Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001242.1 Hibiscus syriacus cultivar Beakdansim tig00002443_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: 235367
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
File 1 of 2
Found at i:9286 original size:21 final size:21
Alignment explanation
Indices: 9257--9297 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9247 AAGGGAGAAG
*
9257 AAAATGATAGAAAGTAAAAGT
1 AAAAAGATAGAAAGTAAAAGT
*
9278 AAAAAGATAGAAAGTGAAAG
1 AAAAAGATAGAAAGTAAAAG
9298 GTGAAAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (21 bp):
AAAAAGATAGAAAGTAAAAGT
Found at i:25757 original size:4 final size:4
Alignment explanation
Indices: 25748--25778 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25738 TCCAACTATG
25748 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
25779 ACCTGCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:31103 original size:24 final size:23
Alignment explanation
Indices: 31076--31120 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31066 AAAAATTCCT
* *
31076 ATATTATTTTAATTTTTAATTTTC
1 ATATTATATT-ATTGTTAATTTTC
31100 ATATTATATTATTGTTAATTT
1 ATATTATATTATTGTTAATTT
31121 AAATTTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATATTATATTATTGTTAATTTTC
Found at i:32656 original size:20 final size:20
Alignment explanation
Indices: 32631--32668 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
32621 TGCATCATTT
32631 CACTAAACCAATTAATTTTG
1 CACTAAACCAATTAATTTTG
32651 CACTAAACCAATTAATTT
1 CACTAAACCAATTAATTT
32669 AATGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (20 bp):
CACTAAACCAATTAATTTTG
Found at i:32797 original size:12 final size:13
Alignment explanation
Indices: 32767--32799 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
32757 ATTTTTAGTG
*
32767 TATTTTAAATAAT
1 TATTTTAAATAAA
32780 TATTTTAAA-AAA
1 TATTTTAAATAAA
32792 TATTTTAA
1 TATTTTAA
32800 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTTAAATAAA
Found at i:33747 original size:2 final size:2
Alignment explanation
Indices: 33740--33776 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33730 TTGGCAAGTA
33740 AT AT AT 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 AT AT AT A
33777 GGACGAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34607 original size:29 final size:29
Alignment explanation
Indices: 34565--34621 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
34555 GAAAGATAAT
**
34565 TTTCTAAAACACCAAAAGGGAGTGCCCAC
1 TTTCTAAAACACCAAAAGAAAGTGCCCAC
*
34594 TTTCTAAAGCACCAAAAGAAAGTGCCCA
1 TTTCTAAAACACCAAAAGAAAGTGCCCA
34622 AAGTAGTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (29 bp):
TTTCTAAAACACCAAAAGAAAGTGCCCAC
Found at i:42022 original size:2 final size:2
Alignment explanation
Indices: 42015--42042 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42005 AGCCTATGTA
42015 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
42043 GAAAAACTCA
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:51469 original size:20 final size:21
Alignment explanation
Indices: 51446--51485 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
51436 TTATCTATTT
*
51446 ATAATTAAATTTAAA-ATAAG
1 ATAATAAAATTTAAATATAAG
51466 ATAATAAAATTTAAATATAA
1 ATAATAAAATTTAAATATAA
51486 TTGGATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAATAAAATTTAAATATAAG
Found at i:57655 original size:20 final size:21
Alignment explanation
Indices: 57630--57722 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
57620 TTTTCCCAAT
*
57630 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
57650 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
57671 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
57691 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
57712 TCGCAATGCGA
1 TCGCAATGCGA
57723 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:57675 original size:41 final size:41
Alignment explanation
Indices: 57630--57722 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
57620 TTTTCCCAAT
57630 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
57671 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
57712 TCGCAATGCGA
1 TCGCAATGCGA
57723 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:57735 original size:41 final size:41
Alignment explanation
Indices: 57649--57783 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
57639 GAATAAGTAA
* *
57649 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
57690 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
57731 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
57772 TTCGCAACGCGA
1 ATCGCAACGCGA
57784 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:57736 original size:20 final size:20
Alignment explanation
Indices: 57711--57825 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
57701 AATTGGGAAA
*
57711 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
57731 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
57752 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
57772 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
57792 TTCGCAACGCGATTCTGACCT
1 ATCGCAACGCGATACTGA-CT
57813 -TCGCAACGCGATA
1 ATCGCAACGCGATA
57826 ATACATAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.03
20 61 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:57784 original size:41 final size:41
Alignment explanation
Indices: 57708--57845 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
57698 GCGAATTGGG
* * *
57708 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
57749 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** * *
57791 --TTTCGCAACGCGATTCTGACCTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
57830 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
57846 TTTCAAAGAG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:58041 original size:22 final size:22
Alignment explanation
Indices: 58013--58056 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
58003 CACTCTCTCA
58013 CCCATCTCC-GACGAAATCCGTC
1 CCCATCTCCAG-CGAAATCCGTC
58035 CCCATCTCCAGCGAAATCCGTC
1 CCCATCTCCAGCGAAATCCGTC
58057 TATCTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCAGCGAAATCCGTC
Found at i:58063 original size:20 final size:21
Alignment explanation
Indices: 58013--58064 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
58003 CACTCTCTCA
58013 CCCATCTCC-GACGAAATCCGT
1 CCCATCTCCAG-CGAAATCCGT
58034 CCCCATCTCCAGCGAAATCCGT
1 -CCCATCTCCAGCGAAATCCGT
*
58056 -CTATCTCCA
1 CCCATCTCCA
58065 TCTCTCAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
22 19 0.68
23 1 0.04
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (21 bp):
CCCATCTCCAGCGAAATCCGT
Found at i:59699 original size:18 final size:18
Alignment explanation
Indices: 59673--59717 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
59663 TCCACTTCAG
*
59673 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
59691 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
59709 GAGCCATCA
1 GAGCCATCA
59718 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:60218 original size:20 final size:20
Alignment explanation
Indices: 60193--60234 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60183 TAGTTTACTT
60193 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
60213 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
60233 TC
1 TC
60235 ACAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:60247 original size:19 final size:20
Alignment explanation
Indices: 60204--60248 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
60194 CGCAACACGA
*
60204 AAATGACTATCGCAACGCGG
1 AAATGACTATCACAACGCGG
* *
60224 AAATGGCTATCACAATGC-G
1 AAATGACTATCACAACGCGG
60243 AAATGA
1 AAATGA
60249 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:60290 original size:32 final size:33
Alignment explanation
Indices: 60236--60322 Score: 131
Period size: 32 Copynumber: 2.7 Consensus size: 33
60226 ATGGCTATCA
* *
60236 CAATGCGAAATGAAAATCGCAACGACAAAATTG
1 CAATGCGAAATGAAAATCGCAACAACAAAATCG
60269 CAATGCGAAATG-AAATCGCAACAACAAAATCG
1 CAATGCGAAATGAAAATCGCAACAACAAAATCG
* *
60301 CAACGTGAAATGAAAATCGCAA
1 CAATGCGAAATGAAAATCGCAA
60323 TGCGATTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 28 0.57
33 21 0.43
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.14
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACAACAAAATCG
Found at i:60358 original size:14 final size:14
