Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 51
Found at i:6497344 original size:20 final size:20
Alignment explanation
Indices: 6497319--6497358 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6497309 GTTGAGATAT
6497319 CATCTTAATCATCATAAATA
1 CATCTTAATCATCATAAATA
6497339 CATCTTAATCATCATAAATA
1 CATCTTAATCATCATAAATA
6497359 GCCTATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (20 bp):
CATCTTAATCATCATAAATA
Found at i:6501047 original size:23 final size:22
Alignment explanation
Indices: 6501009--6501068 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
6500999 TAATAAAATA
* *
6501009 TTATTTTTAACTAATTTTTTATTT
1 TTATTTTTAA-AAATTATTT-TTT
6501033 TTATTTTTAAAAATTATTTTTT
1 TTATTTTTAAAAATTATTTTTT
6501055 TTATTTTTTAAAAA
1 TTA-TTTTTAAAAA
6501069 ATATATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 6 0.18
23 17 0.52
24 10 0.30
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTTTAAAAATTATTTTTT
Found at i:6501069 original size:24 final size:24
Alignment explanation
Indices: 6501009--6501075 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
6500999 TAATAAAATA
** *
6501009 TTATTTTTAACTAATTTTTTATTT
1 TTATTTTTAAAAAATTATTTATTT
6501033 TTATTTTT-AAAAATTATTT-TTT
1 TTATTTTTAAAAAATTATTTATTT
6501055 TTATTTTTTAAAAAATATATT
1 TTA-TTTTTAAAAAAT-TATT
6501076 AAAAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.16
23 13 0.35
24 14 0.38
25 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (24 bp):
TTATTTTTAAAAAATTATTTATTT
Found at i:6501735 original size:20 final size:20
Alignment explanation
Indices: 6501698--6501736 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6501688 ATTATACACC
6501698 TATTTTTAACAACATTTTTT
1 TATTTTTAACAACATTTTTT
*
6501718 TATTTATTAA-AACGTTTTT
1 TATTT-TTAACAACATTTTT
6501737 CAAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTTTTAACAACATTTTTT
Found at i:6501779 original size:2 final size:2
Alignment explanation
Indices: 6501772--6501807 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6501762 TGTATAAAGA
6501772 AT AT AT 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 AT AT AT
6501808 TTCAGTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6503798 original size:16 final size:17
Alignment explanation
Indices: 6503766--6503800 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6503756 TGAATTATAA
*
6503766 TTTAAATAATTTAAATT
1 TTTAAATAATCTAAATT
6503783 TTTAAAT-ATCTAAATT
1 TTTAAATAATCTAAATT
6503799 TT
1 TT
6503801 CGGATTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATAATCTAAATT
Found at i:6505033 original size:14 final size:14
Alignment explanation
Indices: 6505016--6505045 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6505006 ACCCACAATC
6505016 TAATCATAACAAAG
1 TAATCATAACAAAG
6505030 TAATCATAACAAAG
1 TAATCATAACAAAG
6505044 TA
1 TA
6505046 GATTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (14 bp):
TAATCATAACAAAG
Found at i:6505338 original size:21 final size:20
Alignment explanation
Indices: 6505294--6505343 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
6505284 ATATATGTTT
*
6505294 TATGAACAG-TAAAATACGG
1 TATGAACAGTTAAAATACCG
*
6505313 TATGAACAGTTAACAGTACCG
1 TATGAACAGTTAA-AATACCG
6505334 TATGAACAGT
1 TATGAACAGT
6505344 GATGAACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (20 bp):
TATGAACAGTTAAAATACCG
Found at i:6506165 original size:23 final size:23
Alignment explanation
Indices: 6506136--6506181 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6506126 CAAAGGAACG
6506136 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
6506159 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
6506182 TATAAGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:6506433 original size:16 final size:17
Alignment explanation
Indices: 6506409--6506441 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6506399 ATCTTTTATA
*
6506409 ATTATCACATA-TTCAC
1 ATTAGCACATAGTTCAC
6506425 ATTAGCACATAGTTCAC
1 ATTAGCACATAGTTCAC
6506442 TTACACGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
ATTAGCACATAGTTCAC
