Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015341.1 Corchorus olitorius cultivar O-4 contig15374, 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: 41088
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:741 original size:45 final size:45
Alignment explanation
Indices: 677--798 Score: 244
Period size: 45 Copynumber: 2.7 Consensus size: 45
667 AGGTTGAGAA
677 TCATCTTTAGTCTTTCCCTTTGAATAAGCATTGTACCTTGAAACC
1 TCATCTTTAGTCTTTCCCTTTGAATAAGCATTGTACCTTGAAACC
722 TCATCTTTAGTCTTTCCCTTTGAATAAGCATTGTACCTTGAAACC
1 TCATCTTTAGTCTTTCCCTTTGAATAAGCATTGTACCTTGAAACC
767 TCATCTTTAGTCTTTCCCTTTGAATAAGCATT
1 TCATCTTTAGTCTTTCCCTTTGAATAAGCATT
799 AACCAAAGTC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (45 bp):
TCATCTTTAGTCTTTCCCTTTGAATAAGCATTGTACCTTGAAACC
Found at i:5803 original size:9 final size:8
Alignment explanation
Indices: 5784--5813 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
5774 ATATAGTACG
5784 AAAAAAG-
1 AAAAAAGA
5791 AAAAAAGA
1 AAAAAAGA
5799 AAAAAAGA
1 AAAAAAGA
5807 AAAAAAG
1 AAAAAAG
5814 TCAGAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:9744 original size:2 final size:2
Alignment explanation
Indices: 9739--9765 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9729 TATATATATA
9739 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
9766 ACAAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15202 original size:11 final size:11
Alignment explanation
Indices: 15188--15225 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
15178 ATTCATAACA
15188 AATTTATAATT
1 AATTTATAATT
15199 AATTTATAATT
1 AATTTATAATT
15210 -ATTTGATAATT
1 AATTT-ATAATT
*
15221 TATTT
1 AATTT
15226 TATATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:15387 original size:2 final size:2
Alignment explanation
Indices: 15380--15409 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15370 GTTTAATTTA
15380 AT 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 AT
15410 TTGTCGAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17598 original size:103 final size:103
Alignment explanation
Indices: 17412--17609 Score: 328
Period size: 103 Copynumber: 1.9 Consensus size: 103
17402 CATACTCATA
*
17412 CCATATAGTTGCATATTTAGTAGGACTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
1 CCATATAGTTGCATATTCAGTAGGACTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
17477 TATTCAGTAGAACTCATATAGTTGCATATTTAGTAGGG
66 TATTCAGTAGAACTCATATAGTTGCATATTTAGTAGGG
*
17515 CCATATAGTTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGC
1 CCATATAGTTGCATATTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGC
**
17579 ATATTCAGTAGGGGC-CATATAGTTGCATATT
65 ATATTCAGTA-GAACTCATATAGTTGCATATT
17610 CAGTGGGGGA
Statistics
Matches: 89, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
103 84 0.94
104 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (103 bp):
CCATATAGTTGCATATTCAGTAGGACTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
TATTCAGTAGAACTCATATAGTTGCATATTTAGTAGGG
Found at i:17618 original size:26 final size:26
Alignment explanation
Indices: 17413--17613 Score: 318
Period size: 26 Copynumber: 7.8 Consensus size: 26
17403 ATACTCATAC
* *
17413 CATATAGTTGCATATTTAGTAGGACT
1 CATATAGTTGCATATTCAGTAGGGCT
17439 CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
**
17465 CATATAGTTGCATATTCAGTAGAACT
1 CATATAGTTGCATATTCAGTAGGGCT
*
17491 CATATAGTTGCATATTTAGTAGGGC-
1 CATATAGTTGCATATTCAGTAGGGCT
17516 CATATAGTTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
17542 CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
17568 CATATAGTTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
17594 CATATAGTTGCATATTCAGT
1 CATATAGTTGCATATTCAGT
17614 GGGGGAATTT
Statistics
Matches: 164, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
25 24 0.15
26 136 0.83
27 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (26 bp):
CATATAGTTGCATATTCAGTAGGGCT
Found at i:18034 original size:69 final size:70
Alignment explanation
Indices: 17888--18048 Score: 261
Period size: 69 Copynumber: 2.3 Consensus size: 70
17878 CAGATCTTGG
* *
17888 CCAAGTCCTGTCCAGGACTTGGGCTGTTGAGGAATGCAAAAATACAGGACAAGACCTGGGCAGGA
1 CCAAGTCCTGTCCAGGACTTGTGCTGTTGAGGAACGCAAAAATACAGGACAAGACCTGGGCAGGA
17953 GTTAC
66 GTTAC
* * *
17958 CCAAGTCCTGTCCCGGACTTGTGCTGTTGAGGAGCGC-AAATTACAGGACAAGACCTGGGCAGGA
1 CCAAGTCCTGTCCAGGACTTGTGCTGTTGAGGAACGCAAAAATACAGGACAAGACCTGGGCAGGA
18022 GTTAC
66 GTTAC
*
18027 CCAAGTCCTGTCCAGGAGTTGT
1 CCAAGTCCTGTCCAGGACTTGT
18049 TGCGGGAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
69 51 0.61
70 33 0.39
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (70 bp):
CCAAGTCCTGTCCAGGACTTGTGCTGTTGAGGAACGCAAAAATACAGGACAAGACCTGGGCAGGA
GTTAC
Found at i:19008 original size:26 final size:26
Alignment explanation
Indices: 18974--21676 Score: 3759
Period size: 26 Copynumber: 103.6 Consensus size: 26
18964 TATTGTGATC
18974 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
18999 AGGGGTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19025 AGGGCTCATATAGTTGCTTATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19051 AGGGCTC-TATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19076 AGGG-TCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19101 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
19127 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
19153 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19179 AGGGCTCTCATAGTAGTTGCATATTCAGT
1 AGGG--CTCATA-TAGTTGCATATTCAGT
19208 AGGGCTTTCATAGTAGTTGCATATTCAGT
1 AGGGC--TCATA-TAGTTGCATATTCAGT
*
19237 AGGACTCATAGTAGTTGCATATTCAGT
1 AGGGCTCATA-TAGTTGCATATTCAGT
19264 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19290 AGGGCTCATATAGTTGCATATTTAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19316 AGGGCTCACATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* * *
19342 AGAGCTC-TCATAGTAGCATATTCAGA
1 AGGGCTCAT-ATAGTTGCATATTCAGT
19368 AGGGCTCTCATAGTAGTTGCATATTCAGT
1 AGGG--CTCATA-TAGTTGCATATTCAGT
19397 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19423 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19449 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19474 AGGGGC-CATATAGTTGAATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
19500 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19526 AGGGAC-CATATAGTTGCATATTCAAT
1 AGGG-CTCATATAGTTGCATATTCAGT
*
19552 AGGGCTCATATAGTTGCATATTCAAT
1 AGGGCTCATATAGTTGCATATTCAGT
19578 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19604 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19630 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
19655 AGGGGC-CATATAGTTGAAAATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
19681 AGGACTCATATATTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19707 AGGGCTCCCATAGTAGTTGCATATTCAGT
1 AGGGCT--CATA-TAGTTGCATATTCAGT
*
19736 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19762 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
19788 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19814 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* * *
19839 AGGACTCATATAGATGTATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19865 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
19890 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
19916 AGGACTCATATAGTTCCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19942 AGGGCTCTCATAGTAGTTGCATATTCTGT
1 AGGG--CTCATA-TAGTTGCATATTCAGT
19971 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
19997 AGGGCTCATATAGTTGCATATTTAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20023 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20049 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20074 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20100 ATGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
20126 AGGACTCTCATAGTAGTTGCATATTTAGT
1 AGG--GCTCATA-TAGTTGCATATTCAGT
*
20155 AGGGCTCTCATAGTAGTTGCATATTCAAT
1 AGGG--CTCATA-TAGTTGCATATTCAGT
* *
20184 ATGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
20210 AGGCCTCTTATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20236 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20262 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* **
20287 AGGG-GCAGTATAGCCGCATATTCAGT
1 AGGGCTCA-TATAGTTGCATATTCAGT
*
20313 AGGGCTCATATGGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20339 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20365 AGGGAC-CATATAGTTGCATATTCAGT
1 AGGG-CTCATATAGTTGCATATTCAGT
20391 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
** *
20417 AGCACTCATATAGTTGCATATTCAAT
1 AGGGCTCATATAGTTGCATATTCAGT
20443 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
20468 AGGGGC-CATATAGCTGCATATTTAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
*
20494 GGGGGC-CATATAGCTT-CATATTCAGT
1 -AGGGCTCATATAG-TTGCATATTCAGT
* *
20520 AGGGGC-CATATAGCTGCATATTTAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
*
20546 GGGGGC-CATATAGCTT-CATATTCAGT
1 -AGGGCTCATATAG-TTGCATATTCAGT