Alignment explanation
Indices: 60339--60396 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
60329 TTGTGTTTCG
60339 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
60353 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
60369 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
60385 CGTTGCGATTTT
1 CGTTGCGATTTT
60397 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:60377 original size:32 final size:33
Alignment explanation
Indices: 60334--60412 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
60324 GCGATTTGTG
*
60334 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
60366 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
60399 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
60413 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:60431 original size:20 final size:19
Alignment explanation
Indices: 60397--60452 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
60387 TTGCGATTTT
*
60397 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
60416 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
60436 CATTTTTGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
60453 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:62476 original size:19 final size:19
Alignment explanation
Indices: 62454--62521 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
62444 ATCGCAACGA
62454 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
62473 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
62492 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
62506 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
62522 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:62565 original size:20 final size:20
Alignment explanation
Indices: 62540--62577 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
62530 TCGCATTGCG
62540 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
62560 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
62578 TCAAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:63662 original size:24 final size:24
Alignment explanation
Indices: 63635--63688 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
63625 GTATTCGAAA
* *
63635 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
63659 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
63683 TTTGAT
1 TTTGAT
63689 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:66205 original size:33 final size:33
Alignment explanation
Indices: 66163--66289 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
66153 GGAAATTACT
66163 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
66196 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
66228 TTTCGCAATGCGAAATGAAAATCACAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
66262 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
66290 CAAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:66270 original size:66 final size:66
Alignment explanation
Indices: 66164--66296 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
66154 GAAATTACTA
* *
66164 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
66229 T
66 T
*
66230 TCGCAATGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
66295 T
66 T
66296 T
1 T
66297 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCAAAT
T
Found at i:66491 original size:14 final size:14
Alignment explanation
Indices: 66472--66508 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
66462 CATCAATTAA
66472 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
66486 ACAAATCACCTTTT
1 ACAAATCAACTTTT
66500 ACAAATCAA
1 ACAAATCAA
66509 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:67883 original size:21 final size:21
Alignment explanation
Indices: 67817--67883 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
67807 GTGAATCGGG
*
67817 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
67837 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
67859 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
67880 CTCT
1 CTCT
67884 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:67902 original size:42 final size:41
Alignment explanation
Indices: 67817--67939 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
67807 GTGAATCGGG
* * * *
67817 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
67859 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
67901 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
67940 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:69974 original size:20 final size:19
Alignment explanation
Indices: 69943--70003 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
69933 TCTTTTGGTT
69943 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
69962 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
69983 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
70002 GA
1 GA
70004 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:70011 original size:14 final size:14
Alignment explanation
Indices: 69992--70028 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
69982 GGAAATGACT
69992 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
70006 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
70020 ATCACAACG
1 ATCGCAACG
70029 CGAAATGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.08
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:70043 original size:47 final size:48
Alignment explanation
Indices: 69968--70061 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
69958 ACGAGATAAT
* * *
69968 GAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGA
1 GAGAATCACAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
*
70016 GAGAATCACAACGC-GAAATGACTATCGCGACCAGACAATCGCAACG
1 GAGAATCACAACGCGGAAATGACTATCGCAACCAGACAATCGCAACG
70062 CGAAATGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 29 0.69
48 13 0.31
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.11
Consensus pattern (48 bp):
GAGAATCACAACGCGGAAATGACTATCGCAACCAGACAATCGCAACGA
Found at i:70076 original size:33 final size:33
Alignment explanation
Indices: 70005--70080 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
69995 GCAACGAGAG
* * *
70005 AATCGCAACGAGAGAATCACAACGCGAAATGAC
1 AATCGCAACCAGACAATCACAACGCGAAATGAA
* * *
70038 TATCGCGACCAGACAATCGCAACGCGAAATGAA
1 AATCGCAACCAGACAATCACAACGCGAAATGAA
70071 AATCGCAACC
1 AATCGCAACC
70081 GCGAAATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.28, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACCAGACAATCACAACGCGAAATGAA
Found at i:70085 original size:20 final size:19
Alignment explanation
Indices: 70052--70117 Score: 114
Period size: 19 Copynumber: 3.4 Consensus size: 19
70042 GCGACCAGAC
70052 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
70071 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
70091 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
70110 AATCGCAA
1 AATCGCAA
70118 TGTGATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 26 0.59
20 18 0.41
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:70145 original size:19 final size:19
Alignment explanation
Indices: 70123--70159 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
70113 CGCAATGTGA
*
70123 TTTTTGTTTCGCGTTGCGT
1 TTTTTATTTCGCGTTGCGT
70142 TTTTTATTTCGCGTTGCG
1 TTTTTATTTCGCGTTGCG
70160 ATTCTCTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.24, T:0.57
Consensus pattern (19 bp):
TTTTTATTTCGCGTTGCGT
Found at i:70782 original size:20 final size:20
Alignment explanation
Indices: 70757--70810 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
70747 GATTTTGTAT
70757 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
70777 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
70797 TATCGCATTGCGAT
1 TATCGCATTGCGAT
70811 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:70829 original size:61 final size:61
Alignment explanation
Indices: 70717--70831 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
70707 CGCTATGTAA
* * * ** *
70717 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
* *
70778 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATCGCATTGCGAT
70832 TTACTTATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
61 43 0.96
62 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCGCATTGCGATAGTAAGT
Found at i:80212 original size:22 final size:23
Alignment explanation
