indices: 30677--30710 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30667 TTGAATATTT
*
30677 TGGAATGTTTGATTTTG
1 TGGAATGTTGGATTTTG
*
30694 TGGATTGTTGGATTTTG
1 TGGAATGTTGGATTTTG
30711 GATTTATGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (17 bp):
TGGAATGTTGGATTTTG
Found at i:41503 original size:6 final size:6
Alignment explanation
Indices: 41486--41544 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
41476 GAAGAAAAGG
*
41486 GAAAAA GTAAAAA GAAAAA -AGAAAA G-AAAG GAAAAAA GAAAAA GAAAAA
1 GAAAAA G-AAAAA GAAAAA GA-AAAA GAAAAA G-AAAAA GAAAAA GAAAAA
41535 G-AAAA GAAAA
1 GAAAAA GAAAA
41545 TGAGAGGTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
5 10 0.22
6 25 0.56
7 10 0.22
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:41519 original size:30 final size:29
Alignment explanation
Indices: 41481--41543 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
41471 CCTAAGAAGA
*
41481 AAAGGGAAAAAGTAAAAAGAAAAAAGAAAAG
1 AAAGGAAAAAAG-AAAAAG-AAAAAGAAAAG
41512 AAAGGAAAAAAGAAAAAGAAAAAGAAAAG
1 AAAGGAAAAAAGAAAAAGAAAAAGAAAAG
41541 AAA
1 AAA
41544 ATGAGAGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 14 0.45
30 6 0.19
31 11 0.35
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (29 bp):
AAAGGAAAAAAGAAAAAGAAAAAGAAAAG
Found at i:41521 original size:17 final size:16
Alignment explanation
Indices: 41496--41544 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
41486 GAAAAAGTAA
41496 AAAGAAAAAAGAAAAG
1 AAAGAAAAAAGAAAAG
41512 AAAGGAAAAAAGAAAAAG
1 AAA-GAAAAAAG-AAAAG
41530 AAA-AAGAAAAGAAAA
1 AAAGAA-AAAAGAAAA
41545 TGAGAGGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.30
17 13 0.43
18 8 0.27
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAGAAAAG
Found at i:41526 original size:24 final size:24
Alignment explanation
Indices: 41488--41544 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
41478 AGAAAAGGGA
*
41488 AAAAGTAAAAAGAAAAA-AGAAAAG
1 AAAAGAAAAAAGAAAAAGA-AAAAG
*
41512 AAAGGAAAAAAGAAAAAGAAAAAG
1 AAAAGAAAAAAGAAAAAGAAAAAG
41536 AAAAGAAAA
1 AAAAGAAAA
41545 TGAGAGGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAAAGAAAAAGAAAAAG
Found at i:43020 original size:135 final size:136
Alignment explanation
Indices: 42472--43022 Score: 666
Period size: 135 Copynumber: 4.1 Consensus size: 136
42462 AAGATGAACC
* * ** * * * * *
42472 GATTAATATTTCAAATGGAGATTTTGTAAGGAGAAGAACTCTTCCGATAGAGGGAGAATAACTTC
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * *
42537 ATAATGAGAAGAGCTTATTCGACCTATTTCTCGATTCACGACACTTCGAATCAGCAACACCTCGC
66 ATAATGAAAAGAGCTTGTTCGACCTATTGCTAGATTCACGACACTTCGAATCAGCAACACCTCGC
42602 TTGAGG
131 TTGAGG
* * * *
42608 GATTAACCTTTCAAATGGAGAGTTTATAAT--G-AGAACACATCCGACAGAGGGAGAAGAAGTTT
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* *
42670 ATAATGAAAAGAGCTTGTTCGACCTATTACTCA-ATTCACGACGCTTCGAATCAGCAACACCTCG
66 ATAATGAAAAGAGCTTGTTCGACCTATTGCT-AGATTCACGACACTTCGAATCAGCAACACCTCG
42734 CTTGAGG
130 CTTGAGG
* * * * * *
42741 AATTAACCTTTCAAATGGAGATTTCATAATGAGAATAGCTCATCTGACAGA-GGAGAAGAAGTTC
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* *
42805 ATAATGAGAAGAGCTTGTTCGACCTATTGCTCGATTCACGACACTTCGAATCAGCAACACCTCGC
66 ATAATGAAAAGAGCTTGTTCGACCTATTGCTAGATTCACGACACTTCGAATCAGCAACACCTCGC
*
42870 TTGAGT
131 TTGAGG
* * * *
42876 GATTGACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCAT-CGATAGAGGGATAGGAAGTTC
1 GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * * * * * *
42940 ATAATGAAAAGAACCTG-TCTGACCTAGTGCTAGATTCACAACACTTCGAATTAACGACACCTTG
66 ATAATGAAAAGAGCTTGTTC-GACCTATTGCTAGATTCACGACACTTCGAATCAGCAACACCTCG
43004 CTTGAGG
130 CTTGAGG
*
43011 GATCAACATTTC
1 GATTAACATTTC
43023 CAGAAGAAAG
Statistics
Matches: 356, Mismatches: 52, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
133 117 0.33
134 8 0.02
135 193 0.54
136 38 0.11
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (136 bp):
GATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
ATAATGAAAAGAGCTTGTTCGACCTATTGCTAGATTCACGACACTTCGAATCAGCAACACCTCGC
TTGAGG
Found at i:47857 original size:41 final size:41
Alignment explanation
Indices: 47806--47913 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 41
47796 TATTCGAGTT
47806 TAGT-CATCAAGTGGTAGTATTTTAAATTATTCTCCTAAAG
1 TAGTACATCAAGTGGTAGTATTTTAAATTATTCTCCTAAAG
**
47846 TAGTATGTCAAGTGGTAGTATTTGTTTTAAATTATTCTCCTAAAG
1 TAGTACATCAAGTGGTAGTA----TTTTAAATTATTCTCCTAAAG
*
47891 TAGTACATCAAATGGTAGTATTT
1 TAGTACATCAAGTGGTAGTATTT
47914 GATGTCATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
40 4 0.07
41 16 0.28
45 38 0.66
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (41 bp):
TAGTACATCAAGTGGTAGTATTTTAAATTATTCTCCTAAAG
Found at i:47885 original size:45 final size:45
Alignment explanation
Indices: 47825--47914 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
47815 AGTGGTAGTA
** *
47825 TTTTAAATTATTCTCCTAAAGTAGTATGTCAAGTGGTAGTATTTG
1 TTTTAAATTATTCTCCTAAAGTAGTACATCAAATGGTAGTATTTG
47870 TTTTAAATTATTCTCCTAAAGTAGTACATCAAATGGTAGTATTTG
1 TTTTAAATTATTCTCCTAAAGTAGTACATCAAATGGTAGTATTTG
47915 ATGTCATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTTAAATTATTCTCCTAAAGTAGTACATCAAATGGTAGTATTTG
Found at i:49469 original size:60 final size:60
Alignment explanation
Indices: 49353--49469 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
49343 ATGCATCCTC
* * * **
49353 AAACCATGACCCTCATTCTAAATTAGTCTCCAAAATTTTTAACATTCTAGTTTCATCTCT
1 AAACCACGACCCTCATTCTAAATTAGTCTCCAAAATTTTAAACATTATAGACTCATCTCT
* * * *
49413 AAACCACGACTCTCATTGTAAATTGGTCTCTAAAATTTTAAACATTAT-GAACTCATC
1 AAACCACGACCCTCATTCTAAATTAGTCTCCAAAATTTTAAACATTATAG-ACTCATC
49470 GTCAAACTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 46 0.98
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (60 bp):
AAACCACGACCCTCATTCTAAATTAGTCTCCAAAATTTTAAACATTATAGACTCATCTCT
Found at i:61333 original size:13 final size:13
Alignment explanation
Indices: 61315--61352 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
61305 TAATGAAAAA
61315 AAAATTAAACATT
1 AAAATTAAACATT
61328 AAAATTCAAAC-TT
1 AAAATT-AAACATT
*
61341 CAAATTAAACAT
1 AAAATTAAACAT
61353 AATAATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 4 0.18
13 14 0.64
14 4 0.18
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTAAACATT
Found at i:63293 original size:3 final size:3
Alignment explanation
Indices: 63281--63316 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
63271 AAGGTTTTTA
63281 ATT A-T ATT ATT ATT ATT ATT ATT A-T ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63317 TTTCAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.20
3 24 0.80
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64338 original size:36 final size:37
Alignment explanation
Indices: 64297--64399 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
64287 CCTCACTTTA
64297 GTCCTTCTTAGGATGATTTCTCTAGAAATT-ATTTTT
1 GTCCTTCTTAGGATGATTTCTCTAGAAATTCATTTTT
64333 GTCCTTCTTAGGATGATTTCTCTAGAAATTCATTTTT
1 GTCCTTCTTAGGATGATTTCTCTAGAAATTCATTTTT
* *
64370 GTCCTTCTTTGGATCG-TTTATCTAGAAATT
1 GTCCTTCTTAGGAT-GATTTCTCTAGAAATT
64400 TGTTTGTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
36 30 0.48
37 32 0.51
38 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.49
Consensus pattern (37 bp):
GTCCTTCTTAGGATGATTTCTCTAGAAATTCATTTTT
Found at i:64603 original size:45 final size:45
Alignment explanation
Indices: 64554--65191 Score: 607
Period size: 45 Copynumber: 14.1 Consensus size: 45
64544 GAAGCTTCAA
* * * *
64554 CTTGACTTTCTTGTGAAGAGAAGTCAATTTTTTAGTGTTGTCATA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
64599 CTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTGTTGTCATATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC--ATT
* * * *
64646 ATTGACTTTATCGT-AAAAGGGAGTCAATCTTTTAGTGTTGTCATA
1 CTTGACTTTCTCGTGAAGA-GGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
64691 CAAT-ACTTTCTCGTGAAGAGGGGTCAATCTTTTGGTGATGTTATT
1 C-TTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* ** * * *
64736 CTTGAATTTCTTATGAAGATGAGTCAATGTTTTAGTGTTGTCATA
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
64781 CTTGACTTTCTCATGAAAAGGAGTCAATCTTTTAATGATGTTATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * *
64826 CTTGACTTTCTTGTGAAAAGGAGTCAATCTTTTAGTGATGTTATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* *
64871 CTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGTCCTT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * * *
64916 TTTGACTTTCTCGTGAGGAGGAGTAAACCATTT-GATGATATCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAG-TGTTGTCATT
* * *
64961 CTTGACTTTCTCGTGAAGAGAAGTCAATATTTTAGTGTTGTCATC
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * *
65006 CTTGTCTTTCTCGCGAAGATGAGTCAACCTTTGAGTGTTGTAATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * * *
65051 CTTGATTTTCTCGCGAAGATGAGTCAACCTTTGAGTGTTGTTGTAATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTA--G-TGTTGTCATT
** * * *
65099 CTTGACTTTCTCGCAAAGAGTAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
* * * * *
65144 CTTGACTTTCTTGGGAAGAGAAGTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
65189 CTT
1 CTT
65192 AACATGAATT
Statistics
Matches: 493, Mismatches: 89, Indels: 22
0.82 0.15 0.04
Matches are distributed among these distances:
44 2 0.00
45 407 0.83
46 9 0.02
47 36 0.07
48 39 0.08
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (45 bp):
CTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTCATT
Found at i:66230 original size:129 final size:130
Alignment explanation
Indices: 65976--66264 Score: 311
Period size: 129 Copynumber: 2.2 Consensus size: 130
65966 ATAATTTTCC
* * * * * * * * *
65976 TCCAAAATTGATATTCCCTGAAGAGCAGT-GAAGAAAATTTACCTCGATTCAATCCTCTCTTAAG
1 TCCAAATTTGATCTTCCTTGAAGAGAAGTGGAA-CAAATATGCCTCGATTCAATCCTCCCTGAAG
* * * * * *
66040 AGTAGTTAAGTGAATCAATGTTTCTAGATCTGATCTACCCTAAAGAGCAGCGAGCATATCCCTTT
65 AGCAGTTAAATGAATCAATGTATCTAGATATGATCTACCCTAAAGAGCAGCGAACAGATCCCTTT
66105 T
130 T
* *
66106 T-CAGATTTGATCTTCCTT-AAGGAGAAGTGGAACAAATATGCCTCGATTCAATCTTCCCTGAAG
1 TCCAAATTTGATCTTCCTTGAA-GAGAAGTGGAACAAATATGCCTCGATTCAATCCTCCCTGAAG
* *
66169 AGCA-TTAAAATGAATCGAA-GTATC-AGATATGATCTACCTTGAAGAGCAGCGGAACAGATCCC
65 AGCAGTT-AAATGAATC-AATGTATCTAGATATGATCTACCCTAAAGAGCAGC-GAACAGATCCC
66231 TTTT
127 TTTT
*
66235 TCCAAATTTGATCTTCTTTGAAGAGAAGTG
1 TCCAAATTTGATCTTCCTTGAAGAGAAGTG