Found at i:6521146 original size:6 final size:6
Alignment explanation
Indices: 6521135--6521166 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
6521125 TGTTGCTCAA
6521135 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
6521167 TACTGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:6522220 original size:5 final size:5
Alignment explanation
Indices: 6522210--6522236 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6522200 TTAGTCCATA
6522210 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
6522237 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6522325 original size:38 final size:37
Alignment explanation
Indices: 6522283--6522550 Score: 328
Period size: 38 Copynumber: 7.2 Consensus size: 37
6522273 TAAAAATACG
* *
6522283 TATATAATATATAGCTTTTAAAAAATATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAACAT-TTTTGAAAACT
* *
6522321 TATATAATAAATAGTTTTTAAAACACTTTTGAAAAC-
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAACT
*
6522357 TATATAATATATAGTTTTTAAAACATTTTAGAAAA-T
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAACT
* * *
6522393 ATATATAATGTATAGTTTTTGAAATCA-TTTTGAAAATT
1 -TATATAATATATAGTTTTT-AAAACATTTTTGAAAACT
*
6522431 TATATAATATATAGTTTTTGAAAACATTTTTAAAAACT
1 TATATAATATATAGTTTTT-AAAACATTTTTGAAAACT
* *
6522469 TATATAATATATAGTTTTTGAAAACATTTTTAAAAATT
1 TATATAATATATAGTTTTT-AAAACATTTTTGAAAACT
* *
6522507 TATTTATAATATATAATTTTTAAAATATTTTTGAAAA-T
1 TA--TATAATATATAGTTTTTAAAACATTTTTGAAAACT
6522545 TATATA
1 TATATA
6522551 GTTTTTAAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
36 36 0.18
37 60 0.29
38 79 0.39
39 14 0.07
40 16 0.08
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAACT
Found at i:6522590 original size:31 final size:30
Alignment explanation
Indices: 6522495--6522612 Score: 163
Period size: 30 Copynumber: 4.0 Consensus size: 30
6522485 TTTGAAAACA
* *
6522495 TTTTTAAAAAT-TTATTT-ATAA-TATATAA
1 TTTTTAAAAATATT-TTTGAAAATTATATAG
6522523 TTTTT-AAAATATTTTTGAAAATTATATAG
1 TTTTTAAAAATATTTTTGAAAATTATATAG
6522552 TTTTTAAAAATATTTTTGAAAATTATATAG
1 TTTTTAAAAATATTTTTGAAAATTATATAG
6522582 TTTTTTAAAAATATTTTTGAAAATTTATATA
1 -TTTTTAAAAATATTTTTGAAAA-TTATATA
6522613 TAATATATAA
Statistics
Matches: 82, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
27 8 0.10
28 10 0.12
29 11 0.13
30 24 0.29
31 22 0.27
32 7 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (30 bp):
TTTTTAAAAATATTTTTGAAAATTATATAG
Found at i:6522627 original size:41 final size:41
Alignment explanation
Indices: 6522575--6522652 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
6522565 TTTTGAAAAT
*
6522575 TATATAGTTTTTT-AAAAATATTTTTGAAAATTTATATATAA
1 TATATAATTTTTTAAAAAATATTTTT-AAAATTTATATATAA
6522616 TATATAATTTTTTAAAAAATATTTTTAAAATTTATAT
1 TATATAATTTTTTAAAAAATATTTTTAAAATTTATAT
6522653 TATACAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 23 0.66
42 12 0.34
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (41 bp):
TATATAATTTTTTAAAAAATATTTTTAAAATTTATATATAA
Found at i:6522713 original size:5 final size:5
Alignment explanation
Indices: 6522676--6522726 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
6522666 AAAATACTTC
*
6522676 TTTAT ATTTAT TTTAT ATTAT TTT-T TTACTAT TTTATT TTTAT TTTAT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TT--TAT TTTA-T TTTAT TTTAT
6522724 TTT
1 TTT
6522727 TTTCTCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 3 0.08
5 22 0.56
6 11 0.28
7 3 0.08
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:6522716 original size:27 final size:26
Alignment explanation
Indices: 6522682--6522737 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
6522672 CTTCTTTATA
6522682 TTTATTTTATATTATTTTTTTACT-AT
1 TTTATTTTATATTATTTTTTT-CTCAT
*
6522708 TTTATTTTTATTTTATTTTTTTCTCAT
1 TTTA-TTTTATATTATTTTTTTCTCAT
6522735 TTT
1 TTT
6522738 TTTCTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTATTTTATATTATTTTTTTCTCAT
Found at i:6522724 original size:11 final size:11
Alignment explanation
Indices: 6522676--6522727 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
6522666 AAAATACTTC