Indices: 80181--80227 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
80171 TAATTGCGAG
80181 TTTAGAAGATACGA-TTTTGGGC
1 TTTAGAAGATACGATTTTTGGGC
*
80203 TTTAGTAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTTTGGGC
80226 TT
1 TT
80228 GTTTAGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (23 bp):
TTTAGAAGATACGATTTTTGGGC
Found at i:83382 original size:18 final size:18
Alignment explanation
Indices: 83359--83411 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
83349 TGACCAGTCA
83359 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
83377 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
83395 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
83412 GTTGATCGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 8 0.24
18 26 0.76
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:83461 original size:29 final size:29
Alignment explanation
Indices: 83419--83521 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
83409 ACCGTTGATC
*
83419 GGTGCTATACTGGTAAATAATTTGGTTTT
1 GGTGCTATTCTGGTAAATAATTTGGTTTT
83448 GGTGCTATTCTGGTAAATAATTTGGTTTT
1 GGTGCTATTCTGGTAAATAATTTGGTTTT
* * * ***
83477 GGTGCTATTATGGTAATTAATTAGAAATT
1 GGTGCTATTCTGGTAAATAATTTGGTTTT
*
83506 GGTGCTATTTTGGTAA
1 GGTGCTATTCTGGTAA
83522 TTATTTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTTGGTTTT
Found at i:89990 original size:18 final size:18
Alignment explanation
Indices: 89967--90037 Score: 117
Period size: 18 Copynumber: 4.0 Consensus size: 18
89957 TGACCGGTCA
89967 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
89985 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
90003 CGACCCGACCCGATGACC
1 CGACCCGACCCGTTGACC
*
90021 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
90038 GTTGACCGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
17 7 0.14
18 43 0.86
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:90020 original size:13 final size:13
Alignment explanation
Indices: 90004--90029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89994 CCGTTGACCC
90004 GACCCGACCCGAT
1 GACCCGACCCGAT
90017 GACCCGACCCGAT
1 GACCCGACCCGAT
90030 CGTTGACCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (13 bp):
GACCCGACCCGAT
Found at i:90087 original size:29 final size:29
Alignment explanation
Indices: 90045--90124 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
90035 ACCGTTGACC
*
90045 GGTGCTATTTTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
**
90074 GGTGCTATTCTGGTAAATAATTTGGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
*
90103 GGTGCTATTCTGGTAATTAATT
1 GGTGCTATTCTGGTAAATAATT
90125 AGAAATGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCAGTTTT
Found at i:90135 original size:29 final size:29
Alignment explanation
Indices: 90074--90169 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
90064 ATTCAGTTTT
* * *** *
90074 GGTGCTATTCTGGTAAATAATTTGGTTTT
1 GGTGCTATTCTGGTAATTAATTAGAAATG
90103 GGTGCTATTCTGGTAATTAATTAGAAATG
1 GGTGCTATTCTGGTAATTAATTAGAAATG
* * *
90132 GGTGCTATTTTGGTAATTATTTTA-AAAAG
1 GGTGCTATTCTGGTAATTA-ATTAGAAATG
90161 GGTGCTATT
1 GGTGCTATT
90170 TGTGTAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 54 0.95
30 3 0.05
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTAGAAATG
Found at i:95397 original size:22 final size:23
Alignment explanation
Indices: 95358--95404 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
95348 TACAATACGC
*
95358 TGTTTATCCACCAATTTATGTTA
1 TGTTTATCCACCAATTTATGCTA
95381 TGTTTATCCA-CAATTTATGCTA
1 TGTTTATCCACCAATTTATGCTA
95403 TG
1 TG
95405 AGTGTCACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (23 bp):
TGTTTATCCACCAATTTATGCTA
Found at i:97802 original size:21 final size:22
Alignment explanation
Indices: 97765--97810 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
97755 TTACCTATGA
* *
97765 AAATAATAGAAAGATAAGAAAT
1 AAATAATAGAAAAATAAAAAAT
97787 AAATAAT-GAAAAATAAAAAAT
1 AAATAATAGAAAAATAAAAAAT
97808 AAA
1 AAA
97811 CTTTATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (22 bp):
AAATAATAGAAAAATAAAAAAT
Found at i:100938 original size:14 final size:14
Alignment explanation
Indices: 100921--100948 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100911 GAGAGAGAAG
100921 GAGGGAGGGGGAGA
1 GAGGGAGGGGGAGA
100935 GAGGGAGGGGGAGA
1 GAGGGAGGGGGAGA
100949 CTGCAGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (14 bp):
GAGGGAGGGGGAGA
Found at i:100960 original size:2 final size:2
Alignment explanation
Indices: 100953--100985 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
100943 GGGAGACTGC
100953 AG AG AG AG AG -G AG AG AG AG AG AG AG AG TAG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG A
100986 CAACAGTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:100975 original size:17 final size:17
Alignment explanation
Indices: 100953--100985 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
100943 GGGAGACTGC
100953 AGAGAGAGAGGAGAGAG
1 AGAGAGAGAGGAGAGAG
*
100970 AGAGAGAGAGTAGAGA
1 AGAGAGAGAGGAGAGA
100986 CAACAGTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (17 bp):
AGAGAGAGAGGAGAGAG
Found at i:100984 original size:15 final size:13
Alignment explanation
Indices: 100953--100985 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
100943 GGGAGACTGC
100953 AGAGAGAGAGGAG
1 AGAGAGAGAGGAG
100966 AGAGAGAGA-GAG
1 AGAGAGAGAGGAG
100978 AGTAGAGA
1 AG-AGAGA
100986 CAACAGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (13 bp):
AGAGAGAGAGGAG
Found at i:118765 original size:22 final size:23
Alignment explanation
Indices: 118723--118766 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
118713 AAGTGAATTG
*
118723 AAAAATATAAAACATGCAATATA
1 AAAAATATAAAACATGAAATATA
*
118746 AAAAATATAAATC-TGAAATAT
1 AAAAATATAAAACATGAAATAT
118767 TAATATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (23 bp):
AAAAATATAAAACATGAAATATA
Found at i:120736 original size:36 final size:34
Alignment explanation
Indices: 120681--120759 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
120671 TTAAAATAGT
*
120681 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
120713 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
120747 TATTATTTATTTA
1 TATTATTTTTTTA
120760 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:120922 original size:17 final size:17
Alignment explanation
Indices: 120900--120953 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
120890 AATGTTAATA
120900 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
120917 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
120934 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
120951 TTT
1 TTT
120954 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:121282 original size:31 final size:31
Alignment explanation
Indices: 121184--121274 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
121174 CAATTTAAGG
*
121184 CAAAATGGTTTTTAGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
121215 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
121246 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
121275 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 12 0.20
31 36 0.61
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:121368 original size:18 final size:18
Alignment explanation
Indices: 121347--121401 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
121337 TGAATAGAAT
121347 TTACTATTTGAACAGTAA
1 TTACTATTTGAACAGTAA
*
121365 TTACTATTTAAACAGTAAA
1 TTACTATTTGAACAGT-AA
* *
121384 TCACTGTTTGAACAGTAA
1 TTACTATTTGAACAGTAA
121402 CCCGAGGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (18 bp):
TTACTATTTGAACAGTAA
Found at i:121399 original size:19 final size:19
Alignment explanation
Indices: 121349--121401 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
121339 AATAGAATTT
*
121349 ACTATTTGAACAGT-AATT
1 ACTATTTGAACAGTAAATC
*
121367 ACTATTTAAACAGTAAATC
1 ACTATTTGAACAGTAAATC
*
121386 ACTGTTTGAACAGTAA
1 ACTATTTGAACAGTAA
121402 CCCGAGGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (19 bp):
ACTATTTGAACAGTAAATC
Found at i:121533 original size:21 final size:21
Alignment explanation
Indices: 121507--121548 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
121497 ATTTGAATAT
*
121507 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
121528 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