66265 AAGCATCCAT
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
128 27 0.21
129 73 0.56
130 29 0.22
131 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (130 bp):
TCCAAATTTGATCTTCCTTGAAGAGAAGTGGAACAAATATGCCTCGATTCAATCCTCCCTGAAGA
GCAGTTAAATGAATCAATGTATCTAGATATGATCTACCCTAAAGAGCAGCGAACAGATCCCTTTT
Found at i:66298 original size:128 final size:128
Alignment explanation
Indices: 66017--66298 Score: 301
Period size: 129 Copynumber: 2.2 Consensus size: 128
66007 AGAAAATTTA
* * * *
66017 CCTCGATTCAATCC-TCTCTTAAGAGTAGTTAAGTGAATCAATGTTTCTAGATCTGATCTACCCT
1 CCTCGATTCAATCCTTC-CTTAAGAGCAGTTAAATGAATCAATGTATCTAGATATGATCTACCCT
* * * *
66081 AAAGAGCAGCGAGCATATCCCTTTTTCAGATTTGATCTTCCTTAAGGAGAAGTGGAACAAATAT
65 AAAGAGCAGCGAACAGATCCCTTTTTCAAATTTGATCTTCCTTAAGGAGAAGTGGAACAAACAT
*
66145 GCCTCGATTCAAT-CTTCCCTGAAGAGCA-TTAAAATGAATCGAA-GTATC-AGATATGATCTAC
1 -CCTCGATTCAATCCTT-CCTTAAGAGCAGTT-AAATGAATC-AATGTATCTAGATATGATCTAC
* * *
66206 CTTGAAGAGCAGCGGAACAGATCCCTTTTTCCAAATTTGATCTTCTTTGAA-GAGAAGT-GAAGC
62 CCTAAAGAGCAGC-GAACAGATCCCTTTTT-CAAATTTGATCTTCCTT-AAGGAGAAGTGGAA-C
**
66269 ATCCAT
123 AAACAT
66275 -CTCGATTCAATCCTTCCTTAAGAG
1 CCTCGATTCAATCCTTCCTTAAGAG
66299 AAGTGAAGTG
Statistics
Matches: 129, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
128 45 0.35
129 53 0.41
130 29 0.22
131 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (128 bp):
CCTCGATTCAATCCTTCCTTAAGAGCAGTTAAATGAATCAATGTATCTAGATATGATCTACCCTA
AAGAGCAGCGAACAGATCCCTTTTTCAAATTTGATCTTCCTTAAGGAGAAGTGGAACAAACAT
Found at i:66483 original size:41 final size:41
Alignment explanation
Indices: 66366--66485 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
66356 ATTTTTTTCA
* * * *
66366 TATTTAATATTCCCTAAAGAGCAGAGAAGCGAAACAAAACT
1 TATTCAATCTTCCCTAAAGAGCAGTGAAGCGAATCAAAACT
* * * *
66407 TATTCAATCTTCCCTGAAGAGCAGTAAAACAAATCAAAA-T
1 TATTCAATCTTCCCTAAAGAGCAGTGAAGCGAATCAAAACT
* * *
66447 TGATTCAATCTTCCCTAAAAAGTAGTGAAGTGAATCAAA
1 T-ATTCAATCTTCCCTAAAGAGCAGTGAAGCGAATCAAA
66486 CTTTCAAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
40 2 0.03
41 61 0.97
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (41 bp):
TATTCAATCTTCCCTAAAGAGCAGTGAAGCGAATCAAAACT
Found at i:68480 original size:54 final size:54
Alignment explanation
Indices: 68381--68488 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
68371 AACCATGACC
* * **
68381 CTCATTCTAAATTAATCTCCAAATTTTTTAACATTCTAGTTTCAT-CTCTAAACT
1 CTCATTCTAAATTAATCTCCAAAATTTTAAACATTCTAGACTCATCCTC-AAACT
* * *
68435 CTCATTGTAAATTAGTCTCTAAAATTTTAAACATTCT-GAACTCATCCTCAAACT
1 CTCATTCTAAATTAATCTCCAAAATTTTAAACATTCTAG-ACTCATCCTCAAACT
68489 ATGACCATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
53 1 0.02
54 41 0.91
55 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (54 bp):
CTCATTCTAAATTAATCTCCAAAATTTTAAACATTCTAGACTCATCCTCAAACT
Found at i:68610 original size:29 final size:29
Alignment explanation
Indices: 68578--68670 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
68568 GTTATTGAGG
68578 TGTTACAAAGTTTGGGGGTGAATTTGAAA
1 TGTTACAAAGTTTGGGGGTGAATTTGAAA
** * * *
68607 TGTTTA-AAAGTTTATGGATCAATTTGGAA
1 TG-TTACAAAGTTTGGGGGTGAATTTGAAA
* * * *
68636 TGATAGTCATAGTTCGGGGGTGAATTTAAAA
1 TGTTA--CAAAGTTTGGGGGTGAATTTGAAA
68667 TGTT
1 TGTT
68671 TAAAAATTAA
Statistics
Matches: 45, Mismatches: 15, Indels: 6
0.68 0.23 0.09
Matches are distributed among these distances:
28 2 0.04
29 22 0.49
30 3 0.07
31 18 0.40
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (29 bp):
TGTTACAAAGTTTGGGGGTGAATTTGAAA
Found at i:70959 original size:18 final size:18
Alignment explanation
Indices: 70936--71001 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
70926 TCCTTAATAA
70936 TATTTTAATATATTTGTT
1 TATTTTAATATATTTGTT
70954 TATTTTAATA-ATATT-TT
1 TATTTTAATATAT-TTGTT
** *
70971 CCTTTCAATATATTTGTT
1 TATTTTAATATATTTGTT
70989 TATTTTAAT-TATT
1 TATTTTAATATATT
71002 CTCCTAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
17 17 0.44
18 22 0.56
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTTTAATATATTTGTT
Found at i:76068 original size:13 final size:13
Alignment explanation
Indices: 76038--76072 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
76028 TTTTCCTTTT
*
76038 ATTATTATATATAT
1 ATTATTA-ATATAA
76052 ATTATTAATATAA
1 ATTATTAATATAA
76065 ATTATTAA
1 ATTATTAA
76073 AAATAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTATTAATATAA
Found at i:83322 original size:6 final size:6
Alignment explanation
Indices: 83313--83408 Score: 61
Period size: 6 Copynumber: 15.8 Consensus size: 6
83303 TGAGAAAATA
* * * * *
83313 AAAAAG AAAAGG AAATA- AAAGAG AGAAA- AAATAG AAAAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAA-AAG AAAAAG
* * * * *
83361 AAAAAG AAAAAAG AAAAAA AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
83409 AATATAAAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
5 7 0.09
6 53 0.72
7 12 0.16
8 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:83322 original size:12 final size:12
Alignment explanation
Indices: 83305--83409 Score: 84
Period size: 13 Copynumber: 8.1 Consensus size: 12
83295 TTAGAAGATG
*
83305 AGAAAATAAAAA
1 AGAAAAAAAAAA
83317 AGAAAAGGAAATAAA
1 AGAAAA--AAA-AAA
* *
83332 AGAGAGAAAAAAT
1 AGA-AAAAAAAAA
83345 AGAAAAAAAGAAAA
1 AG-AAAAAA-AAAA
83359 AGAAAAAGAAAAA
1 AGAAAAA-AAAAA
83372 AGAAAAAAAAAA
1 AGAAAAAAAAAA
* *
83384 ATAAAAATAAAA
1 AGAAAAAAAAAA
*
83396 ATAAAAATAAAAA
1 AGAAAAA-AAAAA
83409 A
1 A
83410 ATATAAAAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
12 28 0.36
13 29 0.38
14 12 0.16
15 6 0.08
16 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:83340 original size:31 final size:28
Alignment explanation
Indices: 83299--83442 Score: 109
Period size: 25 Copynumber: 4.9 Consensus size: 28
83289 TTTTGTTTAG
83299 AAGATGAGAAAATAAAAAAGAAAAGGAAATAA
1 AAGA-GAGAAAATAAAAAA-AAAA--AAATAA
*
83331 AAGAGAGAAAAAATAGAAAAAAAGAAAAAGAA
1 AAGAGAG--AAAATA-AAAAAAA-AAAAATAA
*
83363 AA-AGA-AAAA-AGAAAAAAAAAAATAA
1 AAGAGAGAAAATAAAAAAAAAAAAATAA
*
83388 AA-ATA-AAAATAAAAATAAAAAAATATAA
1 AAGAGAGAAAATAAAAA-AAAAAAA-ATAA
* *
83416 AAGAGAGAAAAATAAAATAAAATAAAT
1 AAGAGAG-AAAATAAAAAAAAAAAAAT
83443 TTTTTGAAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
25 15 0.16
26 10 0.11
27 8 0.09
28 10 0.11
29 4 0.04
30 6 0.06
31 15 0.16
32 11 0.12
33 8 0.09
34 7 0.07
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (28 bp):
AAGAGAGAAAATAAAAAAAAAAAAATAA
Found at i:83348 original size:9 final size:8
Alignment explanation
Indices: 83312--83402 Score: 52
Period size: 8 Copynumber: 11.5 Consensus size: 8
83302 ATGAGAAAAT
83312 AAAAAAGA
1 AAAAAAGA
*
83320 AAAGGAAATA
1 AAA--AAAGA
*
83330 AAAGAGAGA
1 AAA-AAAGA
83339 AAAAATAGA
1 AAAAA-AGA
83348 AAAAAAG-
1 AAAAAAGA
83355 -AAAAAG-
1 AAAAAAGA
83361 -AAAAAG-
1 AAAAAAGA
83367 AAAAAAGA
1 AAAAAAGA
83375 AAAAAA-A
1 AAAAAAGA
83382 AAATAAA-A
1 AAA-AAAGA
*
83390 ATAAAAATA
1 A-AAAAAGA
83399 AAAA
1 AAAA
83403 TAAAAAAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
6 12 0.17
7 10 0.14
8 23 0.32
9 19 0.27
10 7 0.10
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAAGA
Found at i:83358 original size:7 final size:7
Alignment explanation
Indices: 83339--83384 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
83329 AAAAGAGAGA
83339 AAAAATAG
1 AAAAA-AG
83347 AAAAAA-
1 AAAAAAG
83353 AGAAAAAG
1 A-AAAAAG
83361 -AAAAAG
1 AAAAAAG
83367 AAAAAAG
1 AAAAAAG
83374 AAAAAA-
1 AAAAAAG
83380 AAAAA
1 AAAAA
83385 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 12 0.34
7 18 0.51
8 5 0.14
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:83359 original size:27 final size:26
Alignment explanation
Indices: 83307--83437 Score: 79
Period size: 27 Copynumber: 4.8 Consensus size: 26
83297 AGAAGATGAG
* *
83307 AAAATAAAAAAGAAAAGGAAATAAAAGA
1 AAAAGAAAAAAGAAAA--AAAAAAAAGA
* *
83335 GAGAA-AAAATAGAAAAAAAGAAAAAGA
1 -AAAAGAAAAAAGAAAAAAA-AAAAAGA
*
83362 AAAAGAAAAAAG-AAAAAAAAAAATA
1 AAAAGAAAAAAGAAAAAAAAAAAAGA
* *
83387 AAAATAAAAATA-AAAATAAAAAAATATA
1 AAAAGAAAAA-AGAAAA-AAAAAAA-AGA
* *
83415 AAAGAGAGAAAAATAAAATAAAA
1 AAA-AGA-AAAAAGAAAAAAAAA
83438 TAAATTTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
25 15 0.18
26 16 0.19
27 19 0.23
28 16 0.19
29 10 0.12
30 8 0.10
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAAAAAAAAGA
Found at i:83402 original size:19 final size:19
Alignment explanation
Indices: 83307--83409 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
83297 AGAAGATGAG
*
83307 AAAATAAAAAAG--AAAAG
1 AAAATAAAAAAGAAAAAAA
* *
83324 GAAATAAAAGAGAGAAAAAA
1 AAAATAAAAAAGA-AAAAAA
* * *
83344 TAGA-AAAAAAGAAAAAGA
1 AAAATAAAAAAGAAAAAAA
*
83362 AAAAGAAAAAAGAAAAAAA
1 AAAATAAAAAAGAAAAAAA
* *
83381 AAAAT-AAAAATAAAAATA
1 AAAATAAAAAAGAAAAAAA
83399 AAAATAAAAAA
1 AAAATAAAAAA
83410 ATATAAAAGA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
17 10 0.15
18 23 0.34
19 29 0.43
20 6 0.09
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (19 bp):
AAAATAAAAAAGAAAAAAA
Found at i:83427 original size:1 final size:1
Alignment explanation
Indices: 83347--83410 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
83337 GAAAAAATAG
* * * * * * * *
83347 AAAAAAAGAAAAAGAAAAAGAAAAAAGAAAAAAAAAAATAAAAATAAAAATAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
83411 TATAAAAGAG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (1 bp):
A
Found at i:83438 original size:47 final size:42
Alignment explanation
Indices: 83338--83441 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 42
83328 TAAAAGAGAG
* *
83338 AAAAAATAGAA-AAAAAGAAAAAGAAAAAGAAAAAAGAAAAA
1 AAAAAATAAAATAAAAAGAAAAAGAAAAAAAAAAAAGAAAAA
* *
83379 AAAAAATAAAAATAAAAATAAAAATAAAAAAATATAAAAGAGAGAAA
1 AAAAAAT-AAAATAAAAAGAAAAAGAAAAAAA-A-AAAAGA-A-AAA
83426 AATAAAATAAAATAAA
1 AA-AAAATAAAATAAA
83442 TTTTTTGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
41 7 0.13
42 3 0.06
43 16 0.31
44 1 0.02
45 6 0.12
46 1 0.02
47 13 0.25
48 5 0.10
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.10
Consensus pattern (42 bp):
AAAAAATAAAATAAAAAGAAAAAGAAAAAAAAAAAAGAAAAA
Found at i:85642 original size:91 final size:91
Alignment explanation
Indices: 85491--85925 Score: 530
Period size: 91 Copynumber: 4.8 Consensus size: 91
85481 TTCCTGTGGG
* * * **
85491 GAGTTCACAATGAGAAGAACTCATCCGACAAGGGAGAAGAAGTTTGTAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