20572 AGGGAC-CATATAGTTGCATATTCAGT
1 AGGG-CTCATATAGTTGCATATTCAGT
20598 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
** *
20624 AGCACTCATATAGTTGCATATTCAAT
1 AGGGCTCATATAGTTGCATATTCAGT
20650 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20675 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
*
20701 AGGGC-CATATAGTTGCATAATCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20726 AGGGGC-CATATTGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
20752 AGGGCTCATAAAGTTGCATATTCATT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20778 AGGGGC-CATAAAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
*
20804 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20830 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20856 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
20882 AGGGC-CATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
20907 AGGGGC-GATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
** *
20933 AGAACTCATATAGTTGCATATTCAAT
1 AGGGCTCATATAGTTGCATATTCAGT
* * *
20959 AGGGC-AATATAGTTTGCAGATTTAGT
1 AGGGCTCATATAG-TTGCATATTCAGT
* *
20985 AGGACTCATATAGTTGCATATTCAAT
1 AGGGCTCATATAGTTGCATATTCAGT
21011 AGGGCTCTCATAGTAGTTGCATATTCAGT
1 AGGG--CTCATA-TAGTTGCATATTCAGT
* *
21040 AGGACTTATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21066 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21092 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
21118 AGGACTCATATAGTTGCATATTTAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21144 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
21170 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21196 AGGGCTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21222 AGGGCTCATAGAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21248 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
21274 AGGGGC-CATATAGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
21300 AAGGC-CATATAGTTGCATAATCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21325 AGGGGC-CATATAGGTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
21351 AGGGCTCATATAGTTGCATATTC-GTT
1 AGGGCTCATATAGTTGCATATTCAG-T
*
21377 AGGGGC-CATATTGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
21403 AGGGGTCATATAATTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
**
21429 AGAACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* *
21455 AGGGC-AATATTGTTTGCATATTCAGT
1 AGGGCTCATATAG-TTGCATATTCAGT
*
21481 AGGACTCATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21507 AGGGCTCATCTAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21533 AGGGGC-CATATCGTTGCATATTCAGT
1 A-GGGCTCATATAGTTGCATATTCAGT
* *
21559 AGGGCTCAGATTGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21585 AGGGCTCATATAGTTGCATTTTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
* * *
21611 ATGACTCATATAGTTGCACATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
*
21637 GGGGCT-ATATAGTTGCATATTCAGT
1 AGGGCTCATATAGTTGCATATTCAGT
21662 AGGGCTCATATAGTT
1 AGGGCTCATATAGTT
21677 AGGGGAGAGT
Statistics
Matches: 2425, Mismatches: 174, Indels: 157
0.88 0.06 0.06
Matches are distributed among these distances:
24 2 0.00
25 373 0.15
26 1757 0.72
27 99 0.04
28 32 0.01
29 162 0.07
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (26 bp):
AGGGCTCATATAGTTGCATATTCAGT
Found at i:22371 original size:29 final size:29
Alignment explanation
Indices: 22329--22389 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
22319 AAATCTGTAA
22329 TTGTATAGAATGTGTTCTGTTTCTCTTGT
1 TTGTATAGAATGTGTTCTGTTTCTCTTGT
22358 TTGTATAGAATGTGTTCTGTTTCTCTTGT
1 TTGTATAGAATGTGTTCTGTTTCTCTTGT
22387 TTG
1 TTG
22390 ATAATGTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (29 bp):
TTGTATAGAATGTGTTCTGTTTCTCTTGT
Found at i:22777 original size:26 final size:26
Alignment explanation
Indices: 22739--23082 Score: 513
Period size: 26 Copynumber: 13.2 Consensus size: 26
22729 CTTTCCCCTA
* *
22739 CATATAGTGGCATATTCAGTAGGGAT
1 CATATAGTTGCATATTCAGTAGGGCT
22765 CATATAGTTGCATATTCAGTAGGGAC-
1 CATATAGTTGCATATTCAGTAGGG-CT
22791 CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
*
22817 CATATAGTTGCATATTCAATAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
*
22843 TATATAGTTGCATATTCAGTAGGGC-
1 CATATAGTTGCATATTCAGTAGGGCT
22868 CATATAGTTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
* *
22894 CATATAGTTGCATATTCAGTTGGACT
1 CATATAGTTGCATATTCAGTAGGGCT
22920 CATATAGTTGCATATTCAGTAGGGCTCT
1 CATATAGTTGCATATTCAGTAGGG--CT
22948 CATAGTAGTTGCATATTCAGTAGGGCT
1 CATA-TAGTTGCATATTCAGTAGGGCT
*
22975 CATATAATTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
23001 CATATAGTTGCATATT-AGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
23026 CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
23052 CATATAGTTGCATATTCAGTAGGGC-
1 CATATAGTTGCATATTCAGTAGGGCT
23077 CATATA
1 CATATA
23083 TAGACTTGGC
Statistics
Matches: 296, Mismatches: 12, Indels: 21
0.90 0.04 0.06
Matches are distributed among these distances:
25 59 0.20
26 201 0.68
27 10 0.03
28 6 0.02
29 20 0.07
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (26 bp):
CATATAGTTGCATATTCAGTAGGGCT
Found at i:22905 original size:77 final size:78
Alignment explanation
Indices: 22739--23082 Score: 527
Period size: 77 Copynumber: 4.4 Consensus size: 78
22729 CTTTCCCCTA
* *
22739 CATATAGTGGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
22804 ATTCAGTAGGGCT
66 ATTCAGTAGGGCT
* *
22817 CATATAGTTGCATATTCAATAGGGCTTATATAGTTGCATATTCAGTAGGG-CCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
22881 ATTCAGTAGGGGC-
66 ATTCAGTA-GGGCT
* * *
22894 CATATAGTTGCATATTCAGTTGGACTCATATAGTTGCATATTCAGTAGGGCTCTCATAGTAGTTG
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGG-AC-CATA-TAGTTG
22959 CATATTCAGTAGGGCT
63 CATATTCAGTAGGGCT
* *
22975 CATATAATTGCATATTCAGTAGGGGC-CATATAGTTGCATATT-AGTAGGGGCCATATAGTTGCA
1 CATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCA
23038 TATTCAGTAGGGCT
65 TATTCAGTAGGGCT
23052 CATATAGTTGCATATTCAGTAGGGC-CATATA
1 CATATAGTTGCATATTCAGTAGGGCTCATATA
23083 TAGACTTGGC
Statistics
Matches: 246, Mismatches: 13, Indels: 16
0.89 0.05 0.06
Matches are distributed among these distances:
76 10 0.04
77 110 0.45
78 54 0.22
79 2 0.01
80 15 0.06
81 52 0.21
82 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (78 bp):
CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
ATTCAGTAGGGCT
Found at i:23026 original size:158 final size:155
Alignment explanation
Indices: 22739--23075 Score: 529
Period size: 158 Copynumber: 2.2 Consensus size: 155
22729 CTTTCCCCTA
*
22739 CATATAGTGGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
* *
22804 ATTCAGTAGGGCTCATATAGTTGCATATTCAATAGGGCTTATATAGTTGCATATTCAGTAGGGCC
66 ATTCAGTAGGGCTCATATAATTGCATATTCAATAGGGCTCATATAGTTGCATATTCAGTAGGGCC
22869 ATATAGTTGCATATTCAGTAGGGGC-
131 ATATAGTTGCATATTCAGTA-GGGCT
* *
22894 CATATAGTTGCATATTCAGT-TGGACTCATATAGTTGCATATTCAGTAGGGCTCTCATAGTAGTT
1 CATATAGTTGCATATTCAGTAGGGA-TCATATAGTTGCATATTCAGTAGGG-AC-CATA-TAGTT
*
22958 GCATATTCAGTAGGGCTCATATAATTGCATATTCAGTAGGGGC-CATATAGTTGCATATT-AGTA
62 GCATATTCAGTAGGGCTCATATAATTGCATATTCAATA-GGGCTCATATAGTTGCATATTCAGTA
23021 GGGGCCATATAGTTGCATATTCAGTAGGGCT
126 -GGGCCATATAGTTGCATATTCAGTAGGGCT
23052 CATATAGTTGCATATTCAGTAGGG
1 CATATAGTTGCATATTCAGTAGGG
23076 CCATATATAG
Statistics
Matches: 167, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
154 3 0.02
155 44 0.26
156 1 0.01
157 12 0.07
158 101 0.60
159 6 0.04
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (155 bp):
CATATAGTTGCATATTCAGTAGGGATCATATAGTTGCATATTCAGTAGGGACCATATAGTTGCAT
ATTCAGTAGGGCTCATATAATTGCATATTCAATAGGGCTCATATAGTTGCATATTCAGTAGGGCC
ATATAGTTGCATATTCAGTAGGGCT
Found at i:23740 original size:26 final size:26
Alignment explanation
Indices: 23706--24014 Score: 385
Period size: 26 Copynumber: 11.8 Consensus size: 26
23696 CAGGTCTAGC
23706 CATATAGTTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
23732 CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
* * *
23758 TATATAGATGCTTATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
*
23784 TATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
* * *
23810 TATATAGTTGTATATTCATTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
*
23836 CATATAGTTGCATATTCAGTAGTGC-
1 CATATAGTTGCATATTCAGTAGGGCT
*
23861 CATATAGTTGCATATTTAGTAGGGGC-
1 CATATAGTTGCATATTCAGTA-GGGCT
*
23887 CATATAGTTGCATATTCAGTAGGACT
1 CATATAGTTGCATATTCAGTAGGGCT
**
23913 CATATAGTTTAATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCT
*
23939 -ATATAGCTGCATATTCAGT-GGGACT
1 CATATAGTTGCATATTCAGTAGGG-CT
* *
23964 CATATAGTTGCATATTTATTAGGGCTCT
1 CATATAGTTGCATATTCAGTAGGG--CT
*
23992 CATAGTAGTTGCATATTTAGTAG
1 CATA-TAGTTGCATATTCAGTAG
24015 TTGTATATTC
Statistics
Matches: 249, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
24 3 0.01
25 45 0.18
26 175 0.70
27 3 0.01
28 6 0.02
29 17 0.07
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (26 bp):
CATATAGTTGCATATTCAGTAGGGCT
Found at i:23786 original size:14 final size:14