121549 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:121610 original size:21 final size:21
Alignment explanation
Indices: 121577--121616 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
121567 TTTGAGTAGA
*
121577 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
121599 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
121617 AGATACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:121870 original size:34 final size:32
Alignment explanation
Indices: 121831--121900 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
121821 TTTTGTAAAG
* * *
121831 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
*
121865 GGGAAAGGTTATAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
121897 GGGA
1 GGGA
121901 GTTTGTAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:123503 original size:21 final size:21
Alignment explanation
Indices: 123473--123520 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
123463 GCAGGGGTAC
* *
123473 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
123494 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
123515 ATGCCA
1 ATGCCA
123521 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:123550 original size:21 final size:21
Alignment explanation
Indices: 123524--123617 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
123514 TATGCCATCT
* *
123524 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
123545 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
123566 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
123587 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
123608 CCGCAGGGTT
1 CCGCAGGGTT
123618 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:124199 original size:33 final size:34
Alignment explanation
Indices: 124140--124303 Score: 224
Period size: 33 Copynumber: 4.9 Consensus size: 34
124130 AAATGTTTTT
*
124140 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
124174 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
*
124207 AAAATATAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
124241 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
124274 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
124304 CATTAAATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
33 57 0.50
34 56 0.50
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:124218 original size:67 final size:67
Alignment explanation
Indices: 124137--124303 Score: 316
Period size: 67 Copynumber: 2.5 Consensus size: 67
124127 GATAAATGTT
*
124137 TTTAAAATACAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
124202 AA
66 AA
124204 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
124269 AA
66 AA
*
124271 TTTAAAATATAAATTATAGTATTCGAAATTTAA
1 TTTAAAATATAAATTATATTATTCGAAATTTAA
124304 CATTAAATTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 98 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (67 bp):
TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
AA
Found at i:124310 original size:34 final size:33
Alignment explanation
Indices: 124138--124310 Score: 215
Period size: 34 Copynumber: 5.2 Consensus size: 33
124128 ATAAATGTTT
*
124138 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
124172 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
*
124204 TTTAAAATATAAATTATATTATTCGAAATTTAAAA
1 -TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
124239 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
124271 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
124306 TTAAA
1 TTAAA
124311 TTTCAACTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
32 6 0.05
33 51 0.43
34 59 0.49
35 4 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:124921 original size:128 final size:128
Alignment explanation
Indices: 124693--125706 Score: 1940
Period size: 128 Copynumber: 7.9 Consensus size: 128
124683 AGTTATTCAA
*
124693 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
124758 GACGAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
* *
124821 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTAACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
124886 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
124949 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
125014 GACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
125076 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
125141 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
125204 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
125269 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
125332 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
125397 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
125460 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
125525 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
125588 ATTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
* *
125653 GACGAAATAATGGAAGGCGCACCCCCGGGAACGCACCTTCATGTGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
125707 CCGATTATAG
Statistics
Matches: 876, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
127 126 0.14
128 750 0.86
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:125400 original size:383 final size:384
Alignment explanation
Indices: 124693--125706 Score: 1958
Period size: 383 Copynumber: 2.6 Consensus size: 384
124683 AGTTATTCAA
124693 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
124758 GACGAAATAATGGAAGGCGCGCCCCCGAGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
124823 TGATATATCTAGTGTCCCCGAGGGACATGAGTAACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
124888 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
124953 ATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACG
261 ATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACG
125018 AAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
326 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
125076 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
125141 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
125206 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
125271 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
125336 ATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACG
261 ATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACG
125401 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
326 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
125460 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
125525 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
125590 TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGA
131 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
* *
125655 CGAAATAATGGAAGGCGCACCCCCGGGAACGCACCTTCATGTGAATAGTGAA
196 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
125707 CCGATTATAG
Statistics
Matches: 623, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
383 340 0.55
384 283 0.45
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (384 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTG
ATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACG
AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:125787 original size:8 final size:8
Alignment explanation
Indices: 125774--125814 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
125764 TCACAATCTT
125774 TCAAATTC
1 TCAAATTC
125782 TCAAATTC
1 TCAAATTC
* *
125790 CCAAACTC
1 TCAAATTC
125798 T-AAATTC
1 TCAAATTC
125805 TCAAATTC
1 TCAAATTC
125813 TC
1 TC
125815 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:129616 original size:9 final size:9
Alignment explanation
Indices: 129602--129628 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
129592 CCAGAAACAT
129602 TAAGAAGAA
1 TAAGAAGAA
129611 TAAGAAGAA
1 TAAGAAGAA
129620 TAAGAAGAA
1 TAAGAAGAA
129629 GAAAATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (9 bp):
TAAGAAGAA
Found at i:131615 original size:20 final size:20
Alignment explanation
Indices: 131590--131848 Score: 126
Period size: 20 Copynumber: 12.6 Consensus size: 20
131580 AATGACCAAT
131590 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
131610 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
131630 AAAATCGCAACAGTC-A-AAAG
1 AAAATCGCAAC-G-CGATTTAG
* **
131650 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
131671 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
131694 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