85556 AACCTT-ACATCAATGTTTCCAGTAGA
66 AACCTTGGC-TCAATATTTCCAATGGA
* *
85582 GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGACAAAAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
85647 AACCTTGGCTTAATATTTCCAATGGA
66 AACCTTGGCTCAATATTTCCAATGGA
* * *
85673 GAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAAGTTCATAATGAGAATAAC---TTC
1 GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
85735 AACCTT-GCATCAATATTTCCAGTGGA
66 AACCTTGGC-TCAATATTTCCAATGGA
* * * *
85761 AAGTTCATAAT--G-AGAACTCATCCAATGAGGGAAAAGAAGTTCATAATGAGAAGAACTTGATC
1 GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
85823 AACCTTGGCTCAATATTTCCAATGAA
66 AACCTTGGCTCAATATTTCCAATGGA
***
85849 GAGTT-ATTAATGAGAAGAACTCATCTGTTC-AGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
1 GAGTTCA-TAATGAGAAGAACTCATC-CAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
85912 TCAACATTAGCTCA
64 TCAACCTTGGCTCA
85926 TTTCCATCAC
Statistics
Matches: 297, Mismatches: 36, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
85 39 0.13
86 1 0.00
87 3 0.01
88 65 0.22
89 2 0.01
90 1 0.00
91 185 0.62
92 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (91 bp):
GAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTGGCTCAATATTTCCAATGGA
Found at i:85840 original size:176 final size:177
Alignment explanation
Indices: 85491--85909 Score: 583
Period size: 176 Copynumber: 2.3 Consensus size: 177
85481 TTCCTGTGGG
* **
85491 GAGTTCACAATGAGAAGAACTCATCCGACAAGGGAGAAGAAGTTTGTAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCCGAC-AGGGAGAAGAAGTTCATAATGAGAAGAAC---TTC
* * *
85556 AACCTTACATCAATGTTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAG
62 AACCTTACATCAATATTTCCAGTAGAAAGTTCATAAT-AGAAGAACTCATCCAACGAGGGAAAAG
* * *
85621 AAGTTCATAATGACAAAAACTTGTTCAACCTTGGCTTAATATTTCCAATGGA
126 AAGTTCATAATGACAAAAACTTGATCAACCTTGGCTCAATATTTCCAATGAA
* *
85673 GAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAAAAGTTCATAATGAGAATAACTTCAAC
1 GAGTTCATAATGAGAAGAACTCATCCGAC-AGGGAGAAGAAGTTCATAATGAGAAGAACTTCAAC
* * *
85738 CTTGCATCAATATTTCCAGTGGAAAGTTCATAAT-G-AGAACTCATCCAATGAGGGAAAAGAAGT
65 CTTACATCAATATTTCCAGTAGAAAGTTCATAATAGAAGAACTCATCCAACGAGGGAAAAGAAGT
* *
85801 TCATAATGAGAAGAACTTGATCAACCTTGGCTCAATATTTCCAATGAA
130 TCATAATGACAAAAACTTGATCAACCTTGGCTCAATATTTCCAATGAA
* *
85849 GAGTT-ATTAATGAGAAGAACTCATCTGTTCAGGGAGAAGAAGTTCATAATGAGAAGAACTT
1 GAGTTCA-TAATGAGAAGAACTCATCCG-ACAGGGAGAAGAAGTTCATAATGAGAAGAACTT
85910 GTTCAACATT
Statistics
Matches: 214, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
175 1 0.00
176 122 0.57
177 2 0.01
179 36 0.17
182 53 0.25
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (177 bp):
GAGTTCATAATGAGAAGAACTCATCCGACAGGGAGAAGAAGTTCATAATGAGAAGAACTTCAACC
TTACATCAATATTTCCAGTAGAAAGTTCATAATAGAAGAACTCATCCAACGAGGGAAAAGAAGTT
CATAATGACAAAAACTTGATCAACCTTGGCTCAATATTTCCAATGAA
Found at i:86235 original size:18 final size:16
Alignment explanation
Indices: 86212--86248 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
86202 ATTTTTTTGT
*
86212 TTATTATTA-TATATA
1 TTATTATTATTATAAA
86227 TTATTATTATTATAAA
1 TTATTATTATTATAAA
86243 TTATTA
1 TTATTA
86249 CAAATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTATTATTATAAA
Found at i:87305 original size:6 final size:6
Alignment explanation
Indices: 87294--87349 Score: 94
Period size: 6 Copynumber: 9.3 Consensus size: 6
87284 AGAGTGATTA
* *
87294 TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTA TAGTTG TGGTTG
1 TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG TGGTTG
87342 TGGTTG TG
1 TGGTTG TG
87350 ATTATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.04, C:0.00, G:0.46, T:0.50
Consensus pattern (6 bp):
TGGTTG
Found at i:87359 original size:6 final size:6
Alignment explanation
Indices: 87348--87409 Score: 97
Period size: 6 Copynumber: 10.3 Consensus size: 6
87338 GTTGTGGTTG
* *
87348 TGATTA TAATTA TGATTA TGATTA TGATAA TGATTA TGATTA TGATTA
1 TGATTA TGATTA TGATTA TGATTA TGATTA TGATTA TGATTA TGATTA
*
87396 TGAATA TGATTA TG
1 TGATTA TGATTA TG
87410 GTACATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (6 bp):
TGATTA
Found at i:94952 original size:20 final size:20
Alignment explanation
Indices: 94910--94954 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
94900 AAATTAACAA
* ** *
94910 GAAATAATTGAAAGTAAACT
1 GAAAAAATTGAAAAAAAAAT
94930 GAAAAAATTGAAAAAAAAAT
1 GAAAAAATTGAAAAAAAAAT
94950 GAAAA
1 GAAAA
94955 CGATGATCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.13, T:0.18
Consensus pattern (20 bp):
GAAAAAATTGAAAAAAAAAT
Found at i:95694 original size:3 final size:3
Alignment explanation
Indices: 95686--95720 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
95676 AACGCTTGAA
* *
95686 AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
95721 CAATTCTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:108093 original size:15 final size:14
Alignment explanation
Indices: 108070--108099 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
108060 TTTGTTTCCT
108070 TTTTCTCTTCTTTC
1 TTTTCTCTTCTTTC
108084 TTTTCTTCTTCTTTC
1 TTTTC-TCTTCTTTC
108099 T
1 T
108100 CATCCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTCTCTTCTTTC
Found at i:109370 original size:21 final size:21
Alignment explanation
Indices: 109324--109383 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
109314 ATCGATTCCA
*
109324 GAAAGGGATCGATCCTTTAGAG
1 GAAA-GGATCGATCCTTTAGAC
*
109346 GAAATGATCGATCCTTTCA-AC
1 GAAAGGATCGATCCTTT-AGAC
*
109367 GAAAGGATCGATTCTTT
1 GAAAGGATCGATCCTTT
109384 TCCTCGAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (21 bp):
GAAAGGATCGATCCTTTAGAC
Found at i:110643 original size:60 final size:60
Alignment explanation
Indices: 110568--110692 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
110558 ATAAAGTACA
* *
110568 CAAATGATCCCTCGACTATATG-ATATTACTTTATTAAGTTCATTAACTATTAAAAATTAC
1 CAAATGATCCCTCGACTATA-GAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
* * * * * *
110628 CAAATGATCCTTCGACTATAGAATGTTTCTTTGTTAAGTCCCCTAACTATTAAAAGTTAC
1 CAAATGATCCCTCGACTATAGAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
*
110688 AAAAT
1 CAAAT
110693 AGTCATCTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 54 0.98
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.37
Consensus pattern (60 bp):
CAAATGATCCCTCGACTATAGAATATTACTTTATTAAGTCCACTAACTATTAAAAATTAC
Found at i:112002 original size:32 final size:32
Alignment explanation
Indices: 111948--112009 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
111938 ATGAAAGATA
* *
111948 TTAAAATAATATATAATTAATTCATTTAAATG
1 TTAAAATAATATATAATAAATTCAATTAAATG
* *
111980 TTAAAATGATATCTAATAAATTCAATTAAA
1 TTAAAATAATATATAATAAATTCAATTAAA
112010 GCGTCCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (32 bp):
TTAAAATAATATATAATAAATTCAATTAAATG
Found at i:112842 original size:22 final size:23
Alignment explanation
Indices: 112817--112864 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
112807 ACAACATCTA
* * *
112817 TTAAAA-AACATTCAAGATATTT
1 TTAAAACAACACTCAACAAATTT
112839 TTAAAACAACACTCAACAAATTT
1 TTAAAACAACACTCAACAAATTT
112862 TTA
1 TTA
112865 TGGATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33
Consensus pattern (23 bp):
TTAAAACAACACTCAACAAATTT
Found at i:114523 original size:2 final size:2
Alignment explanation
Indices: 114518--114548 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114508 GAAAAAGGGA
114518 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114549 AAAGGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114586 original size:16 final size:16
Alignment explanation
Indices: 114561--114591 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114551 AGGTTATTTT
114561 AAAAAAGAAATAAAAC
1 AAAAAAGAAATAAAAC
*
114577 AAAAAGGAAATAAAA
1 AAAAAAGAAATAAAA
114592 ATGAAAAAAG
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:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAAGAAATAAAAC
Found at i:116487 original size:84 final size:84
Alignment explanation
Indices: 116256--117146 Score: 1040
Period size: 84 Copynumber: 10.7 Consensus size: 84
116246 TTGAATGTGA
* * * * * *
116256 TCGAACTCGAAGGTC-TTGGTTGACAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
116320 GCCTTGGAGCTGAGTGTAA
66 GCCTTGGAGTTGAGCGTAG
* * * * *
116339 TCGAACTTGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
116403 GCCTTGGAGATGAGTGTAA
66 GCCTTGGAGTTGAGCGTAG
* * * *
116422 TCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
116487 GCCTTTGAGTTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
* * *
116506 TCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
116571 GCCTTGGAGTTGAGCATAG
66 GCCTTGGAGTTGAGCGTAG
* * * * * *
116590 TCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGA-TCTATGTTGCAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT-TATGCTGCAAATGATG
* *
116654 TGCCTTAGAGCTGAGCGTAG
65 TGCCTTGGAGTTGAGCGTAG
* * * ** *
116674 TCAAACTCGAAGGTCTTTGGTTGGTAGATAATTCTTCTAGCCTTGAGTTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
116739 GCCTTGGAGTTGAGC---G
66 GCCTTGGAGTTGAGCGTAG
* * * * ** * * *
116755 TCGAACTCGAAGTTCTTTTGTTCGCAAATAGCGTTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
116820 GCCTTGGAGATGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
* * *
116839 TCGAACTCGAAGGT-TTTTGGTTAGTAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
*
116903 TGCCTTGGAATTGAGCGTAG
65 TGCCTTGGAGTTGAGCGTAG
* * * * * * * * * *
116923 TCGAACTCGAAGGTCATTTGGTGACAGATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* *
116988 GCCTTGGAGCTGAGCATAG
66 GCCTTGGAGTTGAGCGTAG
* * * * * *
117007 TCGAACTTGAAGGTCTTTTGTTGGCAAATATCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
117072 GCCTTGGAGTTGAGCGTAG
66 GCCTTGGAGTTGAGCGTAG
** *
117091 TTAAACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
117147 TAATAGTTTC
Statistics
Matches: 688, Mismatches: 112, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
81 66 0.10
83 98 0.14
84 520 0.76
85 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
GCCTTGGAGTTGAGCGTAG
Found at i:116860 original size:333 final size:333
Alignment explanation
Indices: 116256--117151 Score: 1082
Period size: 333 Copynumber: 2.7 Consensus size: 333
116246 TTGAATGTGA
* * * * * * * *
116256 TCGAACTCGAAGGTC--TTGGTTGACAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATGATA
1 TCGAACTCGAAGGTCATTTGG-TGACAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATA
* * * * *
116319 TGCCTTGGAGCTGAGTGTAATCGAACTTGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTG
65 TGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAATCCTTCTAGCCTTG
* * * *
116383 AGTTATGCTGTAAATGATGTGCCTTGGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCA
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCG---TCGAACTCGAAGGTCTTTTATTCGCA
* * * * *
116448 GATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCTTTGAGTTGAGCGTAGTCGAACT
192 AATAACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGATGAGCGTAGTCGAACT
* * *
116513 TGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGG
257 CGAAGGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGG
*
116578 AGTTGAGCATAG
322 AATTGAGCATAG
* * * *
116590 TCGAACTCGAAGGTC-TTTTGTTAGCAAATAACCCTTCTTGACATGATCTATGTTGCAAATGATG
1 TCGAACTCGAAGGTCATTTGGTGA-CAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATA
* * * * *
116654 TGCCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATAATTCTTCTAGCCTTG
65 TGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAATCCTTCTAGCCTTG
* * *
116719 AGTTATACTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGTTCTTTTGTTCGCAAAT
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGGTCTTTTATTCGCAAAT
* ** * * *
116784 AGCGTTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGATGAGCGTAGTCGAACTCGA
195 AACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGATGAGCGTAGTCGAACTCGA
* * *
116849 AGGTTTTTGGTTAGTAGATAAGCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAAT
260 AGGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAAT
*
116914 TGAGCGTAG
325 TGAGCATAG
* * * * * *
116923 TCGAACTCGAAGGTCATTTGGTGACAGATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATAT
1 TCGAACTCGAAGGTCATTTGGTGACAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATAT
* * * *
116988 GCCTTGGAGCTGAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAAAT-ATCCCTTCTTGCCTTG
66 GCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAAT-CCTTCTAGCCTTG
* * * *
117052 AGCTATGTTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTTAAACTCGAAGGTCTTTTATTGGCA
130 AGTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCG---AACTCGAAGGTCTTTTATTCGCA
* * * *
117117 GATAACCCTTCTAGCCTTGAGTTATGCTGCTAATA
192 AATAACCCTTCTAGCCTTGAGCTATGATGCAAATA
117152 GTTTCTTTAA
Statistics
Matches: 471, Mismatches: 83, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
332 2 0.00
333 281 0.60
334 23 0.05
335 63 0.13
336 102 0.22
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (333 bp):
TCGAACTCGAAGGTCATTTGGTGACAAATAACCCTTCTTGACATGAGCTATGTTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAATCCTTCTAGCCTTGA
GTTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTCGAACTCGAAGGTCTTTTATTCGCAAATA
ACCCTTCTAGCCTTGAGCTATGATGCAAATAATGTGCCTTGGAGATGAGCGTAGTCGAACTCGAA
GGTCTTTGGTTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAATT
GAGCATAG
Found at i:116968 original size:417 final size:417
Alignment explanation
Indices: 116259--117146 Score: 1201
Period size: 417 Copynumber: 2.1 Consensus size: 417
116249 AATGTGATCG
* * *
116259 AACTCGAAGGTC-TTGGTTGACAGATAACTCTTCTCGCCTTGAGTTATGCTGTAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCC
* * * *
116323 TTGGAGCTGAGTGTAATCGAACTTGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTA
66 TTGGAGCTGAGCG--ATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCCTTGAGCTA
* * *
116388 TGCTGTAAATGATGTGCCTTGGAGATGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAA
129 TGCTGCAAATGATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTTATTAGCAGATAA
* * * *
116453 CCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCTTTGAGTTGAGCGTAGTCGAACTTGAAG
194 CCCTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAATTGAGCGTAGTCGAACTCGAAG
* * * * * *
116518 GTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGTTG
259 GTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAACGATATGCCTTGGAGCTG
*
116583 AGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGATCTATGTTGCAA
324 AGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCAA
116648 ATGATGTGCCTTAGAGCTGAGCGTAGTCA
389 ATGATGTGCCTTAGAGCTGAGCGTAGTCA
* * * *
116677 AACTCGAAGGTCTTTGGTTGGTAGATAATTCTTCTAGCCTTGAGTTATACTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCC
* * * * ** *
116742 TTGGAGTTGAGCG-TCGAACTCGAAGTTCTTTTGTTCG-CAAATAGCGTTTCTTGCCTTGAGCTA
66 TTGGAGCTGAGCGATCGAACTCGAAGGTC-TTGGTT-GACAAATAACCCTTCTCGCCTTGAGCTA
* * * *
116805 TGTTGCAAATGATGTGCCTTGGAGATGAGCGTAGTCGAACTCGAAGGT-TTTTGGTTAGTAGATA
129 TGCTGCAAATGATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTT-ATTAGCAGATA
* * *
116869 AGCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAATTGAGCGTAGTCGAACTCGAA
193 ACCCTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAATTGAGCGTAGTCGAACTCGAA
* * * *
116934 GGTCATTTGG-TGACAGATAGCGCTTCTTGCCTTGAGCTATGTTGCAAACGATATGCCTTGGAGC
258 GGTC-TTTGGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAACGATATGCCTTGGAGC
* * * * *
116998 TGAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAAATATCCCTTCTTGCCTTGAGCTATGTTGC
322 TGAGCATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGC
* * *
117063 AAATGATGTGCCTTGGAGTTGAGCGTAGTTA
387 AAATGATGTGCCTTAGAGCTGAGCGTAGTCA
** *
117094 AACTCGAAGGTCTTTTATTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGC
117147 TAATAGTTTC
Statistics
Matches: 408, Mismatches: 57, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
416 17 0.04
417 317 0.78
418 18 0.04
419 56 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (417 bp):
AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCC
TTGGAGCTGAGCGATCGAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCGCCTTGAGCTATG
CTGCAAATGATGTGCCTTGGAGATGAGCGTAATCGAACTCGAAGGTCTTTTATTAGCAGATAACC
CTTCTAGCCTTGAGTTATGATGCAAATAATGTGCCTTGGAATTGAGCGTAGTCGAACTCGAAGGT
CTTTGGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAACGATATGCCTTGGAGCTGAG
CATAGTCGAACTCGAAGGTCTTTTGTTAGCAAATAACCCTTCTTGACATGAGCTATGTTGCAAAT
GATGTGCCTTAGAGCTGAGCGTAGTCA
Found at i:122000 original size:11 final size:11
Alignment explanation
Indices: 121986--122024 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
121976 AAAAATAGAA
*
121986 AATAGTAAAAT
1 AATAATAAAAT
121997 AATAATAAAAT
1 AATAATAAAAT
122008 AATAATAATAAT
1 AATAATAA-AAT
122020 AATAA
1 AATAA
122025 ATAAGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:122002 original size:3 final size:3
Alignment explanation
Indices: 121994--122024 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
121984 AAAATAGTAA
121994 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
122025 ATAAGAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:122081 original size:15 final size:15
Alignment explanation
Indices: 122042--122093 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
122032 GGTTATTTTA
122042 AAAAAGAAAAAG-AAT
1 AAAAA-AAAAAGAAAT
122057 AAATAAAAAAAGAAAT
1 AAA-AAAAAAAGAAAT
*
122073 AAAACAAAAAGGAAAT
1 AAAA-AAAAAAGAAAT
122089 AAAAA
1 AAAAA
122094 TGAAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAAAAAAAGAAAT
Found at i:127025 original size:20 final size:20
Alignment explanation
Indices: 127008--127065 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
126998 TAAAATTATT
*
127008 AGTGGGAATATAAGATTACC
1 AGTGGGAATATAAGATTAAC
*
127028 AGTGAGAATATAAGATTAAC
1 AGTGGGAATATAAGATTAAC
*
127048 AGTGGGAATGTAAGATTA
1 AGTGGGAATATAAGATTA
127066 CCAGAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.05, G:0.26, T:0.26
Consensus pattern (20 bp):
AGTGGGAATATAAGATTAAC
Found at i:129972 original size:23 final size:23
Alignment explanation
Indices: 129941--130000 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
129931 TATGTTCGCA
*
129941 AACACTAAATGAACAAATTCACG
1 AACATTAAATGAACAAATTCACG
* * * *
129964 AACATTAAATAAATATATTCGCG
1 AACATTAAATGAACAAATTCACG
*
129987 AATATTAAATGAAC
1 AACATTAAATGAAC
130001 GAACATGAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (23 bp):
AACATTAAATGAACAAATTCACG
Found at i:130113 original size:72 final size:71
Alignment explanation
Indices: 130000--130259 Score: 376
Period size: 71 Copynumber: 3.6 Consensus size: 71
129990 ATTAAATGAA
* * *
130000 CGAACATGAATACCTTTAAAAATAAATAAATAAAAATGAACACAATATTAAAAATTTAAATAAAT
1 CGAACATGAACACCTTTAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
130065 ACGAAT
66 ACGAAT
* *
130071 CGAACATGAACACCTTCAAAAAATAAATAAATGAACATGAACACAATATTAAAAATTTAAACAAA
1 CGAACATGAACACCTT-TAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAA
*
130136 TACAAAT
65 TACGAAT
* * * * *
130143 CAAACATGAACACCTTCAAAAATAAATAAATGAACATGAACAAAATATTAAAAATTTAAACGAAT
1 CGAACATGAACACCTTTAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
*
130208 ACGAGT
66 ACGAAT
* * *
130214 CGAACATGAACACCTTTAAAAATAAACAAATAAACACGAATACAAT
1 CGAACATGAACACCTTTAAAAATAAATAAATAAACATGAACACAAT
130260 CTTATTTATT
Statistics
Matches: 169, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
71 104 0.62
72 65 0.38
ACGTcount: A:0.58, C:0.14, G:0.07, T:0.22
Consensus pattern (71 bp):
CGAACATGAACACCTTTAAAAATAAATAAATAAACATGAACACAATATTAAAAATTTAAACAAAT
ACGAAT
Found at i:130158 original size:143 final size:142
Alignment explanation
Indices: 130002--130259 Score: 390
Period size: 143 Copynumber: 1.8 Consensus size: 142
129992 TAAATGAACG
* * * *
130002 AACATGAATACCTTTAAAAATAAATAAATAAAAATGAACACAATATTAAAAATTTAAATAAATAC
1 AACATGAACACCTTCAAAAATAAATAAATAAAAATGAACAAAATATTAAAAATTTAAACAAATAC
* * *
130067 GAATCGAACATGAACACCTTCAAAAAATAAATAAATGAACATGAACACAATATTAAAAATTTAAA
66 GAATCGAACATGAACACCTT-AAAAAATAAACAAATAAACACGAACACAATATTAAAAATTTAAA
130132 CAAATACAAATCA
130 CAAATACAAATCA
* * *
130145 AACATGAACACCTTCAAAAATAAATAAATGAACATGAACAAAATATTAAAAATTTAAACGAATAC
1 AACATGAACACCTTCAAAAATAAATAAATAAAAATGAACAAAATATTAAAAATTTAAACAAATAC
* * *
130210 GAGTCGAACATGAACACCTTTAAAAATAAACAAATAAACACGAATACAAT
66 GAATCGAACATGAACACCTTAAAAAATAAACAAATAAACACGAACACAAT
130260 CTTATTTATT
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
142 25 0.25
143 77 0.75
ACGTcount: A:0.58, C:0.14, G:0.06, T:0.22
Consensus pattern (142 bp):
AACATGAACACCTTCAAAAATAAATAAATAAAAATGAACAAAATATTAAAAATTTAAACAAATAC
GAATCGAACATGAACACCTTAAAAAATAAACAAATAAACACGAACACAATATTAAAAATTTAAAC