Alignment explanation
Indices: 23744--23812 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
23734 TATAGTTGCA
23744 TATTCAGTAGGGCT
1 TATTCAGTAGGGCT
*
23758 TA-T-A-TAGATGCT
1 TATTCAGTAG-GGCT
23770 TATTCAGTAGGGCT
1 TATTCAGTAGGGCT
* *
23784 TA-T-A-TAGTTGCA
1 TATTCAGTAG-GGCT
23796 TATTCAGTAGGGCT
1 TATTCAGTAGGGCT
23810 TAT
1 TAT
23813 ATAGTTGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
11 6 0.15
12 11 0.27
13 4 0.10
14 14 0.34
15 6 0.15
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (14 bp):
TATTCAGTAGGGCT
Found at i:23789 original size:52 final size:52
Alignment explanation
Indices: 23706--24128 Score: 493
Period size: 52 Copynumber: 8.3 Consensus size: 52
23696 CAGGTCTAGC
23706 CATATAGTTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTAGGGCT
* * * *
23758 TATATAGATGCTTATTCAGTAGGGCTTATATAGTTGCATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCT
* * * *
23810 TATATAGTTGTATATTCATTAGGGCTCATATAGTTGCATATTCAGTAGTGC-
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCT
* *
23861 CATATAGTTGCATATTTAGTAGGGGC-CATATAGTTGCATATTCAGTAGGACT
1 CATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTAGGGCT
** *
23913 CATATAGTTTAATATTCAGTAGGGCT-ATATAGCTGCATATTCAGT-GGGACT
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGG-CT
* *
23964 CATATAGTTGCATATTTATTAGGGCTCTCATAGTAGTTGCATATT---TA--G--
1 CATATAGTTGCATATTCAGTAGGG--CTCATA-TAGTTGCATATTCAGTAGGGCT
* *
24012 ----TAGTTGTATATTCAGTAGGGCTCATAAAGTTGCATATTCAGTAGGGGC-
1 CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTA-GGGCT
*
24060 CATATAGTTGCATATTCAGTAGAGGCTCATATAGTTACATATTCAGTAGGGCT
1 CATATAGTTGCATATTCAGTAG-GGCTCATATAGTTGCATATTCAGTAGGGCT
24113 CATATAGTTGCATATT
1 CATATAGTTGCATATT
24129 TGCATATTCA
Statistics
Matches: 315, Mismatches: 33, Indels: 45
0.80 0.08 0.11
Matches are distributed among these distances:
41 11 0.03
42 6 0.02
44 19 0.06
47 1 0.00
50 2 0.01
51 89 0.28
52 132 0.42
53 41 0.13
54 3 0.01
55 11 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (52 bp):
CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCT
Found at i:23902 original size:77 final size:77
Alignment explanation
Indices: 23704--24128 Score: 491
Period size: 77 Copynumber: 5.6 Consensus size: 77
23694 GCCAGGTCTA
* *
23704 GCCATATAGTTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGGGCTTATATAGATG
1 GCCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTG
*
23768 CTTATTCAGTAGG
65 CATATTCAGTAGG
* * * *
23781 GCTTATATAGTTGCATATTCAGTAGGGCTTATATAGTTGTATATTCATTAGGGCTCATATAGTTG
1 GC-CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTG
*
23846 CATATTCAGTAGT
65 CATATTCAGTAGG
* * *
23859 GCCATATAGTTGCATATTTAGTAGGGGC-CATATAGTTGCATATTCAGTAGGACTCATATAGTTT
1 GCCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTG
*
23923 AATATTCAGTAGG
65 CATATTCAGTAGG
* * * *
23936 GCTATATAGCTGCATATTCAGT-GGGACTCATATAGTTGCATATTTATTAGGGCTCTCATAGTAG
1 GCCATATAGTTGCATATTCAGTAGGG-CTCATATAGTTGCATATTCAGTAGGG--CTCATA-TAG
24000 TTGCATATT---TA--
62 TTGCATATTCAGTAGG
* *
24011 G-----TAGTTGTATATTCAGTAGGGCTCATAAAGTTGCATATTCAGTAGGGGC-CATATAGTTG
1 GCCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTG
24070 CATATTCAGTAGAG
65 CATATTCAGTAG-G
*
24084 GCTCATATAGTTACATATTCAGTAGGGCTCATATAGTTGCATATT
1 GC-CATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATT
24129 TGCATATTCA
Statistics
Matches: 293, Mismatches: 33, Indels: 42
0.80 0.09 0.11
Matches are distributed among these distances:
67 12 0.04
68 4 0.01
69 1 0.00
70 36 0.12
71 6 0.02
73 1 0.00
75 4 0.01
76 1 0.00
77 109 0.37
78 68 0.23
79 41 0.14
80 10 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (77 bp):
GCCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGC
ATATTCAGTAGG
Found at i:24014 original size:15 final size:15
Alignment explanation
Indices: 23994--24029 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23984 AGGGCTCTCA
23994 TAGTAGTTGCATATT
1 TAGTAGTTGCATATT
*
24009 TAGTAGTTGTATATT
1 TAGTAGTTGCATATT
*
24024 CAGTAG
1 TAGTAG
24030 GGCTCATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (15 bp):
TAGTAGTTGCATATT
Found at i:24031 original size:44 final size:41
Alignment explanation
Indices: 23968--24055 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 41
23958 GGGACTCATA
* * * *
23968 TAGTTGCATATTTATTAGGGCTCTCATAGTAGTTGCATATTTAG
1 TAGTTGCATATTCAGTAGGG--CTCATA-AAGTTGCATATTCAG
*
24012 TAGTTGTATATTCAGTAGGGCTCATAAAGTTGCATATTCAG
1 TAGTTGCATATTCAGTAGGGCTCATAAAGTTGCATATTCAG
24053 TAG
1 TAG
24056 GGGCCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 16 0.41
42 6 0.15
44 17 0.44
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (41 bp):
TAGTTGCATATTCAGTAGGGCTCATAAAGTTGCATATTCAG
Found at i:24049 original size:26 final size:26
Alignment explanation
Indices: 24012--24128 Score: 182
Period size: 26 Copynumber: 4.5 Consensus size: 26
24002 GCATATTTAG
*
24012 TAGTTGTATATTCAGTAGGGCTCATA
1 TAGTTGCATATTCAGTAGGGCTCATA
*
24038 AAGTTGCATATTCAGTAGGGGC-CATA
1 TAGTTGCATATTCAGTA-GGGCTCATA
24064 TAGTTGCATATTCAGTAGAGGCTCATA
1 TAGTTGCATATTCAGTAG-GGCTCATA
*
24091 TAGTTACATATTCAGTAGGGCTCATA
1 TAGTTGCATATTCAGTAGGGCTCATA
24117 TAGTTGCATATT
1 TAGTTGCATATT
24129 TGCATATTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
25 1 0.01
26 57 0.69
27 25 0.30
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (26 bp):
TAGTTGCATATTCAGTAGGGCTCATA
Found at i:24052 original size:121 final size:120
Alignment explanation
Indices: 23891--24129 Score: 331
Period size: 121 Copynumber: 2.0 Consensus size: 120
23881 AGGGGCCATA
* * *
23891 TAGTTGCATATTCAGTAGGACTCATATAGTTTAATATTCAGTA-GGGCTATATAGCTGCATATTC
1 TAGTTGCATATTCAGTAGGACTCATAAAGTTGAATATTCAGTAGGGGCCATATAGCTGCATATTC
* * *
23955 AGT-G-GGACTCATATAGTTGCATATTTATTAGGGCTCTCATAGTAGTTGCATATTTAG
66 AGTAGAGG-CTCATATAGTTACATATTCAGTAGGG--CTCATA-TAGTTGCATATTTAG
* * * *
24012 TAGTTGTATATTCAGTAGGGCTCATAAAGTTGCATATTCAGTAGGGGCCATATAGTTGCATATTC
1 TAGTTGCATATTCAGTAGGACTCATAAAGTTGAATATTCAGTAGGGGCCATATAGCTGCATATTC
24077 AGTAGAGGCTCATATAGTTACATATTCAGTAGGGCTCATATAGTTGCATATTT
66 AGTAGAGGCTCATATAGTTACATATTCAGTAGGGCTCATATAGTTGCATATTT
24130 GCATATTCAG
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
120 13 0.12
121 44 0.42
122 22 0.21
123 24 0.23
124 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (120 bp):
TAGTTGCATATTCAGTAGGACTCATAAAGTTGAATATTCAGTAGGGGCCATATAGCTGCATATTC
AGTAGAGGCTCATATAGTTACATATTCAGTAGGGCTCATATAGTTGCATATTTAG
Found at i:24075 original size:96 final size:93
Alignment explanation
Indices: 23924--24108 Score: 248
Period size: 96 Copynumber: 2.0 Consensus size: 93
23914 ATATAGTTTA
* * *
23924 ATATTCAGTAGGGCTATATAGCTGCATATTCAGTGGGACTCATATAGTTGCATATTTATTAG-GG
1 ATATTCAGTAGGGCTATAAAGCTGCATATTCAGTGGGACTCATATAGTTGCATATTCAGTAGAGG
* *
23988 CTCTCATAGTAGTTGCATATTTAGTAGTTGT
66 --CTCATA-TAGTTACATATTCAGTAGTTGT
* *
24019 ATATTCAGTAGGGCTCATAAAGTTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGA
1 ATATTCAGTAGGGCT-ATAAAGCTGCATATTCAGT-GGGACTCATATAGTTGCATATTCAGTAGA
24083 GGCTCATATAGTTACATATTCAGTAG
64 GGCTCATATAGTTACATATTCAGTAG
24109 GGCTCATATA
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
94 16 0.20
95 21 0.26
96 37 0.46
97 6 0.08
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (93 bp):
ATATTCAGTAGGGCTATAAAGCTGCATATTCAGTGGGACTCATATAGTTGCATATTCAGTAGAGG
CTCATATAGTTACATATTCAGTAGTTGT
Found at i:24088 original size:53 final size:52
Alignment explanation
Indices: 24012--24128 Score: 182
Period size: 53 Copynumber: 2.2 Consensus size: 52
24002 GCATATTTAG
* *
24012 TAGTTGTATATTCAGTAGGGCTCATAAAGTTGCATATTCAGTAGGGGC-CATA
1 TAGTTGCATATTCAGTAGGGCTCATAAAGTTACATATTCAGTA-GGGCTCATA
*
24064 TAGTTGCATATTCAGTAGAGGCTCATATAGTTACATATTCAGTAGGGCTCATA
1 TAGTTGCATATTCAGTAG-GGCTCATAAAGTTACATATTCAGTAGGGCTCATA
24117 TAGTTGCATATT
1 TAGTTGCATATT
24129 TGCATATTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 21 0.35
53 39 0.65
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (52 bp):
TAGTTGCATATTCAGTAGGGCTCATAAAGTTACATATTCAGTAGGGCTCATA
Found at i:24135 original size:34 final size:34
Alignment explanation
Indices: 24097--24163 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
24087 CATATAGTTA
24097 CATATTCAGTA-GGGCTCATATAGTTGCATATTTG
1 CATATTCAGTAGGGGC-CATATAGTTGCATATTTG
* *
24131 CATATTCAGTAGGGGCCATGTAGTTGCTTATTT
1 CATATTCAGTAGGGGCCATATAGTTGCATATTT
24164 AGTATGATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.87
35 4 0.13
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (34 bp):
CATATTCAGTAGGGGCCATATAGTTGCATATTTG
Found at i:24167 original size:26 final size:26
Alignment explanation
Indices: 24128--24195 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
24118 AGTTGCATAT
* *
24128 TTGCATATTCAGTAGGGGCCATGTAG
1 TTGCATATTTAGTAGGGACCATGTAG
* * *
24154 TTGCTTATTTAGTA-TGATCATGTAG
1 TTGCATATTTAGTAGGGACCATGTAG
*
24179 TTGCATAATTAGTAGGG
1 TTGCATATTTAGTAGGG
24196 CATATTGGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.38
Consensus pattern (26 bp):
TTGCATATTTAGTAGGGACCATGTAG
Found at i:24244 original size:25 final size:25