131714 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
131734 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
131754 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* *
131774 AAGAGAATCGCAATGCGATTTAT
1 -A-A-AATCGCAACGCGATTTAG
* * *
131797 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
131817 AGAGTCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
*
131837 AGAATCGCAACG
1 AAAATCGCAACG
131849 TTGAAAATAA
Statistics
Matches: 189, Mismatches: 39, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.01
20 140 0.74
21 16 0.08
22 1 0.01
23 29 0.15
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:131749 original size:40 final size:40
Alignment explanation
Indices: 131675--131846 Score: 209
Period size: 40 Copynumber: 4.2 Consensus size: 40
131665 GCTTCCAAGT
*
131675 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAATGCGATTTAG-AG--AATCGCAATGCGATTGATAGAA
* * *
131718 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAATGCGATTTAGAGAATCGCAATGCGATTGATAGAA
* *
131758 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTTATAGAA
1 TCGCAATGCGATTT---AGAGAATCGCAATGCGATTGATAGAA
* * *
131801 TCGCAATGCGATTGAGAGAGTCGCAATGCGATTTATAGAA
1 TCGCAATGCGATTTAGAGAATCGCAATGCGATTGATAGAA
131841 TCGCAA
1 TCGCAA
131847 CGTTGAAAAT
Statistics
Matches: 114, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
40 64 0.56
42 2 0.02
43 48 0.42
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (40 bp):
TCGCAATGCGATTTAGAGAATCGCAATGCGATTGATAGAA
Found at i:131781 original size:63 final size:63
Alignment explanation
Indices: 131714--131835 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
131704 TGCGATTGAT
131714 AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAG
1 AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAG
*
131777 AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAATGCGATTTA
1 AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTA
131836 TAGAATCGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (63 bp):
AGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAG
Found at i:131786 original size:83 final size:83
Alignment explanation
Indices: 131675--131848 Score: 276
Period size: 83 Copynumber: 2.1 Consensus size: 83
131665 GCTTCCAAGT
* *
131675 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATC
*
131740 GCAATGCGATTGAGAGAG
66 GCAATGCGATTGAGAGAA
* * *
131758 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATC
* *
131823 GCAATGCGATTTATAGAA
66 GCAATGCGATTGAGAGAA
131841 TCGCAACG
1 TCGCAACG
131849 TTGAAAATAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATC
GCAATGCGATTGAGAGAA
Found at i:131929 original size:6 final size:6
Alignment explanation
Indices: 131918--131985 Score: 129
Period size: 6 Copynumber: 11.5 Consensus size: 6
131908 GACACGTATT
131918 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
131966 ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACC
131986 CGAGACGAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.08
6 57 0.92
ACGTcount: A:0.32, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:132786 original size:20 final size:20
Alignment explanation
Indices: 132761--132891 Score: 163
Period size: 20 Copynumber: 6.4 Consensus size: 20
132751 ATTTTCAACG
* *
132761 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
132781 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
132801 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
132821 TTGCGATTCTCTTCTAAATCGCG
1 TTGCGATTCTC-TC--AATCGCA
*
132844 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
132864 TTGTGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
132884 TTGCGATT
1 TTGCGATT
132892 TTCTTCTAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
20 76 0.80
21 2 0.02
22 2 0.02
23 15 0.16
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:132857 original size:63 final size:63
Alignment explanation
Indices: 132772--132910 Score: 233
Period size: 63 Copynumber: 2.2 Consensus size: 63
132762 TGCGATTCTA
* * *
132772 TAAATCGCATTGCGACTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTTC
1 TAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTC
* *
132835 TAAATCGCGTTGCGACTCTCTCAATCGCATTGTGATTCTATCAATCGCATTGCGATTTTCTTC
1 TAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTC
132898 TAAATCGCGTTGC
1 TAAATCGCGTTGC
132911 AAACTTGGAC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (63 bp):
TAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATCAATCGCATTGCGATTCTCTTC
Found at i:132904 original size:43 final size:40
Alignment explanation
Indices: 132761--132910 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 40
132751 ATTTTCAACG
* * *
132761 TTGCGATTCTATAAATCGCATTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTATCAATCGCA
* * * *
132801 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCG
1 TTGCGATTCTCTAAATCGCATTGCGATTCT-ATC--AATCGCA
* * *
132844 TTGCGACTCTCTCAATCGCATTGTGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTATCAATCGCA
*
132884 TTGCGATTTTCTTCTAAATCGCGTTGC
1 TTGCGA--TTC-TCTAAATCGCATTGC
132911 AAACTTGGAC
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 38 0.43
41 2 0.02
42 4 0.04
43 45 0.51
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTATCAATCGCA
Found at i:132923 original size:23 final size:23
Alignment explanation
Indices: 132897--132942 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
132887 CGATTTTCTT
132897 CTAAATCGCGTTGCAAACTTGGA
1 CTAAATCGCGTTGCAAACTTGGA
*
132920 CTAAATCGCGTTGCGAACTTGGA
1 CTAAATCGCGTTGCAAACTTGGA
132943 AGCTCGCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
CTAAATCGCGTTGCAAACTTGGA
Found at i:132951 original size:21 final size:22
Alignment explanation
Indices: 132899--132956 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
132889 ATTTTCTTCT
*
132899 AAATCGCGTTGCAAACTTGGAC
1 AAATCGCGTTGCGAACTTGGAC
132921 TAAATCGCGTTGCGAACTTGGA-
1 -AAATCGCGTTGCGAACTTGGAC
**
132943 AGCTCGCGTTGCGA
1 AAATCGCGTTGCGA
132957 TTTTCTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 12 0.38
23 20 0.62
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (22 bp):
AAATCGCGTTGCGAACTTGGAC
Found at i:133012 original size:20 final size:20
Alignment explanation
Indices: 132759--133039 Score: 100
Period size: 20 Copynumber: 13.6 Consensus size: 20
132749 TTATTTTCAA
* *
132759 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
132779 CATTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
132799 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
132819 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
132842 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * * *
132862 CATTGTGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
132882 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* **
132905 CGTTGCAAACTTGGACTAAATCG
1 CGTTGC-GA-TT-TTCTAAATCG
** ** *
132928 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
132949 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
132967 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
132989 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
133009 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
133028 CGTTGCGATTTT
1 CGTTGCGATTTT
133040 ATTGGTCATT
Statistics
Matches: 199, Mismatches: 50, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.01
19 17 0.09
20 116 0.58
21 15 0.08
22 6 0.03
23 42 0.21
24 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:133029 original size:19 final size:20
Alignment explanation
Indices: 132989--133039 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
132979 TTCTTTTTAA
*
132989 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
133009 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
133028 CGTTGCGATTTT
1 CGTTGCGATTTT
133040 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:135008 original size:20 final size:20
Alignment explanation
Indices: 134983--135020 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134973 CTGGTGACCG
134983 GTCAACGGGT-CAGGTAAGCA
1 GTCAAC-GGTCCAGGTAAGCA
135003 GTCAACGGTCCAGGTAAG
1 GTCAACGGTCCAGGTAAG
135021 TATTTAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.29, C:0.21, G:0.34, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCCAGGTAAGCA
Found at i:139433 original size:44 final size:47
Alignment explanation