AAATACAAATCA
Found at i:135363 original size:90 final size:91
Alignment explanation
Indices: 135112--135406 Score: 531
Period size: 90 Copynumber: 3.3 Consensus size: 91
135102 ATGGTTTCCT
135112 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
135177 TGCACTGAAGGTCTTACGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
* *
135203 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTATATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
135268 TGCACTGAAGGTCTTACGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
*
135294 GAAGGACTT-AAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGATCTCATTTGAAAACATCC
1 GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
*
135358 TGCACTGAAGGTCTTATGGATGGCCC
66 TGCACTGAAGGTCTTACGGATGGCCC
*
135384 GAAGGA-TTTAAAAATCAAGAAAC
1 GAAGGACTTAAAAAATCAAGAAAC
135407 TCTTGAAAAT
Statistics
Matches: 198, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
89 2 0.01
90 98 0.49
91 98 0.49
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (91 bp):
GAAGGACTTAAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAAAACATCC
TGCACTGAAGGTCTTACGGATGGCCC
Found at i:135555 original size:43 final size:43
Alignment explanation
Indices: 135494--135831 Score: 255
Period size: 43 Copynumber: 7.3 Consensus size: 43
135484 AAATTTATCT
*
135494 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
**
135537 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTGTCA
1 TCAAGAAACCCCTACATATCACGATGG--TC-C---C---TCA--AGCTTT-TCA
* *
135592 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTTA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* ** * *
135635 TCAAGAAACCCCTACATATCATGATGGTTTCTCAAGCTTGTCC
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* * *
135678 TCAA-AGAACCCTTACATATCATGATGGTCCTTCAAGCTTGTCATCAAATTTTTCA
1 TCAAGA-AACCCCTACATATCACGATGGTCCCTCAA----G----C----TTTTCA
* *
135733 TCAAGGAACCCCTACATATCACGACGGTCCCTCAAGCTTTTCA
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
* * ** *
135776 TTAAGAAACCCCTACATATCACAATGGTTTCTCAAGCTTTTCT
1 TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
*
135819 TCATGAAACCCCT
1 TCAAGAAACCCCT
135832 GAAAATCAGG
Statistics
Matches: 235, Mismatches: 34, Indels: 52
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 146 0.62
44 4 0.02
45 2 0.01
46 4 0.02
47 2 0.01
49 2 0.01
51 2 0.01
52 4 0.02
53 2 0.01
54 4 0.02
55 62 0.26
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (43 bp):
TCAAGAAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCA
Found at i:135614 original size:98 final size:98
Alignment explanation
Indices: 135441--135682 Score: 371
Period size: 98 Copynumber: 2.5 Consensus size: 98
135431 AAATTGTCAC
* ** ** *
135441 CAAGGAACCCCTACATATCACTTTGGTCCCTCAAG--TGTTCATCAAATTTATCTTCAAGGAACC
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTG-TCATCAAATTTATCATCAAGGAACC
135504 CCTACATATCACGATGGTCCCTCAAGCTTTTCAT
65 CCTACATATCACGATGGTCCCTCAAGCTTTTCAT
*
135538 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCC
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCC
*
135603 CTACATATCACGATGGTCCCTCAAGCTTTTTAT
66 CTACATATCACGATGGTCCCTCAAGCTTTTCAT
* *
135636 CAAGAAACCCCTACATATCATGATGGTTTCTCAAGCTTGTCCTCAAA
1 CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAA
135683 GAACCCTTAC
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
97 30 0.23
98 101 0.76
99 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (98 bp):
CAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTGTCATCAAATTTATCATCAAGGAACCC
CTACATATCACGATGGTCCCTCAAGCTTTTCAT
Found at i:135669 original size:141 final size:141
Alignment explanation
Indices: 135494--135831 Score: 500
Period size: 141 Copynumber: 2.4 Consensus size: 141
135484 AAATTTATCT
* **
135494 TCAAGGAACCCCTACATATCACGATGGTCCCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
* *
135559 GATGGT-TTCTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGATGGTCCC
66 GATGGTCCT-TCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACGGTCCC
*
135623 TCAAGCTTTTTA
130 TCAAGCTTTTCA
* * * *
135635 TCAAGAAACCCCTACATATCATGATGGTTTCTCAAGCTTGTCCTCAA-AGAACCCTTACATATCA
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGA-AACCCCTACATATCA
* *
135699 TGATGGTCCTTCAAGCTTGTCATCAAATTTTTCATCAAGGAACCCCTACATATCACGACGGTCCC
65 CGATGGTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACGGTCCC
135764 TCAAGCTTTTCA
130 TCAAGCTTTTCA
* * * *
135776 TTAAGAAACCCCTACATATCACAATGGTTTCTCAAGCTTTTCTTCATGAAACCCCT
1 TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCT
135832 GAAAATCAGG
Statistics
Matches: 175, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
140 1 0.01
141 172 0.98
142 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (141 bp):
TCAAGAAACCCCTACATATCACGATGGTTTCTCAAGCTTTTCATCAAGAAACCCCTACATATCAC
GATGGTCCTTCAAGCTTGTCATCAAATTTGTCATCAAGGAACCCCTACATATCACGACGGTCCCT
CAAGCTTTTCA
Found at i:135962 original size:36 final size:36
Alignment explanation
Indices: 135862--136794 Score: 788
Period size: 36 Copynumber: 25.8 Consensus size: 36
135852 AAAAATATTA
* * * * *
135862 TGTTTCGAGCGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT
* *
135901 TGTTTCAAGTGAAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* ** *
135937 TGTTTGAAGGGAAACCATCTTAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
135973 TATTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
136009 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
136045 TGTTTCAAGGAAAACTGTCGCAAGGGAG-----A-T
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * * *
136075 TGTCTCAAGGGAGACAAAATTTGTTTCAA-GG-G---AAA-C
1 TGTTTCAA-GG-G---AAA-CTGTCTCAAGGGAGACAAAATT
* * *
136111 TGTCTAAAGGGAGACTGTCTCAAGGGAGACAAAAATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC-AAAA--TT
* * * *
136150 CTGTTTCGAGGGAAACTATATTAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
136187 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* **
136223 TGTTTCGAGGGAAACCATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
** * * *
136259 TGTTTTGAGAGAAATTGTCTCAAGGGAGATAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
136295 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
136331 TGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
136367 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC------
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * * * * * ** * *
136397 TGTCTCAATGGAGACAAAATTTTTC-TGTTTCGAGGGAAACTA
1 TGTTTCAA-GG-G--AAACTGTCTCAAG---GGAGACAAAATT
* * * *
136439 T-CTT-AAGGGAGACAAAATTTGTTTCAA-GG-G---AAA-C
1 TGTTTCAA-GG-G---AAA-CTGTCTCAAGGGAGACAAAATT
* * *
136473 TGTCTCAAGGGACACTATCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* * * *
136509 TGTTTCGAGAGAAACTGTCTCAATGGAGAGAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
136545 TGTTTCAAGGGAAA-TCGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACT-GTCTCAAGGGAGACAAAATT
* *
136581 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
136617 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
* *
136653 TGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATC
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
136689 TGTTGCAAGGGAAACTGTCTCAAGGGAGACAAAATTTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA---TT
* * * *
136728 CTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATA
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
136765 TGTTTCAAGGGAAACTGTCTCAAAGGAGAC
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGAC
136795 TGTCTCAAGG
Statistics
Matches: 729, Mismatches: 117, Indels: 99
0.77 0.12 0.10
Matches are distributed among these distances:
30 28 0.04
31 13 0.02
32 3 0.00
33 1 0.00
34 11 0.02
35 16 0.02
36 549 0.75
37 4 0.01
38 1 0.00
39 34 0.05
40 59 0.08
41 4 0.01
42 6 0.01
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:136052 original size:21 final size:21
Alignment explanation
Indices: 135992--136054 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
135982 GGAAACTGTC
135992 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* * *
136013 TC----GAGA-GAAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
136028 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
136049 TCAAGG
1 TCAAGG
136055 AAAACTGTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 4 0.13
19 4 0.13
20 3 0.10
21 11 0.37
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:136081 original size:51 final size:51
Alignment explanation
Indices: 136022--136144 Score: 210
Period size: 51 Copynumber: 2.4 Consensus size: 51
136012 TTCGAGAGAA
*
136022 ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGTCGCAAGGGAG
1 ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGTCGAAAGGGAG
* * *
136073 ATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAG
1 ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGTCGAAAGGGAG
136124 ACTGTCTCAAGGGAGACAAAA
1 ACTGTCTCAAGGGAGACAAAA
136145 ATTTTCTGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (51 bp):
ACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAAACTGTCGAAAGGGAG
Found at i:136138 original size:15 final size:15
Alignment explanation
Indices: 136058--136140 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 15
136048 TTCAAGGAAA
*
136058 ACTGTCGCAAGGGAG
1 ACTGTCTCAAGGGAG
*
136073 ATTGTCTCAAGGGAG
1 ACTGTCTCAAGGGAG
* *
136088 ACAAAATTTGTTTCAAGGGAA
1 AC------TGTCTCAAGGGAG
*
136109 ACTGTCTAAAGGGAG
1 ACTGTCTCAAGGGAG
136124 ACTGTCTCAAGGGAG
1 ACTGTCTCAAGGGAG
136139 AC
1 AC
136141 AAAAATTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
15 40 0.75
21 13 0.25
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.22
Consensus pattern (15 bp):
ACTGTCTCAAGGGAG
Found at i:136287 original size:19 final size:21
Alignment explanation
Indices: 136273--136342 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
136263 TTGAGAGAAA
136273 TTGTCTCAAGGGAGATAAAAT
1 TTGTCTCAAGGGAGATAAAAT
*
136294 TTGTTTCAA-GG-G---AAA-
1 TTGTCTCAAGGGAGATAAAAT
* *
136309 CTGTCTCAAGGGAGACAAAAT
1 TTGTCTCAAGGGAGATAAAAT
*
136330 TTGTTTCAAGGGA
1 TTGTCTCAAGGGA
136343 AACCGTCTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.18
16 5 0.13
17 1 0.03
19 1 0.03
20 5 0.13
21 19 0.50
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (21 bp):
TTGTCTCAAGGGAGATAAAAT
Found at i:136403 original size:271 final size:271
Alignment explanation