*
6522676 TTTATATTTAT
1 TTTATTTTTAT
*
6522687 TTTA-TATTAT
1 TTTATTTTTAT
*
6522697 TTT-TTTACTAT
1 TTTATTT-TTAT
6522708 TTTATTTTTAT
1 TTTATTTTTAT
6522719 TTTATTTTT
1 TTTATTTTT
6522728 TTCTCATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 8 0.24
11 22 0.67
12 3 0.09
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:6523485 original size:20 final size:20
Alignment explanation
Indices: 6523449--6523486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6523439 ATCCTATTTC
**
6523449 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
6523469 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
6523487 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:6524404 original size:10 final size:10
Alignment explanation
Indices: 6524389--6524417 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6524379 TAATCCATAA
6524389 GTTTCAATTC
1 GTTTCAATTC
6524399 GTTTCAATTC
1 GTTTCAATTC
6524409 GTTTCAATT
1 GTTTCAATT
6524418 TGGTCCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (10 bp):
GTTTCAATTC
Found at i:6525453 original size:17 final size:17
Alignment explanation
Indices: 6525433--6525472 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
6525423 AGGGAATTGA
6525433 AATCTGTCAAGAATTAG
1 AATCTGTCAAGAATTAG
* *
6525450 AATCTGTCAGGAATTGG
1 AATCTGTCAAGAATTAG
6525467 AATCTG
1 AATCTG
6525473 AAACCTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (17 bp):
AATCTGTCAAGAATTAG
Found at i:6530762 original size:9 final size:9
Alignment explanation
Indices: 6530748--6530778 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
6530738 ATAACGATTC
6530748 CCGATTGAA
1 CCGATTGAA
6530757 CCGATTGAA
1 CCGATTGAA
6530766 CCGATTGAA
1 CCGATTGAA
6530775 CCGA
1 CCGA
6530779 CCAATCCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (9 bp):
CCGATTGAA
Found at i:6530787 original size:18 final size:18
Alignment explanation
Indices: 6530748--6530789 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6530738 ATAACGATTC
**
6530748 CCGATTGAACCGATTGAA
1 CCGATTGAACCGATCCAA
6530766 CCGATTGAACCGA-CCAA
1 CCGATTGAACCGATCCAA
6530783 TCCGATT
1 -CCGATT
6530790 CGATTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (18 bp):
CCGATTGAACCGATCCAA
Found at i:6531292 original size:40 final size:35
Alignment explanation
Indices: 6531211--6531322 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 35
6531201 AAAATAGTCC
* *
6531211 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
6531246 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
** * * * *
6531281 TCAATTAAATTTTAAATCCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
6531316 TCAATTT
1 TCAATTT
6531323 AAGGTTTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:6534336 original size:36 final size:34
Alignment explanation
Indices: 6534254--6534336 Score: 78
Period size: 36 Copynumber: 2.3 Consensus size: 34
6534244 ATTTTAGATT
* *
6534254 TTTAATTATTATTTTTATTTTATTATAATATATA
1 TTTAATTATTATTTGTATTTTATTATAATATAAA
* *
6534288 TCTTAAAATATTATTTGTA-TTTATTTTATATATAAAA
1 T-TT-AATTATTATTTGTATTTTATTATA-ATAT-AAA
6534325 TTTATATTATTA
1 TTTA-ATTATTA
6534337 ATATAGATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
34 1 0.03
35 11 0.28
36 24 0.62
37 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (34 bp):
TTTAATTATTATTTGTATTTTATTATAATATAAA
Found at i:6534576 original size:31 final size:31
Alignment explanation
Indices: 6534541--6534599 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6534531 AACTTAAAAG
* *
6534541 AGTTTTGCAATACTGAAATTTACATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
6534572 AGTTTTACTATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
6534600 CCAAACGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:6536928 original size:20 final size:18
Alignment explanation
Indices: 6536887--6536944 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
6536877 ATAAAAAAAT
*
6536887 TACAATAAAAAGAACAAC
1 TACAATAAAAAGAACAAA
*
6536905 TACAATAAAAAAGTACTAAA
1 TACAAT-AAAAAGAAC-AAA
*
6536925 TACAAGTATAAAAAAACAAA
1 TACAA-TA-AAAAGAACAAA