Indices: 139361--139458 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 47
139351 TTATTTTCGT
*
139361 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTCAGG-TTTG
1 TTTTT-GAATAAATGCATGCGAACTAGATATCATGCGGTCAGGATTTC
* * *
139408 TTTTTGAAT-AA-GCATGTGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTCAGGATTTC
139453 TTTTTG
1 TTTTTG
139459 TGGATAACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 26 0.57
45 11 0.24
46 4 0.09
47 5 0.11
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (47 bp):
TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTCAGGATTTC
Found at i:149167 original size:16 final size:16
Alignment explanation
Indices: 149161--149268 Score: 73
Period size: 16 Copynumber: 6.6 Consensus size: 16
149151 AATGAGAAAA
149161 AGAAAAAGAAGAAAA-G
1 AGAAAAAGAA-AAAATG
*
149177 A-AGAAAAGGAAAAATG
1 AGA-AAAAGAAAAAATG
149193 AGAAAAA-ATAAAAATG
1 AGAAAAAGA-AAAAATG
*
149209 AGGAAAATGAAAAATAATG
1 A-GAAAAAG-AAAA-AATG
*
149228 AAAAAAATG-AAAAATG
1 AGAAAAA-GAAAAAATG
149244 A-AAAAAGAGAAAAATG
1 AGAAAAAGA-AAAAATG
*
149260 AAAAAAAGA
1 AGAAAAAGA
149269 GAAATAAAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
14 1 0.01
15 10 0.13
16 34 0.45
17 16 0.21
18 7 0.09
19 7 0.09
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (16 bp):
AGAAAAAGAAAAAATG
Found at i:149197 original size:32 final size:32
Alignment explanation
Indices: 149161--149272 Score: 106
Period size: 32 Copynumber: 3.4 Consensus size: 32
149151 AATGAGAAAA
149161 AGAAAAAGAAGAAAA-GAAGAAAAGGAAAAATG
1 AGAAAAA-AAGAAAATGAAGAAAAGGAAAAATG
* * *
149193 AGAAAAAATA-AAAATGAGGAAAATGAAAAATA
1 AGAAAAAA-AGAAAATGAAGAAAAGGAAAAATG
149225 ATGAAAAAAATGAAAAATGAA-AAAAGAGAAAAATG
1 A-GAAAAAAA-G-AAAATGAAGAAAAG-GAAAAATG
149260 A-AAAAAAGAGAAA
1 AGAAAAAA-AGAAA
149273 TAAAAGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
31 5 0.08
32 27 0.41
33 14 0.21
34 5 0.08
35 15 0.23
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (32 bp):
AGAAAAAAAGAAAATGAAGAAAAGGAAAAATG
Found at i:149199 original size:9 final size:9
Alignment explanation
Indices: 149185--149272 Score: 73
Period size: 9 Copynumber: 10.4 Consensus size: 9
149175 AGAAGAAAAG
149185 GAAAAATGA
1 GAAAAATGA
149194 GAAAAA--A
1 GAAAAATGA
*
149201 TAAAAATGA
1 GAAAAATGA
*
149210 GGAAAATGA
1 GAAAAATGA
*
149219 AAAATAATGA
1 GAAA-AATGA
*
149229 AAAAAAT--
1 GAAAAATGA
149236 GAAAAATGA
1 GAAAAATGA
149245 -AAAAA-GA
1 GAAAAATGA
149252 GAAAAATGA
1 GAAAAATGA
*
149261 -AAAAAAGA
1 GAAAAATGA
149269 GAAA
1 GAAA
149273 TAAAAGAAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
7 14 0.22
8 17 0.27
9 24 0.38
10 9 0.14
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (9 bp):
GAAAAATGA
Found at i:149241 original size:35 final size:31
Alignment explanation
Indices: 149186--149266 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 31
149176 GAAGAAAAGG
*
149186 AAAAATGAGAAAAAATAAAAATGAGGAAAATGAA
1 AAAAATGA-AAAAAATAAAAATGA--AAAAAGAA
*
149220 AAATAATGAAAAAAATGAAAAATGAAAAAAGAG
1 AAA-AATGAAAAAAAT-AAAAATGAAAAAAGAA
149253 AAAAATGAAAAAAA
1 AAAAATGAAAAAAA
149267 GAGAAATAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 11 0.26
33 9 0.21
34 10 0.23
35 13 0.30
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (31 bp):
AAAAATGAAAAAAATAAAAATGAAAAAAGAA
Found at i:149280 original size:9 final size:8
Alignment explanation
Indices: 149110--149268 Score: 53
Period size: 8 Copynumber: 19.5 Consensus size: 8
149100 TCGCTTGAAG
149110 AAGAAATAA
1 AAGAAA-AA
149119 AAGGAAAAA
1 AA-GAAAAA
*
149128 ACG-AAAA
1 AAGAAAAA
*
149135 ACGAAAAA
1 AAGAAAAA
149143 ATA-ATAAAA
1 A-AGA-AAAA
* *
149152 ATGAGAAA
1 AAGAAAAA
149160 AAG--AAA
1 AAGAAAAA
*
149166 AAGAAGAA
1 AAGAAAAA
*
149174 AAGAAGAA
1 AAGAAAAA
*
149182 AAGGAAAA
1 AAGAAAAA
*
149190 ATGAGAAAA
1 AAGA-AAAA
*
149199 AA-TAAAA
1 AAGAAAAA
* *
149206 ATGAGGAAA
1 AAGA-AAAA
*
149215 ATGAAAAA
1 AAGAAAAA
149223 TAATGAAAAA
1 -AA-GAAAAA
149233 AATG-AAAA
1 AA-GAAAAA
*
149241 ATG-AAAA
1 AAGAAAAA
149248 AAGAGAAAA
1 AAGA-AAAA
*
149257 ATGAAAAA
1 AAGAAAAA
149265 AAGA
1 AAGA
149269 GAAATAAAAG
Statistics
Matches: 115, Mismatches: 21, Indels: 29
0.70 0.13 0.18
Matches are distributed among these distances:
6 6 0.05
7 19 0.17
8 45 0.39
9 35 0.30
10 10 0.09
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.08
Consensus pattern (8 bp):
AAGAAAAA
Found at i:150876 original size:153 final size:153
Alignment explanation
Indices: 150404--150919 Score: 845
Period size: 153 Copynumber: 3.3 Consensus size: 153
150394 AGTGAAGCAA
*
150404 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAA
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAA
150469 GATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
66 GATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
150534 CTCTCTGAATGAATAGGGAGCGG
131 CTCTCTGAATGAATAGGGAGCGG
* *
150557 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGTGGACAAGTTCGTTGAA
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAA
*
150622 GATTGAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
66 GATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
150687 CTCTCTGAATGAATAGGGAGCGG
131 CTCTCTGAATGAATAGGGAGCGG
150710 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAA
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAA
* *
150775 GATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACTAGTTCGTTGAAGATTGAGTCCTATA
66 GATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
* * *
150840 CTCCCTGAAAGAACAGGGAGCGG
131 CTCTCTGAATGAATAGGGAGCGG
* ** * * *
150863 ACCTA-TTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAAGAGAGAGCGGAC
1 A-CAAGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGAGAGCGGAC
150920 CCGTTTTATT
Statistics
Matches: 342, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
153 306 0.89
154 2 0.01
156 2 0.01
157 32 0.09
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (153 bp):
ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAGTTCGTTGAA
GATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATA
CTCTCTGAATGAATAGGGAGCGG
Found at i:150880 original size:51 final size:51
Alignment explanation
Indices: 150404--150864 Score: 850
Period size: 51 Copynumber: 9.0 Consensus size: 51
150394 AGTGAAGCAA
150404 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
150455 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
150506 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
*
150557 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGTGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
*
150608 ACAAGTTCGTTGAAGATTGAGTCATATACTCTCTGAATGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
150659 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
*
150710 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
*
150761 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
* * * *
150812 ACTAGTTCGTTGAAGATTGAGTCCTATACTCCCTGAAAGAACAGGGAGCGG
1 ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
150863 AC
1 AC
150865 CTATTTATTG
Statistics
Matches: 399, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 399 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (51 bp):
ACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGG
Found at i:150916 original size:55 final size:51
Alignment explanation
Indices: 150407--150971 Score: 628
Period size: 51 Copynumber: 10.9 Consensus size: 51
150397 GAAGCAAACA
* * * *
150407 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * *
150458 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * *
150509 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * * *
150560 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGTGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * * *
150611 AGTTCGTTGAAGATTGAGTCATATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * *
150662 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * *
150713 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGACA
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* *
150764 AGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACT
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * * *
150815 AGTTCGTTGAAGATTGAGTCCTATACTCCCTGAAAGAACAGGGAGCGGACCT
1 AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGA-CT
* * * *
150867 A-TTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAAGAGAGAGCGGACC
1 AGTTCATTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