Indices: 136076--136924 Score: 1050
Period size: 307 Copynumber: 2.9 Consensus size: 271
136066 AAGGGAGATT
*
136076 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTAAAGGGAGACTGTCTCAAGGGAGAC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTGTCTCAAGGGAGAC
* *
136141 AAAAATTTTCTGTTTCGAGGGAAACTATATTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
66 AAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
* ** ** *
136206 TCAAGGGAGACAAAATTTGTTTCGAGGGAAACCATCTCAAGGGAGACAAAATTTGTTTTGAGAGA
131 TCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
* *
136271 AATTGTCTCAAGGGAGATAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTT
196 AATCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTT
136336 CAAGGGAAACC
261 CAAGGGAAACC
*
136347 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTGTCTCAATGGAGAC
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTGTCTCAAGGGAGAC
136412 AAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
66 AAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAA----C
* *
136477 TCAAGGGACACTATCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAATGGAGAGAAA
127 T-----G------TCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAA
* *
136542 ATTTGTTTCAAGGGAAATCGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGG
181 ATTTGTTTCAAGGGAAATCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGG
*
136607 AGACAAAATTTGTTTCAAGGGAAACT
246 AGACAAAATTTGTTTCAAGGGAAACC
136633 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATCTGTTGCAAG
1 GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA----CT-------G------TC---T-CAAG
*
136698 GGAAACTGTCTCAAGGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAA
45 GGAGACTGTCTCAAGGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAA
*
136763 TATGTTTCAAGGGAAACTGTCTCAAAGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGA
110 TTTGTTTCAA-GG-----G------A--A-ACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGA
*
136828 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTT
160 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATCGTCTCAAGGGAGACAAAATTTGTTT
*
136893 CAAGGGAAACTGTCTCAAGTGAGACAAAATTT
225 CAAGGGAAACTGTCTCAAGGGAGACAAAATTT
136925 TTCTGTTTCG
Statistics
Matches: 501, Mismatches: 26, Indels: 66
0.84 0.04 0.11
Matches are distributed among these distances:
271 121 0.24
275 2 0.00
280 1 0.00
286 164 0.33
290 2 0.00
297 1 0.00
303 2 0.00
306 1 0.00
307 198 0.40
308 2 0.00
313 2 0.00
318 2 0.00
319 1 0.00
321 1 0.00
322 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (271 bp):
GTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACTGTCTCAAGGGAGAC
AAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTC
TCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGA
AATCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTT
CAAGGGAAACC
Found at i:136409 original size:15 final size:15
Alignment explanation
Indices: 136371--136411 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
136361 AAAATTTGTT
*
136371 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
136386 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
*
136401 TCAATGGAGAC
1 TCAAGGGAGAC
136412 AAAATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:136482 original size:15 final size:15
Alignment explanation
Indices: 136462--136499 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
136452 AAAATTTGTT
*
136462 TCAAGGGAAACTGTC
1 TCAAGGGAAACTATC
*
136477 TCAAGGGACACTATC
1 TCAAGGGAAACTATC
136492 TCAAGGGA
1 TCAAGGGA
136500 GACAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (15 bp):
TCAAGGGAAACTATC
Found at i:136492 original size:51 final size:51
Alignment explanation
Indices: 136429--136531 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
136419 TTCTGTTTCG
* *
136429 AGGGAAACTATCTTAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
1 AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
* *
136480 AGGGACACTATCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCA
1 AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
136531 A
1 A
136532 TGGAGAGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (51 bp):
AGGGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCA
Found at i:136500 original size:322 final size:319
Alignment explanation
Indices: 135862--136924 Score: 1389
Period size: 322 Copynumber: 3.3 Consensus size: 319
135852 AAAAATATTA
* * * * * **
135862 TGTTTCGAGCGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGTGAAATTGTCTCAAGGG
1 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAA---TTTGTTTCAAGGGAAACCGTCTCAAGGG
* ** * *
135927 AGACAAAATTTGTTT-GAAGGGAAACCATCTTAAGGGAGACAAAATTTATTTCAAGGGAAACTGT
63 AGACAAAATTTGTTTCG-AGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGT
* * * *
135991 CTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGA
127 CTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGG
* * * *
136056 AAACTGTCGCAAGGGAGATTGTCTCAAGGGAGACAAAA---TT-TGTTTCAAGGGAAACTGTCTA
192 AAACTGTCTCAAGGGAGA-TGTCTCAA-GGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTT
* * * * *
136117 AAGGGAGAC-----TGTCTCAAGGGAGACAAAAATTTTCTGTTTCGAGGGAAACTATATTAAGGG
255 AAGGGAGACAAAATTGTTTCAA-GG-G----AAA----CTGTCTCAAGGGAAACTATCTCAAGGG
136177 AGACAAAATT
310 AGACAAAATT
* * * *
136187 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCGAGGGAAACCATCTCAAGGGAGA
1 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGA
* * *
136252 CAAAATTTGTTTTGAGAGAAATTGTCTCAAGGGAGATAAAATTTGTTTCAAGGGAAACTGTCTCA
66 CAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
136317 AGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
131 AGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
136382 TGTCTCAAGGGAGACTGTCTCAATGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGG
196 TGTCTCAAGGGAGA-TGTCTCAA-GGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGG
*
136447 GAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGACACTATCTCAAGGGAGACAAAATT
259 GAGACAAAA-TTGTTTCAAGGGAAACTGTCTCAAGGGAAACTATCTCAAGGGAGACAAAATT
* * *
136509 TGTTTCGAGAGAAACTGTCTCAATGGAGAGAAAATTTGTTTCAAGGGAAATCGTCTCAAGGGAGA
1 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGA
136574 CAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
66 CAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
* *
136639 AGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATCTGTTGCAAGGGAAAC
131 AGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
136704 TGTCTC-----A-A-G------GGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGA
196 TGTCTCAAGGGAGATGTCTCAAGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGA
* * *
136756 GACAAAATATGTTTCAAGGGAAACTGTCTCAAAGGAGACTGTCTCAAGGGAGACAAAATT
261 GACAAAAT-TGTTTCAAGGGAAACTGTCTCAAGGGAAACTATCTCAAGGGAGACAAAATT
136816 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGA
1 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGA
* * *
136881 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGTGAGACAAAATTT
66 CAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTT
136925 TTCTGTTTCG
Statistics
Matches: 672, Mismatches: 54, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
306 1 0.00
307 201 0.30
314 1 0.00
316 1 0.00
317 1 0.00
322 395 0.59
323 1 0.00
325 31 0.05
326 30 0.04
330 1 0.00
331 2 0.00
332 7 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (319 bp):
TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGA
CAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCA
AGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
TGTCTCAAGGGAGATGTCTCAAGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGA
GACAAAATTGTTTCAAGGGAAACTGTCTCAAGGGAAACTATCTCAAGGGAGACAAAATT
Found at i:136624 original size:21 final size:21
Alignment explanation
Indices: 136564--136664 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 21
136554 GGAAATCGTC
136564 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* * *
136585 TC----GAGA-GAAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
136600 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
136621 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
136636 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
136657 TCAAGGGA
1 TCAAGGGA
136665 AACCGTCTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
15 12 0.21
16 8 0.14
17 5 0.09
19 5 0.09
20 8 0.14
21 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:136796 original size:15 final size:15
Alignment explanation
Indices: 136778--136809 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
136768 TTCAAGGGAA
136778 ACTGTCTCAAAGGAG
1 ACTGTCTCAAAGGAG
*
136793 ACTGTCTCAAGGGAG
1 ACTGTCTCAAAGGAG
136808 AC
1 AC
136810 AAAATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (15 bp):
ACTGTCTCAAAGGAG
Found at i:136840 original size:36 final size:36
Alignment explanation
Indices: 136784--136924 Score: 228
Period size: 36 Copynumber: 3.9 Consensus size: 36
136774 GGAAACTGTC
* *
136784 TCAAAGGAGACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
* *
136820 TCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
136856 TCAAGGGAAACCGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
*
136892 TCAAGGGAAACTGTCTCAAGTGAGACAAAATTT
1 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
136925 TTCTGTTTCG
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (36 bp):
TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTT
Found at i:136856 original size:87 final size:89
Alignment explanation
Indices: 136702--136881 Score: 274
Period size: 87 Copynumber: 2.0 Consensus size: 89
136692 TGCAAGGGAA
* *
136702 ACTGTCTCAAGGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTAAGGGAGACAAAATATG
1 ACTGTCTCAAGGGAGACAAAA--TTTCTGTTTCGAGAGAAACTATCTCAAGGGAGACAAAATATG
*
136767 TTTCAAGGGAAACTGTCTCAAAGGAG
64 TTTCAAGGGAAACCGTCTCAAAGGAG
* *
136793 ACTGTCTCAAGGGAGACAAAA-TT-TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 ACTGTCTCAAGGGAGACAAAATTTCTGTTTCGAGAGAAACTATCTCAAGGGAGACAAAATATGTT
*
136856 TCAAGGGAAACCGTCTCAAGGGAG
66 TCAAGGGAAACCGTCTCAAAGGAG
136880 AC
1 AC
136882 AAAATTTGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
87 60 0.72
88 2 0.02
91 21 0.25
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (89 bp):
ACTGTCTCAAGGGAGACAAAATTTCTGTTTCGAGAGAAACTATCTCAAGGGAGACAAAATATGTT
TCAAGGGAAACCGTCTCAAAGGAG