Alignment explanation
Indices: 24206--24356 Score: 158
Period size: 25 Copynumber: 6.0 Consensus size: 25
24196 CATATTGGTA
*
24206 GGGCCATGTGGTTGCATATTCAGTT
1 GGGCCATGTAGTTGCATATTCAGTT
** * *
24231 GGTTCATGTAGTTGAATAATCAGTT
1 GGGCCATGTAGTTGCATATTCAGTT
*
24256 GGGGCCATGTGGTTGCATATTCAGTT
1 -GGGCCATGTAGTTGCATATTCAGTT
** * *
24282 GGTTCATGTAGTTGAATAATCAGTT
1 GGGCCATGTAGTTGCATATTCAGTT
* *
24307 GGGGCCATGTAGTTGCATATCCAGTA
1 -GGGCCATGTAGTTGCATATTCAGTT
* *
24333 GGGCCATGTTGTTGCAGATTCAGT
1 GGGCCATGTAGTTGCATATTCAGT
24357 ACTTGCATAA
Statistics
Matches: 100, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
25 61 0.61
26 39 0.39
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (25 bp):
GGGCCATGTAGTTGCATATTCAGTT
Found at i:24356 original size:51 final size:51
Alignment explanation
Indices: 24206--24331 Score: 234
Period size: 51 Copynumber: 2.5 Consensus size: 51
24196 CATATTGGTA
24206 GGGCCATGTGGTTGCATATTCAGTTGGTTCATGTAGTTGAATAATCAGTTG
1 GGGCCATGTGGTTGCATATTCAGTTGGTTCATGTAGTTGAATAATCAGTTG
24257 GGGCCATGTGGTTGCATATTCAGTTGGTTCATGTAGTTGAATAATCAGTTG
1 GGGCCATGTGGTTGCATATTCAGTTGGTTCATGTAGTTGAATAATCAGTTG
* *
24308 GGGCCATGTAGTTGCATATCCAGT
1 GGGCCATGTGGTTGCATATTCAGT
24332 AGGGCCATGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (51 bp):
GGGCCATGTGGTTGCATATTCAGTTGGTTCATGTAGTTGAATAATCAGTTG
Found at i:24464 original size:25 final size:25
Alignment explanation
Indices: 24359--24473 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
24349 GATTCAGTAC
* **
24359 TTGCATAATCAGTAGCACCATGTAG
1 TTGCATATTCAGTAGGGCCATGTAG
* * *
24384 TTGTATAGTCAGTAGGATCCATGTAG
1 TTGCATATTCAGTAGG-GCCATGTAG
* * *
24410 TTTCATGTTCAGTAGGG-CAAGTTAG
1 TTGCATATTCAGTAGGGCCATG-TAG
*
24435 GTGCATATTCAGTAGGGCCATGTAG
1 TTGCATATTCAGTAGGGCCATGTAG
*
24460 TTGCATATTTAGTA
1 TTGCATATTCAGTA
24474 TGATCAAGTT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
24 3 0.04
25 45 0.63
26 23 0.32
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (25 bp):
TTGCATATTCAGTAGGGCCATGTAG
Found at i:24482 original size:51 final size:49
Alignment explanation
Indices: 24392--24513 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 49
24382 AGTTGTATAG
* * * * *
24392 TCAGTAGGATCCATGTAGTTTCATGTTCAGTAGGGCAAGTTAGGTGCATAT
1 TCAGTAGG-GCCATGTAGTTGCATATTCAGTAGAGCAAGTT-GGTGCATAA
* * * *
24443 TCAGTAGGGCCATGTAGTTGCATATTTAGTATGATCAAGTTGTTGCTTAA
1 TCAGTAGGGCCATGTAGTTGCATATTCAGTA-GAGCAAGTTGGTGCATAA
*
24493 TCAGTAGGGGCCATATAGTTG
1 TCAGTA-GGGCCATGTAGTTG
24514 AGGCCTGTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 31 0.53
51 28 0.47
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.34
Consensus pattern (49 bp):
TCAGTAGGGCCATGTAGTTGCATATTCAGTAGAGCAAGTTGGTGCATAA
Found at i:25476 original size:41 final size:40
Alignment explanation
Indices: 25404--25480 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
25394 CACATGGATG
* * *
25404 GACACTTCCATTATTTGTGCTAAGATTTGCCACACGTGGA
1 GACACTTCCATTATTTGTCCTAAAATCTGCCACACGTGGA
* *
25444 GACACTGTTCATTGTTTGTCCTAAAATCTGCCACACG
1 GACACT-TCCATTATTTGTCCTAAAATCTGCCACACG
25481 CTGGCGACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 6 0.19
41 25 0.81
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (40 bp):
GACACTTCCATTATTTGTCCTAAAATCTGCCACACGTGGA
Found at i:29221 original size:20 final size:20
Alignment explanation
Indices: 29196--29234 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
29186 CATATAAAAT
*
29196 AATAATAACTAATTTTTAAA
1 AATAATAACTAATTATTAAA
29216 AATAATAACTAATTATTAA
1 AATAATAACTAATTATTAA
29235 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATAACTAATTATTAAA
Found at i:34222 original size:332 final size:331
Alignment explanation
Indices: 32716--38318 Score: 4824
Period size: 331 Copynumber: 17.0 Consensus size: 331
32706 CGGGGTCCTG
* * * * *
32716 GAACGCGTTTTTAG-CCAAAACCGTGATGGGTAGTAAACGATTTCGACTAAAATTATGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * * * *
32780 TGACCCGAAAGAGTATT-CCC-CAAATTTTGCCCAAGATACTCATAAAAAATATATAATTCAAAA
66 TGACCCAAAAAAAT-TTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAG
* * * *
32843 CCAAAAAGATTGAAAGGCTAT-TCACGCTTCTAATATCGGGTTTTCTA-TTTTTCCGAATTAA-T
130 CCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATC--ATTTTCTATTTTTTCCGAATTAATT
* * * * * *
32905 TCTTAATTAAATTGAAA-CATGATTAAGATACTCGTAAAAACAAATCCTTAAATCCAGTGTAGAT
192 TC-TAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* *
32969 AAGATTTGGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGA
255 GAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGA
*
33034 GCTGGGGCTCCA
320 GCCGGGGCTCCA
* * * **
33046 GAACGCGTTTTTAGTC-AAAACCGTGATGGTCAGTACATGATTTCGGCAAAAATAATGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * * *
33110 TGACCCAAAAAAATTTCCCCTCAATTTTGGGCCACGATACTTATAATAAATATATAACACAATGC
66 TGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAGC
* * * * * *
33175 C-AAAATGATTG-AGAGGCTTGTCACGCTTCTTACATCAATTTCCTTTTTTCTTTTCCTAATTAG
131 CAAAAAT-ATTGAAG-GGCTTCTCACGCTTCTTATATC-ATTT--TCTATT-TTTTCCGAATTAA
*
33238 TTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
190 TTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * * * * ***
33303 GAGATTTCATTAGTTGAATTTAG-TTATTTCAATGAGACTTGACACCAAAAATGATGCAAAACAA
255 GAGATTTCGTTAGATGAATATAGATT-TTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
* * * *
33367 AGCAGGAGCCCCT
319 AGCCGGGGCTCCA
** * ** * * * *
33380 GAACGCGTTCATAGTCAAAAATCGTGATTTTTAGTACACAATTTCGGCTAAATTTTTTCAAAACT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * *
33445 TTA--CATAAAAAATTTCACCCT-AATTGTTGGCCACA-ATACTCATAAAATATATAAAACTCAA
66 TGACCCA-AAAAAATTTC-CCCTCAATTTTTGGCCA-AGATACTCATAAAAAATATATAACTCAA
* *
33506 AGCCAAAAAGT-TTGAAGGGCTTCTCACGCTTTTTATATCATTTTTCCTATTTTTTCCAAATTAA
128 AGCCAAAAA-TATTGAAGGGCTTCTCACGCTTCTTATATCA-TTTT-CTATTTTTTCCGAATTAA
* * * * * * * * *
33570 TTTCTGATTAATTTGAAACCAAATTGAGATTCTCGT-AAAATAAATCCTTAAATTCATTGTGACT
190 TTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * *** *
33634 GAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGCGTGAAAAATCAGGCAAAA-GAG
255 GAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATG-G
* * *
33698 AGTCGAGG-TCTCG
319 AGCCGGGGCTC-CA
* * * * * * * *
33711 GAATGCGTTTTTTG-CCAAAATCGTGATCGATAGTATACGATTTCGGCTAAAATTTTGTAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * *
33775 TGACCCGAAAAGAATATT--CCTCAATTTTTAGCCACA-ATACTCATAAAAAATATATAATTCAA
66 TGACCC-AAAAAAAT-TTCCCCTCAATTTTTGGCCA-AGATACTCATAAAAAATATATAACTCAA
* * * * * *
33837 AACCAAAAAGATAGAACGGCTAT-TCACGCTTCTAATATCGGGTTTTCTATTTTTTCCGAATTAA
128 AGCCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATC--ATTTTCTATTTTTTCCGAATTAA
* * * * *
33901 TTTTTAATTAAATCGAAA-CATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAGTGTGGG
190 TTTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGC
* * * *
33965 TAAGATTTGGTTAAATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
254 TGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
34030 AGCCGGGGCTCCA
319 AGCCGGGGCTCCA
* * **
34043 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACAGGATTTCGGCAAAAATTACGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* ** * * * *
34108 TGATCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTATGAAGAATATATAACTCAACGC
66 TGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAGC
* * *
34173 CAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTCATATTTTTTCTGAATTAATTTCC
131 CAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCATTTTC-TATTTTTTCCGAATTAATTTCT
*
34238 AATTAAATCGAAACCAGATTGAGATGCTCGTGAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
195 AATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
* * ***
34303 TTCATTAGATGAATATAG-TTATTTCAATGAGACTTGACACCAAAAATCATGCAAAACAAAGCCG
260 TTCGTTAGATGAATATAGATT-TTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGAGCCG
* *
34367 GAGAC-CCT
324 G-GGCTCCA
* ** * *
34375 GACCGCGTTCATAGTTAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTTCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * *
34440 TTA-CCATAAAAATTTCACCCT-AATTTTTGGCCACA-ATACTCATATAAAATATATAACTTAAA
66 TGACCCAAAAAAATTTC-CCCTCAATTTTTGGCCA-AGATACTCATAAAAAATATATAACTCAAA
* * *
34502 GCCATAAAGT-TTGAAGGGCTTCTCACGCTTTTTATATCATTTTTCCTATTTTTTTCCAAATTAA
129 GCCA-AAAATATTGAAGGGCTTCTCACGCTTCTTATATCA-TTTT-CTA-TTTTTTCCGAATTAA
* * * * * * *
34566 TTTCTGATTAATTTGAAACCAAATTGAGATGCTCCT-AAAATAAATCCTTAAA-CTCAATGTGAC
190 TTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATC-CAATGTGGC
* * * *
34629 TGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGTGA-CAAATATCATGCAAAA--
254 TGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGG-CACCAAAAATCATGCAAAATG
* * *
34691 GAG-GGTGGAGGTCTCG
318 GAGCCG-GG-GCTC-CA
* * * *
34707 GAACGCGTTTTTAG-CCAAAATCGTGATGGGTAGTACACGATTTCGGCTAACATTTTGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * * *
34771 T-AACTAGAAAGAGTATT--CCTCAATTTTTGGCCATGATACTCATAAAAAATATATAATTCAAA
66 TGACCCA-AAAAAAT-TTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAA
* * * * * *