* * * * *
150921 CGTTTTATTAAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGC
1 AG-TTCATTGAAGATTG----AGTCCTATACTCTCTGAAGGAATAGAGAGC
150972 ATACACGTTT
Statistics
Matches: 478, Mismatches: 25, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
51 404 0.85
52 4 0.01
53 2 0.00
54 3 0.01
55 29 0.06
56 36 0.08
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
AGTTCATTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACT
Found at i:150952 original size:56 final size:56
Alignment explanation
Indices: 150728--151017 Score: 196
Period size: 51 Copynumber: 5.4 Consensus size: 56
150718 GTTGAAGATT
* * * ** **
150728 GAGTCCTATACTCTCTGAATGAATAGAGAGCGGACAAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAACAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * ** **
150779 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACTAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAACAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * * *
150830 GAGTCCTATACTCCCTGAAAGAACAGGGAGCGGA-CC-TATTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAACAGAGAGCGGACCCGT-TTTATTGAAGATTGTTC
* *
150885 GAGT-TCTATACTCTCTGAAGGAAGAGAGAGCGGACCCGTTTTATTAAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAACAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * ** * *
150941 AAGTCTTATACTCTCTGAATGAATAGAGAGCATACACGTTTTA-TGAAGATTGTTT
1 GAGTCTTATACTCTCTGAAGGAACAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
150996 GAGTCTTATACT-TCCTGAAGGA
1 GAGTCTTATACTCT-CTGAAGGA
151018 TTAGGGAGCA
Statistics
Matches: 201, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
51 88 0.44
54 3 0.01
55 56 0.28
56 52 0.26
57 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (56 bp):
GAGTCTTATACTCTCTGAAGGAACAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
Found at i:151027 original size:55 final size:56
Alignment explanation
Indices: 150868--151027 Score: 164
Period size: 56 Copynumber: 2.9 Consensus size: 56
150858 AGCGGACCTA
* * * * ** *
150868 TTTATTGAAGATTTTTCGAGT-TCTATACTCTCTGAAGGAAGAGAGAGCGGACCCGT
1 TTTATTAAAGATTGTTCAAGTCT-TATACTCTCTGAAGGAATAGAGAGCATACACGT
*
150924 TTTATTAAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCATACACGT
1 TTTATTAAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGAGAGCATACACGT
* ** * *
150980 TTTA-TGAAGATTGTTTGAGTCTTATACT-TCCTGAAGGATTAGGGAGCA
1 TTTATTAAAGATTGTTCAAGTCTTATACTCT-CTGAAGGAATAGAGAGCA
151028 GGCTCGTCAT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
54 1 0.01
55 36 0.41
56 50 0.57
57 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (56 bp):
TTTATTAAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGAGAGCATACACGT
Found at i:161629 original size:15 final size:15
Alignment explanation
Indices: 161594--161629 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
161584 ATTTAGGTGA
161594 AAAAAATAAATTTAT
1 AAAAAATAAATTTAT
*
161609 ATAAAATAAATTTAT
1 AAAAAATAAATTTAT
161624 AAAAAA
1 AAAAAA
161630 ATATTCAACG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATAAATTTAT
Found at i:164963 original size:21 final size:21
Alignment explanation
Indices: 164921--164963 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
164911 ATTTTGGGCT
* * *
164921 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
164942 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
164963 A
1 A
164964 CGAATATGAA
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:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:165766 original size:149 final size:147
Alignment explanation
Indices: 165498--165799 Score: 532
Period size: 149 Copynumber: 2.0 Consensus size: 147
165488 GGGTAGAGGG
* *
165498 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACATAC
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACATAC
*
165563 TTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTATA
66 TTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTATA
165628 GGGCACTACGGTGCAAT
131 GGGCACTACGGTGCAAT
*
165645 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAG--ACAT
*
165710 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
64 ACTTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
165775 TATGGCACTACGGTGCAAT
129 TAGGGCACTACGGTGCAAT
165794 TCTACG
1 TCTACG
165800 GGCACTTCGG
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
147 56 0.38
149 91 0.62
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
TCTACGCGGTTCCTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACATAC
TTAATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTATA
GGGCACTACGGTGCAAT
Found at i:165821 original size:22 final size:22
Alignment explanation
Indices: 165778--165821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
165768 ATCATTATAT
*
165778 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTATACG
* *
165800 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
165822 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
GGCACTACGGTGCAATTATACG
Found at i:171891 original size:21 final size:21
Alignment explanation
Indices: 171849--171891 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
171839 TTTTCGGGTT
* * *
171849 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
171870 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
171891 A
1 A
171892 CGAATATGAA
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:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:172695 original size:149 final size:149
Alignment explanation
Indices: 172425--172716 Score: 512
Period size: 149 Copynumber: 2.0 Consensus size: 149
172415 GGGTAGAGGG
* *
172425 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGACACAT
1 TCTACGCAGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGAAACAT
* * *
172490 ACTTGATCCTTAGTATATATATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCATAGTATATATATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
172555 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
*
172574 TCTACGCAGTTCTTTGGGACATATGTATATTCTTTGGAACATGTTTGAGGTTTTGAAAGAAACAT
1 TCTACGCAGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGAAACAT
*
172639 ACTTGATCCATAGTATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATATATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
172704 TATGGCACTACGG
131 TAGGGCACTACGG
172717 GGCACTTCGG
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 135 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (149 bp):
TCTACGCAGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAGGTTTTGAAAGAAACAT
ACTTGATCCATAGTATATATATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TAGGGCACTACGGTGCAAT
Found at i:176878 original size:19 final size:20
Alignment explanation
Indices: 176837--176887 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
176827 GAAACCCCTT
*
176837 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
176857 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
176876 TGAAGATACATG
1 TGAAAATACATG
176888 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:181061 original size:19 final size:20
Alignment explanation
Indices: 181028--181075 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
181018 AACCCCTTTG
*
181028 AAATACATGATTTTTGATGA
1 AAATACATGATTTTTAATGA
181048 AAATACATGA-TTTTAATGA
1 AAATACATGATTTTTAATGA
*
181067 AGATACATG
1 AAATACATG
181076 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (20 bp):
AAATACATGATTTTTAATGA
Found at i:186975 original size:83 final size:82
Alignment explanation
Indices: 186790--187026 Score: 298
Period size: 83 Copynumber: 2.9 Consensus size: 82
186780 AGTAGTATAA
* * * *
186790 AAACGCCGCAACATATTAGTACTTTAGCAGTGTTTTTTTTACAAACGCCGCAATAATTTGGTATG
1 AAACGCCGCAACATACTAGTACTTTAGCAGCG-ATTTTTTACAAACGCCACAATAATTTGGTATG
186855 TTTGT-GCCTTTTTCAAC
65 TTTGTGGCCTTTTTCAAC
* * * * * * *
186872 AAATGCAGCAACAAAGTAGTACTTTAGCAGCGGTTTTTTACAAACGCCACAATAGTTTGGTATGA
1 AAACGCCGCAACATACTAGTACTTTAGCAGCGATTTTTTACAAACGCCACAATAATTTGGTATGT
*
186937 TTGTGGCATTTTTTCAAC
66 TTGTGGC-CTTTTTCAAC
* * *
186955 AAACGCCGCAACATACTAGTACTTTAGCGGC-ATATTTTTACAAACACAACAATAATTTGGTATG
1 AAACGCCGCAACATACTAGTACTTTAGCAGCGAT-TTTTTACAAACGCCACAATAATTTGGTATG
187019 TTTGTGGC
65 TTTGTGGC
187027 GTTTGGGTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
81 33 0.25
82 30 0.23
83 69 0.52
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (82 bp):