Found at i:136859 original size:21 final size:21
Alignment explanation
Indices: 136799--136899 Score: 64
Period size: 21 Copynumber: 5.4 Consensus size: 21
136789 GGAGACTGTC
136799 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* * *
136820 TC----GAGA-GAAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
136835 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
** *
136856 TCAA-GG-G---AAA-CCGTC
1 TCAAGGGAGACAAAATTTGTT
136871 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
136892 TCAAGGGA
1 TCAAGGGA
136900 AACTGTCTCA
Statistics
Matches: 56, Mismatches: 12, Indels: 24
0.61 0.13 0.26
Matches are distributed among these distances:
15 11 0.20
16 8 0.14
17 5 0.09
19 5 0.09
20 8 0.14
21 19 0.34
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:136917 original size:123 final size:125
Alignment explanation
Indices: 136669--136910 Score: 371
Period size: 123 Copynumber: 1.9 Consensus size: 125
136659 AAGGGAAACC
*
136669 GTCTCAAGGGAGACAAAATCTGTTGCAAGGGAAACTGTCTCAAGGGAGACAAAATTTTTCTGTTT
1 GTCTCAAGGGAGACAAAATCTGTTGCAAGAGAAACTGTCTCAAGGGAGACAAAA--TTTCTGTTT
* * *
136734 CGAGGGAAACTATCTTAAGGGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAAGGAGACT
64 CAAGGGAAACCATCTCAAGGGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAAGGAGACT
* * *
136796 GTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAA-TT-TGTTTCA
1 GTCTCAAGGGAGACAAAATCTGTTGCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCA
* *
136859 AGGGAAACCGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAA
66 AGGGAAACCATCTCAAGGGAGACAAAATATGTTTCAAGGGAAACTGTCTCAA
136911 GTGAGACAAA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
123 54 0.51
124 2 0.02
127 50 0.47
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (125 bp):
GTCTCAAGGGAGACAAAATCTGTTGCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCA
AGGGAAACCATCTCAAGGGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAAGGAGACT
Found at i:136943 original size:163 final size:161
Alignment explanation
Indices: 136621--136922 Score: 464
Period size: 163 Copynumber: 1.9 Consensus size: 161
136611 AAAATTTGTT
* *
136621 TCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAA
1 TCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACCGTCTCAAGGGAGACAAA
* * *
136686 ATCTGTTGCAAGGGAAACTGTCTCAAGGGAGACAAAATTTTTCTGTTTCGAGGGAAACTATCTTA
66 ATCTGTTGCAAGGGAAACCGTCTCAAGGGAGACAAAA--TTTCTGTTTCAAGGGAAACTATCTCA
136751 AGGGAGACAAAATATGTTTCAAGGGAAACTGTC
129 AGGGAGACAAAATATGTTTCAAGGGAAACTGTC
* * *
136784 TCAAAGGAGACTGTCTCAAGGGAGACAAAATTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAA
1 TCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACCGTCTCAAGGGAGACAAA
* * *
136849 ATTTGTTTCAAGGGAAACCGTCTCAAGGGAGACAAAA-TT-TGTTTCAAGGGAAACTGTCTCAAG
66 ATCTGTTGCAAGGGAAACCGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGAAACTATCTCAAG
*
136912 TGAGACAAAAT
131 GGAGACAAAAT
136923 TTTTCTGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
159 31 0.24
160 2 0.02
163 94 0.74
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (161 bp):
TCAAAGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACCGTCTCAAGGGAGACAAA
ATCTGTTGCAAGGGAAACCGTCTCAAGGGAGACAAAATTTCTGTTTCAAGGGAAACTATCTCAAG
GGAGACAAAATATGTTTCAAGGGAAACTGTC
Found at i:137294 original size:34 final size:34
Alignment explanation
Indices: 137250--137338 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
137240 TATCAGATAA
* **
137250 AAATTATCTCAAGCGAGACGGAATTTATTTTGAG
1 AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
* *
137284 AAATTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
137318 AAATTATCTCAAGTGAGACAA
1 AAATTATCTCAAGTGAGACAA
137339 TTTTTTTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.31
Consensus pattern (34 bp):
AAATTATCTCAAGTGAGACAAAATTTATTTTGAG
Found at i:137529 original size:32 final size:32
Alignment explanation
Indices: 137444--137674 Score: 336
Period size: 32 Copynumber: 7.2 Consensus size: 32
137434 AGGATATTGA
* * * *
137444 ATGCCCCAATATTCGATATTGAATCTCCATAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
137476 ATGCCCCAACATTTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
137509 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
137541 ATGCCCCAATATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * *
137573 ATGCCCTAATATTTGATGTTAAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
137605 ATACCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* * * *
137637 ATACCCCAACATATGATGTTGAATATTCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
137669 ATGCCC
1 ATGCCC
137675 TCTATTGCTT
Statistics
Matches: 183, Mismatches: 15, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
32 154 0.84
33 29 0.16
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:139117 original size:20 final size:20
Alignment explanation
Indices: 139079--139119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
139069 CCAGAATGCT
* *
139079 AGAGGGGAATCGATACCCCC
1 AGAGGGGAACCAATACCCCC
*
139099 AGAGGGGAACCAATTCCCCC
1 AGAGGGGAACCAATACCCCC
139119 A
1 A
139120 TAATGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.27, T:0.10
Consensus pattern (20 bp):
AGAGGGGAACCAATACCCCC
Found at i:139826 original size:103 final size:103
Alignment explanation
Indices: 139601--139818 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
139591 GTAGAGGGTC
*
139601 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGATGAGACACATAC
* *
139666 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATTA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
139704 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGATGAGACACATAC
139769 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
139807 TATGTGGTCCTT
1 TATGTGGTCCTT
139819 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAGGTCTGATGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:139861 original size:23 final size:23
Alignment explanation
Indices: 139835--139886 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
139825 ATTATTATAT
* *
139835 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGAAATTCTAAGC
* *
139858 GGCACTCCGGTGAAATTCTAAGT
1 GGCACTACGGTGAAATTCTAAGC
139881 GGCACT
1 GGCACT
139887 TAGGTGTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGAAATTCTAAGC
Found at i:139892 original size:23 final size:23
Alignment explanation
Indices: 139834--139897 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
139824 CATTATTATA
* *
139834 TGGCAC-TACGGTGCAATTCTATG
1 TGGCACTTA-GGTGAAATTCTAAG
* **
139857 CGGCACTCCGGTGAAATTCTAAG
1 TGGCACTTAGGTGAAATTCTAAG
*
139880 TGGCACTTAGGTGTAATT
1 TGGCACTTAGGTGAAATT
139898 ATACGAGCTG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (23 bp):
TGGCACTTAGGTGAAATTCTAAG
Found at i:145481 original size:10 final size:10
Alignment explanation
Indices: 145466--145493 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
145456 CAGAGTCCTC
145466 TTCTTCTTTA
1 TTCTTCTTTA
145476 TTCTTCTTTA
1 TTCTTCTTTA
145486 TTCTTCTT
1 TTCTTCTT
145494 CATACGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTCTTTA
Found at i:145989 original size:21 final size:21
Alignment explanation
Indices: 145947--145989 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
145937 TTTCTGGGCT
* *
145947 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
145968 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
145989 A
1 A
145990 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:146758 original size:103 final size:103
Alignment explanation
Indices: 146533--146749 Score: 389
Period size: 103 Copynumber: 2.1 Consensus size: 103
146523 GTAGAGGGTC
*
146533 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
*
146598 TTGATCCTTGGTATATGCATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
* *
146636 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
*
146701 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
146739 TATGTGGTCCT
1 TATGTGGTCCT
146750 AATGGACATT
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGATGAGACACATAC
TTGATCCTTGGCATATGCATATGATTCTTAAGGAATGA
Found at i:146800 original size:23 final size:23
Alignment explanation
Indices: 146767--146834 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
146757 ATTATTATAT
146767 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
146790 GGCACTCCGGTGAAATTCTAAGT
1 GGCACTACGGTGCAATTCTACGC
*
146813 GGCACTTA-GGTGCAATTATACG
1 GGCAC-TACGGTGCAATTCTACG
146835 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:147790 original size:11 final size:11
Alignment explanation
Indices: 147774--147825 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
147764 CTTTCTTTGC
147774 TTTTTTCTTTA
1 TTTTTTCTTTA
147785 TTTTTTCTTTA
1 TTTTTTCTTTA
*
147796 TTATCCTTGCTTTA
1 TT-T--TTTCTTTA
*
147810 ATTTTT-TTTA
1 TTTTTTCTTTA
147820 TTTTTT
1 TTTTTT
147826 TCCTCTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 9 0.26
11 15 0.44
12 1 0.03
13 1 0.03
14 8 0.24
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTTCTTTA
Found at i:149035 original size:19 final size:19
Alignment explanation
Indices: 149008--149044 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
148998 AATGAATGTT
*
149008 ATGCAAAATGTAAATGCAG
1 ATGCAAAATGCAAATGCAG
*
149027 ATGCCAAATGCAAATGCA
1 ATGCAAAATGCAAATGCA
149045 AAAGGTGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (19 bp):
ATGCAAAATGCAAATGCAG
Found at i:155459 original size:28 final size:30
Alignment explanation
Indices: 155402--155460 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
155392 AATTATTAAA
*
155402 AAAAACAAAAAATAAAAAAAATAAGCATAT
1 AAAAACAAAAAATAAAAAAAATAAGAATAT
* *
155432 AAAAA-AATAAATAAAAAACA-AAGAATAT
1 AAAAACAAAAAATAAAAAAAATAAGAATAT
155460 A
1 A
155461 GACGACGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 13 0.50
30 5 0.19
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (30 bp):
AAAAACAAAAAATAAAAAAAATAAGAATAT
Found at i:162213 original size:184 final size:184
Alignment explanation
Indices: 161873--162240 Score: 704
Period size: 184 Copynumber: 2.0 Consensus size: 184
161863 TTTTGTTTCC
161873 TAAATGGATGATTTTGATGTGGTTGGGGATTGATTTTATGATGGAGGTCTGGGTGATTCCGATCC
1 TAAATGGATGATTTTGATGTGGTTGGGGATTGATTTTATGATGGAGGTCTGGGTGATTCCGATCC
161938 CCGAATCCAATTGCTTGTTTTATGGGTGAGTATTCTGGTGTGGTGGCCACGACGATTCTACCTCA