34833 ACCAAAAAGATTGAACGGCTAT-TCACGCTTCTAATATCGTGTTTTCTATTTTTTCTGAATTAAT
129 GCCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATC--ATTTTCTATTTTTTCCGAATTAAT
* * * * * * *
34897 TTTTAATTAAATCGAAA-CATGATTCAAATACTCGTAAAAACAAATCCTTAAATCTAGTGTGGGT
191 TTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * * * *
34961 AAGATTTTC-TTAGACGGATATAGATTTTTCAATGAGACTTGACACCAAAAATCATGAAAAATGG
255 GAGA-TTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
*
35025 AGCCGGGGCTCTA
319 AGCCGGGGCTCCA
* *
35038 CAACGCGTTTTTAGTGAAAAACCGTGATGGTTAGTACACGATTTCGG--AAAA---T------AT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
** * * * *
35092 TGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATAATTATAAAGAATATATAACTCAACGC
66 TGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAGC
* * * * * ** *
35157 CAAAAATATTGAAGGACTTCTCATGCTTCTTATAATAAATTCCTATTTTTTTTGAATTAATTTCC
131 CAAAAATATTGAAGGGCTTCTCACGCTTCTTAT-ATCATTTTCTATTTTTTCCGAATTAATTTCT
35222 AATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
195 AATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
* * * **
35287 TTCATTAGATGAATATAG-TTATTTCAATGAGACTTGGCGCC-AAAATCTTGCAAAACAGAGCCG
260 TTCGTTAGATGAATATAGATT-TTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGAGCCG
* *
35350 GAGC-CCT
324 GGGCTCCA
** * * * * *
35357 GAACGCGTTCATAGTTAAAAACCGTGATGGTTAATATACGATATCGGCTAAAATTTTTCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * * * *
35422 TTACCC-AAAAAATTTCATCCT-AATATTTT-GCCTCA-ATCCTCATAAAAATTAAATAAATCAA
66 TGACCCAAAAAAATTTC-CCCTCAAT-TTTTGGCC-AAGATACTCATAAAAAATATATAACTCAA
* * * *
35483 AGCCAAAAATTTTGAAGGGCTTCTCATGCTTTTTATATCATTTTCCTATTTTTTTTTCCAAATTA
128 AGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCATTTT-CTA---TTTTTTCCGAATTA
* * * * * *
35548 ATTTCTAATTAATTCGAAACCACATTGAGATGCTCGTAAAAACAACTTCTTAAATTCAATGTGAC
189 ATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGC
* * * * * * ** * *
35613 TAAAACTTCGTTACATGAATATAGATATTTCAATGACTA-TTGGTGCCAAAAATCTTG-AAAAAG
254 TGAGATTTCGTTAGATGAATATAGATTTTTCAATGA-GACTTGGCACCAAAAATCATGCAAAATG
* *
35676 TGAGTCGGGG-TCCCG
318 -GAGCCGGGGCT-CCA
*
35691 GAACGCGTTTTTAGTC-AAAACAGTGATGG---GTACACGATTTCGGCTAAAATTTTGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
** * *
35752 TGACCCGAAAGAGTAGTT---CTCAATTTTTGGCCAAGATACTCATAAAAAATATATAATTCAAA
66 TGACCC-AAA-AAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAA
* * * * * * * *
35814 ACCAAAAAGATTAAAAGGCTAT-TCACGCATCTAATATCGGTTTTTCTATATTTTCCGAATTAAT
129 GCCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATC--ATTTTCTATTTTTTCCGAATTAAT
* * * * *
35878 TTCTAATTAAATCGAAA-CATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCACTATGGGT
191 TTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCT
* * * * * *
35942 AAGATTTGGTTATA-CAGATATAGATTTTTCAATGAGACTCGGCACCAAAAATAATGCAAAATGG
255 GAGATTTCGTTAGATGA-ATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
36006 AGCCGGGGCTCCA
319 AGCCGGGGCTCCA
* * * * * *
36019 GAAAGCATTTTTAGTTAAAAACCGTAATGGTTAGTACACGATTTCGGCAAAAATTATGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* ** * * *
36084 TGACCAAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTATAAAGAATATATAACTCAACGC
66 TGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAGC
* * * ** * *
36149 CAAAAATATTGAAGGGCTTCTCACGCTTTTTATAACACTTTCCTATTTTTTCTAAATAAATTTCC
131 CAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCA-TTTTCTATTTTTTCCGAATTAATTTCT
36214 AATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
195 AATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
* *
36279 TTCATTAGATGAATATAG-TTATTTCAATGAGACTTGGCACCAAAAATCATGC-AAA---A--CA
260 TTCGTTAGATGAATATAGATT-TTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGAGCCG
**
36337 AAG--CCA
324 GGGCTCCA
* ** ** ** *
36343 GATCGCG----TA---AAAAA-----A---AAAAAAC-CG--T--GATTAAAATTTTTCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
*
36388 TTACCC-AAAAAATTTCACCCT-AATTTTTGGCCACA-ATACTCATAAAAAATATATAACTCAAA
66 TGACCCAAAAAAATTTC-CCCTCAATTTTTGGCCA-AGATACTCATAAAAAATATATAACTCAAA
* * *
36450 GCCAAAAAGT-TTGAAGGGCTTCTCACGCTTTTTATACCATTTTTCCTATTTTTCTCCAAATTAA
129 GCCAAAAA-TATTGAAGGGCTTCTCACGCTTCTTATATCA-TTTT-CTATTTTT-TCCGAATTAA
* * * * * * * **
36514 TTTCTGATTAATTTGAAACCAAATTGAGATGCTCCG--AAAATAAATCCTTCAATTCAATGTAAC
190 TTTCTAATTAAATCGAAACCAGATTGAGATGCT-CGTAAAAACAAATCCTTAAATCCAATGTGGC
** * * * * *
36577 TGAGATTTTATTAGATGAATATAGATATTTCAAAGTGTCTTGGCGCCAAAAATCATGCAAAA-GA
254 TGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATG-
* * * * *
36641 GAGTCGAGGTTTCG
318 GAGCCGGGGCTCCA
* * * * * * * *
36655 GAACGCGTTTTTA-CCCAAAATCATGATGGGTAGTATACGGTTTCGGCTAAAATTTTGCAAAAGT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * *
36719 TGA-CCAGAAAGAGTATT--CCTCAATTTTTGGCCACGATACTCATAAAAAATATATAATTCAAA
66 TGACCCA-AAAAAAT-TTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAA
* * * * * *
36781 ACCAAAAAGATTGAACGGCTAT-TCACGCTTCTAATATCGGGTTTTCTATTTTTTCTGAATTAAT
129 GCCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATC--ATTTTCTATTTTTTCCGAATTAAT
* * * *
36845 TTTTAATTAAATCGAAA-CATGATTCAGATACTCGTAAAAACAAATCCTTAAAT-CAAGTGTGGG
191 TTCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGTGGC
* * * * * * * *
36908 TAAAATTTGGTTAGATGGATATATATTTTTCAATGAGACTTGACATCAAAAATCATGCAAATTGG
254 TGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGG
*
36973 AGCCGGGGTTCCA
319 AGCCGGGGCTCCA
* * * * * * *
36986 GAACGCGTTTTTAGTAAAAAAATCGTGATGGTTAGTACATGATTTCGGCAAAAAGTATGCTAAAA
1 GAACGCGTTTTTAGT-CAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
* * * * * * *
37051 TTGTCCCAAAAAAATTTCCCCTCAATTTTGGGTCAAGATACTTATAAAGAATATATTACTCAACG
65 TTGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAG
* * *
37116 CCAAAAATATTGAAGGGTTTCTCACGCTTCTTATATCAATTTCCTATTTTTTCTGAATTAATTTC
130 CCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATC-ATTTTCTATTTTTTCCGAATTAATTTC
* * *
37181 CAATGAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATATGGCTGAGA
194 TAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGA
* * * ***
37246 TTTCATTAGATGAATATAG-TTCTTTCAACGAGACTTCGCACCAAAAATCATGCAAAAAAAAGCC
259 TTTCGTTAGATGAATATAGATT-TTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGAGCC
* * *
37310 GGAGCCCCT
323 GGGGCTCCA
** * * *
37319 GAACGCGTTCATAGTTAAAAACCTTGATGGTTAGTACACGATTTCGGCTAAAATTTTTCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * *
37384 TTACCC-GATAAATTTCACCCT-AATTTTTGGCCACA-ATACTCATAAAATATATATAACTCAAT
66 TGACCCAAAAAAATTTC-CCCTCAATTTTTGGCCA-AGATACTCATAAAAAATATATAACTCAAA
* * *
37446 GTCAAAAAGT-TTGAAGGGCTTCTCACGCTTTTTATATCATTTTTCTTATTTTTT-CAAATTAAT
129 GCCAAAAA-TATTGAAGGGCTTCTCACGCTTCTTATATCA-TTTTC-TATTTTTTCCGAATTAAT
* * * * * * *
37509 TTCTGATTAATTCGAAACCAAATTGAGATGCTCGT-AAAATAAATCCATAAATTCAATGTGACTG
191 TTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTG
* * * * ** **
37573 AGATTTTGTTAGATCAATATATATATTTCAATGAGTGTTGGCGTCAAAAATCATGCAAAA-GAGA
256 AGATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATG-GA
* * *
37637 GTCGAGGTCTCGA
320 GCCG-GGGCTCCA
* * * * *
37650 -AACGTGTTTTTAGGC-AAAATCGTGACGGGTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
* * * * * * * *
37713 TGACCCGAAAGACTATT--CATCAATTTTTGGCCACGATACTCATAAGAAATATATAATTCAAAA
66 TGACCCAAAAAAAT-TTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAG
* * * *
37776 CCAAAAAGATTGAATGGCTAT-TCACGCTTCTAATATCAGGTTTTCTATTTTTTCCAAATTAATT
130 CCAAAAATATTGAAGGGCT-TCTCACGCTTCTTATATCA--TTTTCTATTTTTTCCGAATTAATT
* * * * * *
37840 TTTAATTAAATCGGAA-CATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAGTGTGGGT-
192 TCTAATTAAATCGAAACCA-GATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTG
* * * * * *
37903 ATGATTTGGTTAGATGGATATTGATTTTTCAATGAGACTTGGTACCAAAAATTATGGAAAATGGA
256 A-GATTTCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGA
37968 GCC-GGGCTCCA
320 GCCGGGGCTCCA
* *
37979 GAACGCGTTTTTAGTCAAAAACCGTGATGATTAGTACACGATTTCGGCTAAAATTCTGCAAAAAT
1 GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
*
38044 TGACCCAAAAAAATTTCCCCTCAA-TTTAGAGCCACA-ATACTTATATATAATATAGAGCCACAA
66 TGACCCAAAAAAATTTCCCCTCAATTTTTG-GCCA-AGATAC------------T-------C-A
* * * * *
38107 TACTTATATAGAATATATAACTCAACGCCAAAAATATTAAAGGGCTTATCACGCTCCTTACATCA
109 TA---A-A-A-AATATATAACTCAAAGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCA
* * * * *
38172 GTTTCCTA-TTTTTCCGAATTAATTTCCAAGTAAATC-AAACCAGATTGGGATGCTCGTAGAAAC
168 -TTTTCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAAC
* * * *
38235 AAATCTTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAG-TTATTTCAAGGAGTCTTG
232 AAATCCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATT-TTTCAATGAGACTTG
***
38299 GTGTCAAAAATCATGCAAAA
296 GCACCAAAAATCATGCAAAA
38319 CTGAGTCATG
Statistics
Matches: 4199, Mismatches: 825, Indels: 473
0.76 0.15 0.09
Matches are distributed among these distances:
303 83 0.02
304 105 0.03
305 40 0.01
306 3 0.00
308 3 0.00
309 3 0.00
310 3 0.00
312 8 0.00
316 2 0.00
317 5 0.00
318 4 0.00
319 41 0.01
320 31 0.01
321 119 0.03
322 69 0.02
323 3 0.00
324 8 0.00