AAACGCCGCAACATACTAGTACTTTAGCAGCGATTTTTTACAAACGCCACAATAATTTGGTATGT
TTGTGGCCTTTTTCAAC
Found at i:188730 original size:44 final size:43
Alignment explanation
Indices: 188618--188734 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
188608 GTTTTGTATT
* * * * *
188618 AAAAACGCCACTAAAAACAAGAGAATTAGCTGCGTTTGTAGCA
1 AAAAAAGCCACTAAAGACAAGATAATTAGCAGCGTTTGTAGAA
* * *
188661 AAAAATGCCACTAAAGACAATATAATTAGCAGCGTTTGTGGAAA
1 AAAAAAGCCACTAAAGACAAGATAATTAGCAGCGTTTGTAG-AA
* *
188705 AAAAAAGCCACTAAAGATAGGATAATTAGC
1 AAAAAAGCCACTAAAGACAAGATAATTAGC
188735 GTCATTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 35 0.56
44 27 0.44
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (43 bp):
AAAAAAGCCACTAAAGACAAGATAATTAGCAGCGTTTGTAGAA
Found at i:193674 original size:10 final size:10
Alignment explanation
Indices: 193645--193703 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 10
193635 GCTGCTGGAA
193645 AACCGGTTTG
1 AACCGGTTTG
*
193655 -ACCAGTTTTG
1 AACC-GGTTTG
193665 AACCGGTTTG
1 AACCGGTTTG
*
193675 -ACTGGTTTG
1 AACCGGTTTG
*
193684 -ACCGGTCTG
1 AACCGGTTTG
*
193693 AACCGGGTTG
1 AACCGGTTTG
193703 A
1 A
193704 CCCGACCCGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 18 0.46
10 18 0.46
11 3 0.08
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:193721 original size:17 final size:17
Alignment explanation
Indices: 193699--193756 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
193689 TCTGAACCGG
*
193699 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
193716 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
193733 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
193750 GTTGACC
1 GTTGACC
193757 GTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:193763 original size:6 final size:7
Alignment explanation
Indices: 193746--193775 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
193736 GACCCGACCC
193746 GACCGTT
1 GACCGTT
193753 GACCG-T
1 GACCGTT
193759 GACCGTT
1 GACCGTT
193766 GACCGTT
1 GACCGTT
193773 GAC
1 GAC
193776 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:193764 original size:13 final size:13
Alignment explanation
Indices: 193746--193771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193736 GACCCGACCC
193746 GACCGTTGACCGT
1 GACCGTTGACCGT
193759 GACCGTTGACCGT
1 GACCGTTGACCGT
193772 TGACTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:194712 original size:63 final size:63
Alignment explanation
Indices: 194644--194767 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
194634 CTAATGTGAC
* ** * *
194644 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
194707 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
194768 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:200309 original size:109 final size:109
Alignment explanation
Indices: 200118--200335 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
200108 CAGTGGAGTA
200118 ATCGTAGCCCCTCAGAAGCTACTTGGGAGACATTGGAGTCAATGGAGACTCAATTTCCTAATCTT
1 ATCGTAGCCCCTCAGAAGCTACTTGGGAGACATTGGAGTCAATGGAGACTCAATTTCCTAATCTT
200183 TTTTCATAAGGTAAATTTCGAGGACGAAATTTCTTGTAGAGGGG
66 TTTTCATAAGGTAAATTTCGAGGACGAAATTTCTTGTAGAGGGG
200227 ATCGTAGCCCCTCAGAAGCTACTTGGGAGACATTGGAGTCAATGGAGACTCAATTTCCTAATCTT
1 ATCGTAGCCCCTCAGAAGCTACTTGGGAGACATTGGAGTCAATGGAGACTCAATTTCCTAATCTT
200292 TTTTCATAAGGTAAATTTCGAGGACGAAATTTCTTGTAGAGGGG
66 TTTTCATAAGGTAAATTTCGAGGACGAAATTTCTTGTAGAGGGG
200336 GAGAATTGTA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (109 bp):
ATCGTAGCCCCTCAGAAGCTACTTGGGAGACATTGGAGTCAATGGAGACTCAATTTCCTAATCTT
TTTTCATAAGGTAAATTTCGAGGACGAAATTTCTTGTAGAGGGG
Found at i:201110 original size:10 final size:10
Alignment explanation
Indices: 201081--201149 Score: 72
Period size: 10 Copynumber: 7.1 Consensus size: 10
201071 GCTGCTGGAA
201081 AACCGGTTTG
1 AACCGGTTTG
*
201091 -ACCAGTTTTG
1 AACC-GGTTTG
201101 AACCGGTTTG
1 AACCGGTTTG
*
201111 -ACCGGTTCG
1 AACCGGTTTG
201120 AACCGGTTTG
1 AACCGGTTTG
*
201130 -ACCGGTCTG
1 AACCGGTTTG
*
201139 AACCGGGTTG
1 AACCGGTTTG
201149 A
1 A
201150 CCCGACCCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 19 0.40
10 26 0.54
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:201124 original size:19 final size:19
Alignment explanation
Indices: 201081--201151 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
201071 GCTGCTGGAA
* *
201081 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
201101 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
201120 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
*
201139 AACCGGGTTGACC
1 AACCGGTTTGACC
201152 CGACCCGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 2 0.04
19 32 0.68
20 13 0.28
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:201167 original size:17 final size:17
Alignment explanation
Indices: 201145--201202 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
201135 TCTGAACCGG
*
201145 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
201162 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
201179 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
201196 GTTGACC
1 GTTGACC
201203 GTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:201202 original size:7 final size:7
Alignment explanation
Indices: 201192--201234 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
201182 GACCCGACCC
201192 GACCGTT
1 GACCGTT
201199 GACCG-T
1 GACCGTT
201205 GACCGTT
1 GACCGTT
*
201212 GTCCG-T
1 GACCGTT
201218 GACCGTT
1 GACCGTT
201225 GACCGTT
1 GACCGTT
201232 GAC
1 GAC
201235 TTTCTTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:201210 original size:13 final size:13
Alignment explanation
Indices: 201192--201230 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
201182 GACCCGACCC
201192 GACCGTTGACCGT
1 GACCGTTGACCGT
*
201205 GACCGTTGTCCGT
1 GACCGTTGACCGT
201218 GACCGTTGACCGT
1 GACCGTTGACCGT
201231 TGACTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.26
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:202172 original size:63 final size:63
Alignment explanation
Indices: 202104--202227 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
202094 CTAATGTGAC
* ** * *
202104 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
202167 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
202228 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:205180 original size:3 final size:3
Alignment explanation
Indices: 205161--205219 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
205151 AAATGAGTAA
* * * **
205161 AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT ACT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
205209 AAT AATT AAT A
1 AAT AA-T AAT A
205220 GAAGTTTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:205516 original size:5 final size:5
Alignment explanation
Indices: 205501--205534 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
205491 AGTAAAATTG
*
205501 AAAAT AGAAT AAAAT -AAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
205535 GGGTTGCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:205525 original size:14 final size:14
Alignment explanation
Indices: 205502--205532 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
205492 GTAAAATTGA
*
205502 AAATAGAATAAAAT
1 AAATAAAATAAAAT
205516 AAATAAAATAAAAT
1 AAATAAAATAAAAT
205530 AAA
1 AAA
205533 ATGGGTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:220552 original size:26 final size:24
Alignment explanation
Indices: 220516--220714 Score: 142
Period size: 20 Copynumber: 8.6 Consensus size: 24
220506 TTCCCTAATA
*
220516 CATCCTTTCATGCATATTAATTATGG
1 CATCCTTTCATGCATCTT-ATTAT-G
220542 CATCCTTTCATGC--CTTA--ATG
1 CATCCTTTCATGCATCTTATTATG
* * *
220562 CATCATTTCATGCATTTTAATTATTA
1 CATCCTTTCATGCATCTT-ATTA-TG
220588 CATCCTTTCATGC--CTTA--ATG
1 CATCCTTTCATGCATCTTATTATG
*
220608 CATCCTTTCATGCATTTTAATTATG
1 CATCCTTTCATGCATCTT-ATTATG
220633 TCATCCTTTCATGC--CTTA--ATG
1 -CATCCTTTCATGCATCTTATTATG
* *
220654 CATCATTTCATGCATTTTCATTATGG
1 CATCCTTTCATGCATCTT-ATTAT-G
220680 CATCCTTTCATGC--CTTA--ATG
1 CATCCTTTCATGCATCTTATTATG
*
220700 CATCATTTCATGCAT
1 CATCCTTTCATGCAT
220715 TTTACATACT
Statistics
Matches: 139, Mismatches: 14, Indels: 44
0.71 0.07 0.22
Matches are distributed among these distances:
20 52 0.37
21 8 0.06
22 6 0.04
23 7 0.05
24 8 0.06
25 6 0.04
26 52 0.37
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (24 bp):
CATCCTTTCATGCATCTTATTATG
Done.