66 CCGAATCCAATTGCTTGTTTTATGGGTGAGTATTCTGGTGTGGTGGCCACGACGATTCTACCTCA
162003 TCCCGGGAAGAATATGTTGTCTGCAATTCAGTTCAAGAAAGGGATGAG-AGGGG
131 TCCCGGGAAGAATATGTTGTCTGCAATTCAGTTCAAGAAAGGGATGAGAAGGGG
162056 TAAATGGATGATTTTGATGTGGTCTTGGGGATTGATTTTATGATGGAGGTCTGGGTGATTCCGAT
1 TAAATGGATGATTTTGATGTGG--TTGGGGATTGATTTTATGATGGAGGTCTGGGTGATTCCGAT
162121 CCCCGAATCCAATTGCTTGTTTTAT-GGTGAGTATTCTGGTGTGGTGGCCACGACGATTCTACCT
64 CCCCGAATCCAATTGCTTGTTTTATGGGTGAGTATTCTGGTGTGGTGGCCACGACGATTCTACCT
162185 CATCCCGGGAAGAATATGTTGTCTGCAATTCAGTTCAAGAAAGGGATGAGAAGGGG
129 CATCCCGGGAAGAATATGTTGTCTGCAATTCAGTTCAAGAAAGGGATGAGAAGGGG
162241 AGAAACTTCA
Statistics
Matches: 182, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
183 22 0.12
184 89 0.49
185 71 0.39
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (184 bp):
TAAATGGATGATTTTGATGTGGTTGGGGATTGATTTTATGATGGAGGTCTGGGTGATTCCGATCC
CCGAATCCAATTGCTTGTTTTATGGGTGAGTATTCTGGTGTGGTGGCCACGACGATTCTACCTCA
TCCCGGGAAGAATATGTTGTCTGCAATTCAGTTCAAGAAAGGGATGAGAAGGGG
Found at i:165911 original size:51 final size:51
Alignment explanation
Indices: 165835--165938 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
165825 TAACTAGGTG
165835 AAATCTATGATAGTTTCTACAACAGACATTCGATTAGATCCATAAAAGATT
1 AAATCTATGATAGTTTCTACAACAGACATTCGATTAGATCCATAAAAGATT
165886 AAATCTATGATAGTTTCTACAACAGACATTCGATTAGATCCATAAAAGATT
1 AAATCTATGATAGTTTCTACAACAGACATTCGATTAGATCCATAAAAGATT
165937 AA
1 AA
165939 GGAAACAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (51 bp):
AAATCTATGATAGTTTCTACAACAGACATTCGATTAGATCCATAAAAGATT
Found at i:168365 original size:30 final size:30
Alignment explanation
Indices: 168324--168420 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
168314 ATTACTATTA
*
168324 CTTACTCCCCTAGTCTTTCAAGCTATTACT
1 CTTACTTCCCTAGTCTTTCAAGCTATTACT
*
168354 TTTACTTCCCTAGTCTTTCAAGCTATTACT
1 CTTACTTCCCTAGTCTTTCAAGCTATTACT
168384 CTTACTTCCCTAGTCTTTCAAGCTATTACT
1 CTTACTTCCCTAGTCTTTCAAGCTATTACT
168414 CTTACTT
1 CTTACTT
168421 TTCTTATTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.20, C:0.30, G:0.06, T:0.44
Consensus pattern (30 bp):
CTTACTTCCCTAGTCTTTCAAGCTATTACT
Found at i:169204 original size:68 final size:67
Alignment explanation
Indices: 169123--169432 Score: 221
Period size: 70 Copynumber: 4.5 Consensus size: 67
169113 GATCCTGAAA
* * * ** *
169123 GATTAGACTGACTCATACGGGAACACCTAATCATATTATTCCATGTGACTCGTACGGAAGCCCCG
1 GATTAGAGTGACTCACACGGGAACACCTAATCATATTATTCCAGGTGACTCACATGG-AGCCCCG
169188 AAG
65 AAG
* * * * *
169191 GATTAGAGTGACTCGCACGAGAGA-ACCTAATCATATCACATTCTAGGTGATTCACATGGGAGCC
1 GATTAGAGTGACTCACACGGGA-ACACCTAATCATAT--TATTCCAGGTGACTCACAT-GGAGCC
**
169255 TTGAAG
62 CCGAAG
* * * * *
169261 GATCAGAGTGACTCGCATGGGAGCACCTAAT-AGTATTATTTCAGGTGACTCACATGGAGCCCCG
1 GATTAGAGTGACTCACACGGGAACACCTAATCA-TATTATTCCAGGTGACTCACATGGAGCCCCG
169325 AAG
65 AAG
* * * * * *** * *
169328 GATTAAAATGACTCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTCACGGGAG-CC
1 GATTAGAGTGACTCACACGGGAACACCTAATCATA--TTATTCCAGGTGACTCACA-TGGAGCCC
*
169392 CTAAGG
63 CGAA-G
* * *
169398 GATTATAGTGACTCGCACGGGGACACCTAATCATA
1 GATTAGAGTGACTCACACGGGAACACCTAATCATA
169433 CCTCATTTCA
Statistics
Matches: 189, Mismatches: 42, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
67 37 0.20
68 46 0.24
69 21 0.11
70 83 0.44
71 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (67 bp):
GATTAGAGTGACTCACACGGGAACACCTAATCATATTATTCCAGGTGACTCACATGGAGCCCCGA
AG
Found at i:169272 original size:70 final size:69
Alignment explanation
Indices: 169181--169432 Score: 226
Period size: 70 Copynumber: 3.6 Consensus size: 69
169171 CTCGTACGGA
* *
169181 AGCCCCGAAGGATTAGAGTGACTCGCACGAGAGAACCTAATCATATCACATTCTAGGTGATTCAC
1 AGCCCTGAAGGATTAGAGTGACTCGCACG-GAGAACCTAATCATATCACATTCTAGGTGACTCAC
169246 ATGGG
65 ATGGG
* * * * * *
169251 AGCCTTGAAGGATCAGAGTGACTCGCATGGGAGCACCTAAT-AGTATTA-TTTC-AGGTGACTCA
1 AGCCCTGAAGGATTAGAGTGACTCGCA-CGGAGAACCTAATCA-TATCACATTCTAGGTGACTCA
169313 CAT-GG
64 CATGGG
* * * * * * * * * *
169318 AGCCCCGAAGGATTAAAATGACTCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTC
1 AGCCCTGAAGGATTAGAGTGACTCGCACG-GAGAACCTAATCATATCACATTCTAGGTGACTCAC
*
169383 ACGGG
65 ATGGG
* *
169388 AGCCCT-AAGGGATTATAGTGACTCGCACGGGGACACCTAATCATA
1 AGCCCTGAA-GGATTAGAGTGACTCGCACGGAGA-ACCTAATCATA
169433 CCTCATTTCA
Statistics
Matches: 144, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
66 1 0.01
67 36 0.25
68 15 0.10
69 18 0.12
70 73 0.51
71 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (69 bp):
AGCCCTGAAGGATTAGAGTGACTCGCACGGAGAACCTAATCATATCACATTCTAGGTGACTCACA
TGGG
Found at i:169389 original size:137 final size:138
Alignment explanation
Indices: 169139--169432 Score: 335
Period size: 137 Copynumber: 2.1 Consensus size: 138
169129 ACTGACTCAT
* * ** * *
169139 ACGGGAACACCTAATCATATTATTCCATGTGACTCGTACGGAAGCCCCGAAGGATTAGAGTGACT
1 ACGGGAGCACCTAATCATATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGACT
* * * * * *
169204 CGCACGAGAGAACCTAATCATATCACATTCTAGGTGATTCACATGGGAGCCTTGAA-GGATCAGA
66 CACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCT-AAGGGATCAGA
169268 GTGACTCGC
130 GTGACTCGC
* * *
169277 ATGGGAGCACCTAAT-AGTATTATTTCAGGTGACTCACATGG-AGCCCCGAAGGATTAAAATGAC
1 ACGGGAGCACCTAATCA-TATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGAC
* * * * * * *
169340 TCACACGTGAGCACCTAATCATACCTCATTATGGGTGACTCTCACGGGAGCCCTAAGGGATTATA
65 TCACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCTAAGGGATCAGA
169405 GTGACTCGC
130 GTGACTCGC
169414 ACGGG-GACACCTAATCATA
1 ACGGGAG-CACCTAATCATA
169433 CCTCATTTCA
Statistics
Matches: 129, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
136 3 0.02
137 93 0.72
138 33 0.26
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (138 bp):
ACGGGAGCACCTAATCATATTATTCCAGGTGACTCACACGGAAGCCCCGAAGGATTAAAATGACT
CACACGAGAGAACCTAATCATACCACATTATAGGTGACTCACACGGGAGCCCTAAGGGATCAGAG
TGACTCGC
Found at i:175736 original size:60 final size:60
Alignment explanation
Indices: 175665--175779 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
175655 ACGGCCATAG
*
175665 TTTAGGGATGAAATT-GAA-ATGCTAAAAAATTTAGGGACCAATTTAGAATGAGAATTATAC
1 TTTAGGGATGAAATTAGAATAT--TAAAAAATTTAAGGACCAATTTAGAATGAGAATTATAC
* * * *
175725 TTTAGGTATGAAATTAGAATATTTAAAAGTTTAAGGATCAATTTAGAATGAGAAT
1 TTTAGGGATGAAATTAGAATATTAAAAAATTTAAGGACCAATTTAGAATGAGAAT
175780 CATAACTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 43 0.90
61 3 0.06
62 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.33
Consensus pattern (60 bp):
TTTAGGGATGAAATTAGAATATTAAAAAATTTAAGGACCAATTTAGAATGAGAATTATAC
Found at i:177174 original size:14 final size:15
Alignment explanation
Indices: 177163--177191 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
177153 TTAAATTACT
177163 AATA-AAAGATTAAA
1 AATAGAAAGATTAAA
177177 AATAGAAAGATTAAA
1 AATAGAAAGATTAAA
177192 TTATGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (15 bp):
AATAGAAAGATTAAA
Found at i:179277 original size:20 final size:20
Alignment explanation
Indices: 179254--179355 Score: 64
Period size: 20 Copynumber: 5.0 Consensus size: 20
179244 GTTTCCAGAT
179254 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
** * **
179274 TCGCATTGCGATTTTATAAAA
1 TCGCAACGCGATTTT-GACTA
* * * *
179295 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTTTG-ACTA
*
179315 TCGCAACACGATTCTT-ACTA
1 TCGCAACGCGATT-TTGACTA
*
179335 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
179355 T
1 T
179356 TGTGTTGAGA
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
19 2 0.03
20 43 0.70
21 16 0.26
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:179558 original size:22 final size:22
Alignment explanation
Indices: 179532--179582 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
179522 CTACGGCGAC
*
179532 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
*
179554 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
179576 ATCCGTC
1 ATCCGTC
179583 TATCTCCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:179589 original size:20 final size:21
Alignment explanation
Indices: 179525--179582 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
179515 TCACTCTCTA
*
179525 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGT-CCCATCTC
* *
179547 TGACGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGT-CCCATCTC
179569 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
179583 TATCTCCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.19, C:0.43, G:0.19, T:0.19
Consensus pattern (21 bp):
CGGCGAAATCCGTCCCATCTC
Found at i:179965 original size:14 final size:14
Alignment explanation
Indices: 179931--179957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
179921 GATCGCAACG
179931 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
179945 CGTTGCGATTTTC
1 CGTTGCGATTTTC
179958 ATTTTGCGTT
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:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTCT
Found at i:179969 original size:19 final size:20
Alignment explanation
Indices: 179938--180015 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 20
179928 ACGCGTTGCG
*
179938 ATTTTCTCGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
**
179958 ATTTT-GCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATTTTC
*
179977 ATTTTCGTGTTGCGATTTTC
1 ATTTTCGCGTTGCGATTTTC
*
179997 ATTTTCGTGTTGCGATTTT
1 ATTTTCGCGTTGCGATTTT
180016 AAGTTTCAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.31
20 35 0.69
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATTTTC
Found at i:179990 original size:20 final size:20
Alignment explanation
Indices: 179946--180015 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
179936 CGATTTTCTC
*
179946 GTTGCGATTTTCATTTT-GC
1 GTTGCGATTTTCATTTTCGT
**
179965 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
179985 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
180005 GTTGCGATTTT
1 GTTGCGATTTT
180016 AAGTTTCAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:180022 original size:20 final size:20
Alignment explanation
Indices: 179979--180022 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
179969 CGATAGTCAT
* *
179979 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
179999 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
180019 TTTC
1 TTTC
180023 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Done.