326 4 0.00
327 7 0.00
328 135 0.03
329 234 0.06
330 467 0.11
331 973 0.23
332 851 0.20
333 475 0.11
334 297 0.07
335 53 0.01
336 1 0.00
344 1 0.00
351 1 0.00
352 3 0.00
354 2 0.00
355 86 0.02
356 27 0.01
357 9 0.00
358 43 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (331 bp):
GAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
TGACCCAAAAAAATTTCCCCTCAATTTTTGGCCAAGATACTCATAAAAAATATATAACTCAAAGC
CAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCATTTTCTATTTTTTCCGAATTAATTTCTA
ATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
TCGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGCAAAATGGAGCCGGG
GCTCCA
Found at i:34791 original size:995 final size:993
Alignment explanation
Indices: 32702--38319 Score: 8020
Period size: 995 Copynumber: 5.7 Consensus size: 993
32692 ATATTTCAAT
* * * *
32702 GAGTCGGGGTC-CTGGAACGCGTTTTTAGCCAAAACCGTGATGGGTAGTAAACGATTTCGACTAA
1 GAGTCGAGGTCTC-GGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAA
* * * *
32766 AATTATGCAAAAATTGACCCGAAAGAGTATTCCCCAAATTTTGCCCA-AGATACTCATAAAAAAT
65 AATTTTGCAAAAATTGACCCGAAAGAGTATTCCTCAATTTTTGGCCACA-ATACTCATAAAAAAT
*
32830 ATATAATTCAAAACCAAAAAGATTGAAAGGCTATTCACGCTTCTAATATCGGGTTTTCTA-TTTT
129 ATATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTT
* * *
32894 TCCGAATTAATTCTTAATTAAATTGAAACATGATTAAGATACTCGTAAAAACAAATCCTTAAATC
194 TCCGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATC
* * *
32959 CAGTGTAGATAAGATTTGGTTAGATGAATATAGATTTTTCAATGAGACTTGGCACCAAAAATCAT
259 CAGTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCAT
* * *
33024 GCAAAATGGAGCTGGGGCTCCAGAACGCGTTTTTAGTC-AAAACCGTGATGGTCAGTACATGATT
324 GCAAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATT
* * *
33088 TCGGCAAAAATAATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTTGGGCCACGATACTTA
389 TCGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTA
* * * *
33153 TAATA-AATATATAACACAATGCC-AAAATGATTG-AGAGGCTTGTCACGCTTCTTACATCAATT
454 TAA-AGAATATATAACTCAACGCCAAAAAT-ATTGAAG-GGCTTCTCACGCTTCTTATATCAATT
* *
33215 TCCTTTTTTCTTTTCCT-AATTAGTTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAA
516 TCC--TATT-TTTT-CTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAA
* *
33279 CAAATCCTTAAATCCAATGTGGCTGAGATTTCATTAGTTGAATTTAGTTATTTCAATGAGACTTG
577 CAAATCCTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTG
* * * * * * *
33344 ACACCAAAAATGATGCAAAACAAAGCAGGAGCCCCTGAACGCGTTCATAGTCAAAAATCGTGATT
642 GCACCAAAAATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATG
* * * * * *
33409 TTTAGTACACAATTTCGGCTAAATTTTTTCAAAACTTTACATAAAAAATTTCACCCTAATTGTTG
707 GTTAGTACACGATTTCGGCTAAAATTTTTCAAAAATTTAC-CAAAAAATTTCACCCTAATTTTTG
*
33474 GCCACAATACTCATAAAATATATAAAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTT
771 GCCACAATACTCATAAAA-ATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTT
*
33539 TATATCATTTTTCCTA-TTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATTCT
835 TATATCATTTTTCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCT
*
33603 CGTAAAATAAATCCTTAAATTCATTGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATG
900 CGTAAAATAAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATG
* ** *
33668 AGTCTTGGCGTGAAAAATCAGGCAAAAGA
965 AGTCTTGGTGACAAAAATCATGCAAAAGA
* * * * *
33697 GAGTCGAGGTCTCGGAATGCGTTTTTTGCCAAAATCGTGATCGATAGTATACGATTTCGGCTAAA
1 GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAA
* * *
33762 ATTTTGTAAAAATTGACCCGAAAAGAATATTCCTCAATTTTTAGCCACAATACTCATAAAAAATA
66 ATTTTGCAAAAATTGACCCG-AAAGAGTATTCCTCAATTTTTGGCCACAATACTCATAAAAAATA
*
33827 TATAATTCAAAACCAAAAAGATAGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTT
130 TATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTT
33892 CCGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCC
195 CCGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCC
*
33957 AGTGTGGGTAAGATTTGGTTAAATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATG
260 AGTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATG
*
34022 CAAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACAGGATTT
325 CAAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTT
* *
34087 CGGCAAAAATTACGCAAAAATTGATCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTAT
390 CGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTAT
* *
34152 GAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTCAT
455 AAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTCCT
*
34217 ATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTGAAAACAAATCCT
520 ATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
*
34282 TAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGACACCAAA
585 TAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCAAA
*
34347 AATCATGCAAAACAAAGCCGGAGACCCTGACCGCGTTCATAGTTAAAAACCGTGATGGTTAGTAC
650 AATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAGTAC
34412 ACGATTTCGGCTAAAATTTTTCAAAAATTTACCATAAAAATTTCACCCTAATTTTTGGCCACAAT
715 ACGATTTCGGCTAAAATTTTTCAAAAATTTACCA-AAAAATTTCACCCTAATTTTTGGCCACAAT
* *
34477 ACTCATATAAAATATATAACTTAAAGCCATAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCAT
779 ACTCATA-AAAATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCAT
*
34542 TTTTCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCCTAAAAT
843 TTTTCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCGTAAAAT
*
34607 AAATCCTTAAACTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGG
908 AAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGG
*
34672 TGACAAATATCATGCAAAAGA
973 TGACAAAAATCATGCAAAAGA
* * *
34693 GGGTGGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAC
1 GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAA
* ** **
34758 ATTTTGCAAAAATTAACTAGAAAGAGTATTCCTCAATTTTTGGCCATGATACTCATAAAAAATAT
66 ATTTTGCAAAAATTGACCCGAAAGAGTATTCCTCAATTTTTGGCCACAATACTCATAAAAAATAT
*
34823 ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGTGTTTTCTATTTTTTC
131 ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTTC
* * *
34888 TGAATTAATTTTTAATTAAATCGAAACATGATTCAAATACTCGTAAAAACAAATCCTTAAATCTA
196 CGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
** * * *
34953 GTGTGGGTAAGATTTTCTTAGACGGATATAGATTTTTCAATGAGACTTGACACCAAAAATCATGA
261 GTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGC
* * *
35018 AAAATGGAGCCGGGGCTCTACAACGCGTTTTTAGTGAAAAACCGTGATGGTTAGTACACGATTTC
326 AAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTC
*
35083 GG---AAA--AT------ATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATAATTATA
391 GGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTATA
* * *
35137 AAGAATATATAACTCAACGCCAAAAATATTGAAGGACTTCTCATGCTTCTTATAAT-AAATTCCT
456 AAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTAT-ATCAATTTCCT
*
35201 ATTTTTTTTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
520 ATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
*
35266 TAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCGCC-AA
585 TAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCAAA
* * * *
35330 AATCTTGCAAAACAGAGCCGGAG-CCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAATAT
650 AATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAGTAC
* * *
35394 ACGATATCGGCTAAAATTTTTCAAAAATTTACCCAAAAAATTTCATCCTAATATTTT-GCCTCAA
715 ACGATTTCGGCTAAAATTTTTCAAAAATTTA-CCAAAAAATTTCACCCTAAT-TTTTGGCCACAA
* * * * *
35458 TCCTCATAAAAATTAAATAAATCAAAGCCAAAAATTTTGAAGGGCTTCTCATGCTTTTTATATCA
778 TACTCATAAAAA-TATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCA
* * *
35523 -TTTTCCTATTTTTTTTTCCAAATTAATTTCTAATTAATTCGAAACCACATTGAGATGCTCGTAA
842 TTTTTCCTA--TTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCGTAA
* * * * * *
35587 AA-ACAACTTCTTAAATTCAATGTGACTAAAACTTCGTTACATGAATATAGATATTTCAATGACT
905 AATA-AA-TCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGT
* * * * *
35651 ATTGGTGCCAAAAATCTTGAAAAAGT
968 CTTGGTGACAAAAATCATGCAAAAGA
* * *
35677 GAGTCGGGGTCCCGGAACGCGTTTTTAGTCAAAA-CAGTGAT-GG--GTACACGATTTCGGCTAA
1 GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATC-GTGATGGGTAGTACACGATTTCGGCTAA
35738 AATTTTGCAAAAATTGACCCGAAAGAGTAGTT-CTCAATTTTTGGCCA-AGATACTCATAAAAAA
65 AATTTTGCAAAAATTGACCCGAAAGAGTA-TTCCTCAATTTTTGGCCACA-ATACTCATAAAAAA
* * * * *
35801 TATATAATTCAAAACCAAAAAGATTAAAAGGCTATTCACGCATCTAATATCGGTTTTTCTATATT
128 TATATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTT
*
35866 TTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAAT
193 TTCCGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAAT
* * * ** * *
35931 CCACTATGGGTAAGATTTGGTTATACAGATATAGATTTTTCAATGAGACTCGGCACCAAAAATAA
258 CCAGTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCA
* * * *
35996 TGCAAAATGGAGCCGGGGCTCCAGAAAGCATTTTTAGTTAAAAACCGTAATGGTTAGTACACGAT
323 TGCAAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGAT
*
36061 TTCGGCAAAAATTATGCAAAAATTGACCAAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTT
388 TTCGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTT
* * *
36126 ATAAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTTTTATAACACTTTC
453 ATAAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTC
* *
36191 CTATTTTTTCTAAATAAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATC
518 CTATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATC
36256 CTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCA
583 CTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCA
* **
36321 AAAATCATGCAAAACAAAGCC--AGA---T---CGCG-T-A-A---AAAAA-----A----AAAA
648 AAAATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAGT
**
36363 AC-CG---T-GATTAAAATTTTTCAAAAATTTACCCAAAAAATTTCACCCTAATTTTTGGCCACA
713 ACACGATTTCGGCTAAAATTTTTCAAAAATTTA-CCAAAAAATTTCACCCTAATTTTTGGCCACA
*
36423 ATACTCATAAAAAATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATACC
777 ATACTCAT-AAAAATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATC
*
36488 ATTTTTCCTATTTTTCTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCCG-AA
841 ATTTTTCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCT-CGTAA
* * ** * *
36552 AATAAATCCTTCAATTCAATGTAACTGAGATTTTATTAGATGAATATAGATATTTCAAAGTGTCT
905 AATAAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCT
* *
36617 TGGCGCCAAAAATCATGCAAAAGA
970 TGGTGACAAAAATCATGCAAAAGA
* * * * *
36641 GAGTCGAGGTTTCGGAACGCGTTTTTACCCAAAATCATGATGGGTAGTATACGGTTTCGGCTAAA
1 GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAA
* * *
36706 ATTTTGCAAAAGTTGACCAGAAAGAGTATTCCTCAATTTTTGGCCACGATACTCATAAAAAATAT
66 ATTTTGCAAAAATTGACCCGAAAGAGTATTCCTCAATTTTTGGCCACAATACTCATAAAAAATAT
36771 ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTTC
131 ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTTC
* *
36836 TGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCAA
196 CGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
* * * *
36901 GTGTGGGTAAAATTTGGTTAGATGGATATATATTTTTCAATGAGACTTGACATCAAAAATCATGC
261 GTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGC
* * * * *
36966 AAATTGGAGCCGGGGTTCCAGAACGCGTTTTTAGTAAAAAAATCGTGATGGTTAGTACATGATTT
326 AAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGT-CAAAAACCGTGATGGTTAGTACACGATTT
* * * * *
37031 CGGCAAAAAGTATGCTAAAATTGTCCCAAAAAAATTTCCCCTCAATTTTGGGTCAAGATACTTAT
390 CGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTAT
* *
37096 AAAGAATATATTACTCAACGCCAAAAATATTGAAGGGTTTCTCACGCTTCTTATATCAATTTCCT
455 AAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTCCT
*
37161 ATTTTTTCTGAATTAATTTCCAATGAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
520 ATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCT
* * * *
37226 TAAATCCAATATGGCTGAGATTTCATTAGATGAATATAGTTCTTTCAACGAGACTTCGCACCAAA
585 TAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCAAA
* * *
37291 AATCATGCAAAAAAAAGCCGGAGCCCCTGAACGCGTTCATAGTTAAAAACCTTGATGGTTAGTAC
650 AATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAGTAC
* *
37356 ACGATTTCGGCTAAAATTTTTCAAAAATTTACCCGATAAATTTCACCCTAATTTTTGGCCACAAT
715 ACGATTTCGGCTAAAATTTTTCAAAAATTTA-CCAAAAAATTTCACCCTAATTTTTGGCCACAAT
* *
37421 ACTCATAAAATATATATAACTCAATGTCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCAT
779 ACTCATAAAA-ATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCAT
* *
37486 TTTTCTTA-TTTTTT-CAAATTAATTTCTGATTAATTCGAAACCAAATTGAGATGCTCGTAAAAT
843 TTTTCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCGTAAAAT
* * * * *
37549 AAATCCATAAATTCAATGTGACTGAGATTTTGTTAGATCAATATATATATTTCAATGAGTGTTGG
908 AAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGG
* *
37614 CGTCAAAAATCATGCAAAAGA
973 TGACAAAAATCATGCAAAAGA
* * * *
37635 GAGTCGAGGTCTCGAAACGTGTTTTTAGGCAAAATCGTGACGGGTAGTACACGATTTCGGCTAAA
1 GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAA
* * * *
37700 ATTTTGCAAAAATTGACCCGAAAGACTATTCATCAATTTTTGGCCACGATACTCATAAGAAATAT
66 ATTTTGCAAAAATTGACCCGAAAGAGTATTCCTCAATTTTTGGCCACAATACTCATAAAAAATAT
* *
37765 ATAATTCAAAACCAAAAAGATTGAATGGCTATTCACGCTTCTAATATCAGGTTTTCTATTTTTTC
131 ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTTC
* *
37830 CAAATTAATTTTTAATTAAATCGGAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
196 CGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
* * * * *
37895 GTGTGGGTATGATTTGGTTAGATGGATATTGATTTTTCAATGAGACTTGGTACCAAAAATTATGG
261 GTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGC
*
37960 AAAATGGAGCC-GGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGATTAGTACACGATTTC
326 AAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTC
* * *
38024 GGCTAAAATTCTGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGAGCCACAATACTTATA
391 GGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAG-G--GC----C-----
* *
38089 TATAATATAGAGCCACAATACTTATATAGAATATATAACTCAACGCCAAAAATATTAAAGGGCTT
444 --------A-AG-----ATACTTATAAAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTT
* * * * * *
38154 ATCACGCTCCTTACATCAGTTTCCTA-TTTTTCCGAATTAATTTCCAAGTAAATC-AAACCAGAT
495 CTCACGCTTCTTATATCAATTTCCTATTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGAT
* * *
38217 TGGGATGCTCGTAGAAACAAATCTTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGT
560 TGAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGT
* * ***
38282 TATTTCAAGGAGTCTTGGTGTCAAAAATCATGCAAAAC
625 TATTTCAATGAGACTTGGCACCAAAAATCATGCAAAAC
38320 TGAGTCATGG
Statistics
Matches: 4144, Mismatches: 374, Indels: 189
0.88 0.08 0.04
Matches are distributed among these distances:
964 99 0.02
965 58 0.01
966 105 0.03
967 296 0.07
968 285 0.07
970 4 0.00
971 3 0.00
973 1 0.00
975 1 0.00
976 4 0.00
977 1 0.00
978 1 0.00
979 1 0.00
980 5 0.00
981 323 0.08
982 151 0.04
983 88 0.02
984 332 0.08
985 3 0.00
986 6 0.00
987 1 0.00
989 1 0.00
990 1 0.00
991 6 0.00
992 298 0.07
993 44 0.01
994 430 0.10
995 672 0.16
996 424 0.10
997 166 0.04
998 132 0.03
999 8 0.00
1012 1 0.00
1013 2 0.00
1016 100 0.02
1017 25 0.01
1018 66 0.02
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (993 bp):
GAGTCGAGGTCTCGGAACGCGTTTTTAGCCAAAATCGTGATGGGTAGTACACGATTTCGGCTAAA
ATTTTGCAAAAATTGACCCGAAAGAGTATTCCTCAATTTTTGGCCACAATACTCATAAAAAATAT
ATAATTCAAAACCAAAAAGATTGAACGGCTATTCACGCTTCTAATATCGGGTTTTCTATTTTTTC
CGAATTAATTTTTAATTAAATCGAAACATGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
GTGTGGGTAAGATTTGGTTAGATGGATATAGATTTTTCAATGAGACTTGGCACCAAAAATCATGC
AAAATGGAGCCGGGGCTCCAGAACGCGTTTTTAGTCAAAAACCGTGATGGTTAGTACACGATTTC
GGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTAGGGCCAAGATACTTATA
AAGAATATATAACTCAACGCCAAAAATATTGAAGGGCTTCTCACGCTTCTTATATCAATTTCCTA
TTTTTTCTGAATTAATTTCCAATTAAATCGAAACCAGATTGAGATGCTCGTAAAAACAAATCCTT
AAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGACTTGGCACCAAAA
ATCATGCAAAACAAAGCCGGAGACCCTGAACGCGTTCATAGTTAAAAACCGTGATGGTTAGTACA
CGATTTCGGCTAAAATTTTTCAAAAATTTACCAAAAAATTTCACCCTAATTTTTGGCCACAATAC
TCATAAAAATATATAACTCAAAGCCAAAAAGTTTGAAGGGCTTCTCACGCTTTTTATATCATTTT
TCCTATTTTTTTCCAAATTAATTTCTGATTAATTTGAAACCAAATTGAGATGCTCGTAAAATAAA
TCCTTAAATTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGTGA
CAAAAATCATGCAAAAGA
Found at i:38106 original size:26 final size:26
Alignment explanation
Indices: 38070--38123 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
38060 CCCCTCAATT
*
38070 TAGAGCCACAATACTTATATATAATA
1 TAGAGCCACAATACTTATATAGAATA
38096 TAGAGCCACAATACTTATATAGAATA
1 TAGAGCCACAATACTTATATAGAATA
38122 TA
1 TA
38124 TAACTCAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (26 bp):
TAGAGCCACAATACTTATATAGAATA
Found at i:38845 original size:13 final size:14
Alignment explanation
Indices: 38827--38855 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
38817 AAAATTTTTC
38827 AAAAATTT-ACCCT
1 AAAAATTTCACCCT
38840 AAAAATTTCACCCT
1 AAAAATTTCACCCT
38854 AA
1 AA
38856 TTTTTGGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTTCACCCT
Found at i:39205 original size:331 final size:328
Alignment explanation
Indices: 38476--40227 Score: 1783
Period size: 331 Copynumber: 5.3 Consensus size: 328
38466 AGTCGGGCCC
* * *
38476 CGATTTCGGCTAAAATTTTGCAAAAATTTACACAAAAGAATTTTCCACAATTTTTGGCCACGATA
1 CGATTTCGGCTAAAATTTTGCAAAAATTGACCCAAAAG-A-TTTCCTCAATTTTTGGCCACGATA
** ** * * ** * * * *
38541 CTCATAAAAAATATATATTTTAACTCCAAAAAGATTGAAAGATTTTTCACGCTTATAATATTATT
64 CTCATAAAAAATATATAACTTAAAGCCAAAAA-TTTGAAGGGCTTCTCACGCTTCTTATATCATT
* * *
38606 TTTCCTA--TTTTCCGAATTAATTTTTAATTAAATTGAAA-TATGATTTAGATGCTCGTAAAAAC
128 TTTCCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCA-GATTGAGATGCTCGTAAAAAC
* * *
38668 AAATCGTTAAATCCAATGTGGCTGAGATTTCGCTAGATGAATATAGTTATTTCAATGAGTCTT-G
192 AAATCCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGG
* * * ** *
38732 CCACCAAAAATCATACAAAACAGAGCCGGA-GCCCCTGAATGCGTTCATAGTTAAAAACCGTGAT
257 CCA-CAAAAATCATGCAAAAGAG-GCCGGAGGTCCCTGAATGCGTTTTTAG-CAAAAACCGTGAT
38796 GGTTAGTACA
319 GGTTAGTACA
* * * *
38806 CGATTTCGGCTAAAATTTTTCAAAAATTTACCCTAAAA-ATTTCACCCTAATTTTTGGCCACAAT
1 CGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AAAAGATTTC-CTC-AATTTTTGGCCACGAT
*
38870 ACTCATAAAAAATATATAACTTAAAGCCATAAAATTTGAAGGGCTTCTCACGCTTTTTATATCAT
63 ACTCATAAAAAATATATAACTTAAAGCCA-AAAATTTGAAGGGCTTCTCACGCTTCTTATATCAT
* * * *
38935 TTTTCCTATTTTTTCCAAATTAATTTCTAATTAATTTGAAACCAAATTGAGATGCTCGT-AAAAT
127 TTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCAGATTGAGATGCTCGTAAAAAC
* * *
38999 AAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATAAATATAGATATTTCAATGAGTCTTGG
192 AAATCCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGG
* ** * * * *
39064 CGACAAAAATCATGCAAAAGAGGGTGGAGGTCTCTGAATGCGTTTTTAGCCAAAATCGTGACCGG
257 CCACAAAAATCATGCAAAAGAGGCCGGAGGTCCCTGAATGCGTTTTTAGCAAAAACCGTGA-TGG
39129 -TAGTACA
321 TTAGTACA
*
39136 CGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAGAGTATTCCTCAATTTTTAGCCACGAT
1 CGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AAAAGA-T-TTCCTCAATTTTTGGCCACGAT
* * * * *
39201 ACTCATAAAAAATATATAA-TTCAAAACCAAAAAGATTGAACGACTAT-TCACGCTTCTAATATC
63 ACTCATAAAAAATATATAACTT-AAAGCCAAAAA-TTTGAAGGGCT-TCTCACGCTTCTTATATC
** * ** * * *
39264 GGGTTTT-CTATTTTTTCCGAATTACTTTAAAATTAAATAGAAA-CATGATTCAGATACTCGTAA
125 -ATTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCA-GATTGAGATGCTCGTAA
* * * * * *
39327 AAACAAATCCTTAAATCCAGTGTGGGTAAGATTT-GATTAGATGGATATAGATTTTTCAATGAGA
188 AAACAAATCCTTAAATCCAATGTGGCTGAGATTTCG-TTAGATGAATATAGATATTTCAATGAGT
* * * ** *
39391 CTTGG-CACCATAAATCATGCAAAATG-GAGCCAGG-GAT-CCAGAAAACATTTTTAGGCAAAAA
252 CTTGGCCA-CAAAAATCATGCAAAA-GAG-GCC-GGAGGTCCCTGAATGCGTTTTTA-GCAAAAA
*
39452 CCGTGATGGTAAGTACA
312 CCGTGATGGTTAGTACA
* * * * *
39469 CGATTTCGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTCCCCTCAATTTTGGGCCAAGAT
1 CGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AAAAGATTT--CCTCAATTTTTGGCCACGAT
* * * * * * *
39534 ACTTATGAAGAATATATAAGTCAACG-CAAGAAATATTGAAGGGCTTCTCATGCTTCTTATATCA
63 ACTCATAAAAAATATATAACTTAAAGCCAA-AAAT-TTGAAGGGCTTCTCACGCTTCTTATATCA
* * * *
39598 -ATTTCCTATTTTTTCTGAATTAATTTCCAATTAAATAGAAACCAGATTGAGATGCTCGTAAAAA
126 TTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCAGATTGAGATGCTCGTAAAAA
* * *
39662 CAAATCGTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTATTTCAATGAGTCTT-
191 CAAATCCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTG
* * * * * ** *
39726 GCCACCAAAATCATGCAAAACAAAGCCGGA-GACCCTGAACGCGTTCATAGTTAAAAACCGTGAT
256 GCCACAAAAATCATGCAAAA-GAGGCCGGAGGTCCCTGAATGCGTTTTTAG-CAAAAACCGTGAT
39790 GGTTAGTACA
319 GGTTAGTACA
* * * *
39800 CGATTTCGGCTAAAATTTTTCAAAAATTTA-CCATAAAAATTTCACTCTAATTTTTGGCCAC-AA
1 CGATTTCGGCTAAAATTTTGCAAAAATTGACCCA-AAAGATTTC-CTC-AATTTTTGGCCACGAT
* * *
39863 AATCATAAAAAATATATAACTTAAAGCCATAAAATTTGAAGGGCTTCTCACGCTTTTTGTATCAT
63 ACTCATAAAAAATATATAACTTAAAGCCA-AAAATTTGAAGGGCTTCTCACGCTTCTTATATCAT
* * * * * *
39928 TTTTCCTATTTTTTTCAAATTAATTTCTAATTAATTTGAAACCAAATTGAGATGCTCAT-AAAAT
127 TTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCAGATTGAGATGCTCGTAAAAAC
*
39992 AAATCCTTAAA-CTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTG
192 AAATCCTTAAATC-CAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTG
* * ** * * * * * *
40056 ACGACAAAAATCATGCAAAAGAGGGTGGAGGTCTCGGAAGGCGTTTTTAGCCAAAATCGTGACGG
256 GCCACAAAAATCATGCAAAAGAGGCCGGAGGTCCCTGAATGCGTTTTTAGCAAAAACCGTGATGG
*
40121 ATAGTACA
321 TTAGTACA
* *
40129 CGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAAGAGTATTCCTCAATTTTTAGCCACGAT
1 CGATTTCGGCTAAAATTTTGCAAAAATTGAC-CCAAAAGA-T-TTCCTCAATTTTTGGCCACGAT
*
40194 ACTCATAAAAAAATATATAA-TTCAAAACCAAAAA
63 ACTCAT-AAAAAATATATAACTT-AAAGCCAAAAA
40228 GATTGAACGA
Statistics
Matches: 1170, Mismatches: 196, Indels: 111
0.79 0.13 0.08
Matches are distributed among these distances:
328 6 0.01
329 165 0.14
330 292 0.25
331 309 0.26
332 272 0.23
333 123 0.11
334 3 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (328 bp):
CGATTTCGGCTAAAATTTTGCAAAAATTGACCCAAAAGATTTCCTCAATTTTTGGCCACGATACT
CATAAAAAATATATAACTTAAAGCCAAAAATTTGAAGGGCTTCTCACGCTTCTTATATCATTTTT
CCTATTTTTTCCGAATTAATTTCTAATTAAATTGAAACCAGATTGAGATGCTCGTAAAAACAAAT
CCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCTTGGCCAC
AAAAATCATGCAAAAGAGGCCGGAGGTCCCTGAATGCGTTTTTAGCAAAAACCGTGATGGTTAGT
ACA
Found at i:39943 original size:663 final size:658
Alignment explanation
Indices: 38476--40075 Score: 1802
Period size: 663 Copynumber: 2.4 Consensus size: 658
38466 AGTCGGGCCC
* *
38476 CGATTTCGGCTAAAATTTTGCAAAAATTTACACAAAAGAATTTTCCACAATTTTTGGCCACGATA
1 CGATTTCGGCTAAAATTTTGCAAAAATTTAC-CAAAA-AAGTTTCCTCAATTTTTGGCCACGATA
* ** * *
38541 CTCATAAAAAATATATATTTTAACTCCAAAAAGATTGAAAGATTTTTCACGCTTATAATATTATT
64 CTCATAAAAAATATATA-ATTAAAACCAAAAAGATTGAAAGA-CTTTCACGCTTATAATATCATT
* * *
38606 TTTCCTA--TTTTCCGAATTAATTTTTAATTAAATTGAAATATGATTTAGATGCTCGTAAAAACA
127 TTTCCTATTTTTTCCGAATTAATTTATAATTAAATTGAAACATGATTCAGATGCTCGTAAAAACA
* * *
38669 AATCGTTAAATCCAATGTGGCTGAGATTTCGCTAGATGAATATAG-TTATTTCAATGAGTCTTGC
192 AATCCTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATT-TTTCAATGAGTCTTGA
* * * ** * **
38733 CACCAAAAATCATACAAAACAGAGCCGGAGCCCCTGAATGCGTTCATAGTTAAAAACCGTGATGG
256 CACCAAAAATCATGCAAAACAGAGCCGGAGACCCAGAAAACATTCATAGGCAAAAACCGTGATGG
* * * * * * *
38798 TTAGTACACGATTTCGGCTAAAATTTTTCAAAAATTTACCCTAAAAATTTCACCCTAATTTTTGG
321 TAAGTACACGATTTCGGCAAAAATTATGCAAAAATTGACCCAAAAAATTTCACCCTAATTTTGGG
* *
38863 CCACAATACTCATAAAAAATATATAACTTAAAGCCATAAAATTTGAAGGGCTTCTCACGCTTTTT
386 CCACAATACTCATAAAAAATATATAACTCAAAGCCATAAAATTTGAAGGGCTTCTCACGCTTCTT
* * * *
38928 ATATCATTTTTCCTATTTTTTCCAAATTAATTTCTAATTAATTTGAAACCAAATTGAGATGCTCG
451 ATATCATATTTCCTATTTTTTCCAAATTAATTTCCAATTAAATAGAAACCAAATTGAGATGCTCG
* * *
38993 TAAAATAAATCCTTAAATTCAATGTGACTGAGATTTCGTTAGATAAATATAGATATTTCAATGAG
516 TAAAACAAATCCTTAAATCCAATGTGACTGAGATTTCATTAGATAAATATAGATATTTCAATGAG
* * * ** * * * ** * *
39058 TCTTGGCGACAAAAATCATGCAAAAGAGGGTGGAGGTCTCTGAATGCGTTTTTAGCCAAAATCGT
581 TCTTGGCCACAAAAATCATGCAAAAAAAGCCGGAGGACCCTGAACGCGTTCATAGCAAAAACCGT
39123 GACCGGTAGTACA
646 GACCGGTAGTACA
* * *
39136 CGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAGAGTATTCCTCAATTTTTAGCCACGAT
1 CGATTTCGGCTAAAATTTTGCAAAAATTTA-CC-AAAAAAGT-TTCCTCAATTTTTGGCCACGAT
* * *
39201 ACTCATAAAAAATATATAATTCAAAACCAAAAAGATTGAACGACTATTCACGCTTCTAATATCGG
63 ACTCATAAAAAATATATAATT-AAAACCAAAAAGATTGAAAGACT-TTCACGCTTATAATATC-A
* * * * *
39266 GTTTT-CTATTTTTTCCGAATTACTTTAAAATTAAATAGAAACATGATTCAGATACTCGTAAAAA
125 TTTTTCCTATTTTTTCCGAATTAATTTATAATTAAATTGAAACATGATTCAGATGCTCGTAAAAA
* * * * *
39330 CAAATCCTTAAATCCAGTGTGGGTAAGATTT-GATTAGATGGATATAGATTTTTCAATGAGACTT
190 CAAATCCTTAAATCCAATGTGGCTGAGATTTCG-TTAGATGAATATAGATTTTTCAATGAGTCTT
* * ** * **
39394 GGCACCATAAATCATGCAAAATGGAGCCAGG-GATCCAGAAAACATTTTTAGGCAAAAACCGTGA
254 GACACCAAAAATCATGCAAAACAGAGCC-GGAGACCCAGAAAACATTCATAGGCAAAAACCGTGA
39458 TGGTAAGTACACGATTTCGGCAAAAATTATGCAAAAATTGACCCAAAAAAATTTC-CCCTCAATT
318 TGGTAAGTACACGATTTCGGCAAAAATTATGCAAAAATTGACCC-AAAAAATTTCACCCT-AATT
* * * * *
39522 TTGGGCCA-AGATACTTATGAAGAATATATAAGTCAACG-CA-AGAAATATTGAAGGGCTTCTCA
381 TTGGGCCACA-ATACTCATAAAAAATATATAACTCAAAGCCATA-AAAT-TTGAAGGGCTTCTCA
* ** *
39584 TGCTTCTTATATCA-ATTTCCTATTTTTTCTGAATTAATTTCCAATTAAATAGAAACCAGATTGA
443 CGCTTCTTATATCATATTTCCTATTTTTTCCAAATTAATTTCCAATTAAATAGAAACCAAATTGA
* * * *
39648 GATGCTCGTAAAAACAAATCGTTAAATCCAATGTGGCTGAGATTTCATTAGATGAATATAGTTAT
508 GATGCTCGT-AAAACAAATCCTTAAATCCAATGTGACTGAGATTTCATTAGATAAATATAGATAT
*
39713 TTCAATGAGTCTT-GCCACCAAAATCATGCAAAACAAAGCCGGA-GACCCTGAACGCGTTCATAG
572 TTCAATGAGTCTTGGCCACAAAAATCATGCAAAA-AAAGCCGGAGGACCCTGAACGCGTTCATAG
* *
39776 TTAAAAACCGTGA-TGGTTAGTACA
636 -CAAAAACCGTGACCGG-TAGTACA
* *
39800 CGATTTCGGCTAAAATTTTTCAAAAATTTACCATAAAAA-TTTCACTCTAATTTTTGGCCAC-AA
1 CGATTTCGGCTAAAATTTTGCAAAAATTTACCA-AAAAAGTTTC-CTC-AATTTTTGGCCACGAT
* * * * * * **
39863 AATCATAAAAAATATATAACTTAAAGCCATAAAA-TTTGAAGGGCTTCTCACGCTTTTTGTATCA
63 ACTCATAAAAAATATATAA-TTAAAACCA-AAAAGATTGAAAGACTT-TCACGCTTATAATATCA
* * * * * * *
39927 TTTTTCCTATTTTTTTCAAATTAATTTCTAATTAATTTGAAACCA-AATTGAGATGCTCAT-AAA
125 TTTTTCCTATTTTTTCCGAATTAATTTATAATTAAATTGAAA-CATGATTCAGATGCTCGTAAAA
* * *
39990 ATAAATCCTTAAA-CTCAATGTGACTGAGATTTCGTTAGATGAATATAGATATTTCAATGAGTCT
189 ACAAATCCTTAAATC-CAATGTGGCTGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGTCT
40054 TGACGA-CAAAAATCATGCAAAA
253 TGAC-ACCAAAAATCATGCAAAA
40076 GAGGGTGGAG
Statistics
Matches: 786, Mismatches: 123, Indels: 61
0.81 0.13 0.06
Matches are distributed among these distances:
660 36 0.05
661 160 0.20
662 99 0.13
663 308 0.39
664 183 0.23
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (658 bp):
CGATTTCGGCTAAAATTTTGCAAAAATTTACCAAAAAAGTTTCCTCAATTTTTGGCCACGATACT
CATAAAAAATATATAATTAAAACCAAAAAGATTGAAAGACTTTCACGCTTATAATATCATTTTTC
CTATTTTTTCCGAATTAATTTATAATTAAATTGAAACATGATTCAGATGCTCGTAAAAACAAATC
CTTAAATCCAATGTGGCTGAGATTTCGTTAGATGAATATAGATTTTTCAATGAGTCTTGACACCA
AAAATCATGCAAAACAGAGCCGGAGACCCAGAAAACATTCATAGGCAAAAACCGTGATGGTAAGT
ACACGATTTCGGCAAAAATTATGCAAAAATTGACCCAAAAAATTTCACCCTAATTTTGGGCCACA
ATACTCATAAAAAATATATAACTCAAAGCCATAAAATTTGAAGGGCTTCTCACGCTTCTTATATC
ATATTTCCTATTTTTTCCAAATTAATTTCCAATTAAATAGAAACCAAATTGAGATGCTCGTAAAA
CAAATCCTTAAATCCAATGTGACTGAGATTTCATTAGATAAATATAGATATTTCAATGAGTCTTG
GCCACAAAAATCATGCAAAAAAAGCCGGAGGACCCTGAACGCGTTCATAGCAAAAACCGTGACCG
GTAGTACA
Done.