6536945 ATCTATCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 11 0.34
21 7 0.22
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.16
Consensus pattern (18 bp):
TACAATAAAAAGAACAAA
Found at i:6537419 original size:36 final size:30
Alignment explanation
Indices: 6537351--6537420 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
6537341 ATATAACTCT
*
6537351 GTGACGGTGGCGGTGGGGTCATAAAACCAG
1 GTGACGGTGGCGGCGGGGTCATAAAACCAG
6537381 GTGACGGTGGCGGCGGGGTCATAAAACCAG
1 GTGACGGTGGCGGCGGGGTCATAAAACCAG
*
6537411 GTGAAGGTGG
1 GTGACGGTGG
6537421 TGGTGGCGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.46, T:0.16
Consensus pattern (30 bp):
GTGACGGTGGCGGCGGGGTCATAAAACCAG
Found at i:6542781 original size:3 final size:3
Alignment explanation
Indices: 6542773--6542814 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
6542763 ATTTTATCTT
*
6542773 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA ATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
6542815 CATTTTGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6544221 original size:14 final size:15
Alignment explanation
Indices: 6544197--6544226 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6544187 TTAGTCCTAT
6544197 TATTGTTTGTTATGA
1 TATTGTTTGTTATGA
6544212 TATT-TTTGTTATGA
1 TATTGTTTGTTATGA
6544226 T
1 T
6544227 TGGACTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (15 bp):
TATTGTTTGTTATGA
Found at i:6546727 original size:89 final size:91
Alignment explanation
Indices: 6546554--6546739 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 91
6546544 CACAACTGCA
* * * *
6546554 TTCGTAGGGCTTACCCTAAGCACACAGCAAAAAGGAGCCAACCTAAGGATATTCCTTGGGGCCTA
1 TTCGTAGGGCTTACCCTAAGCACACAACAAAAAGGAACCAACCTAAGGATATGCCTTGGGGCATA
* * *
6546619 TGGGCCTACCTAAGGGTATCCTTAGG
66 TGGGCCAACCCAAGAGTATCCTTAGG
* * *
6546645 TTCGTAGGG-TTACCTTAAGCACATAAC-AAAGGGAACCAACCTAAGGATATGCCTTGGGGCATA
1 TTCGTAGGGCTTACCCTAAGCACACAACAAAAAGGAACCAACCTAAGGATATGCCTTGGGGCATA
* *
6546708 TGGGTCAACCCAATAGTATCCTTAGG
66 TGGGCCAACCCAAGAGTATCCTTAGG
*
6546734 TCCGTA
1 TTCGTA
6546740 AGATATTACT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 58 0.71
90 15 0.18
91 9 0.11
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (91 bp):
TTCGTAGGGCTTACCCTAAGCACACAACAAAAAGGAACCAACCTAAGGATATGCCTTGGGGCATA
TGGGCCAACCCAAGAGTATCCTTAGG
Found at i:6553958 original size:37 final size:36
Alignment explanation
Indices: 6553883--6553959 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
6553873 TTTTTATATT
*
6553883 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
6553919 TTTAATTTTTTAAAAAAATTATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTAT-CAA
6553956 TTTA
1 TTTA
6553960 TAATATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:6561115 original size:35 final size:34
Alignment explanation
Indices: 6561030--6561116 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
6561020 AAAATAATTT
*
6561030 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
6561064 TAAATGATAATC-AAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAA-CAAAATTACAATAA--G-TATTAAATGG
6561102 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
6561117 ACTTAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.09, G:0.08, T:0.29
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:6562074 original size:34 final size:30
Alignment explanation
Indices: 6562036--6562104 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
6562026 CGATATAACA
6562036 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
6562070 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
6562099 AATTTA
1 AATTTA
6562105 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:6562098 original size:29 final size:31
Alignment explanation
Indices: 6562045--6562104 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
6562035 AAATTTAAGG
6562045 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
6562076 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
6562105 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:6562210 original size:21 final size:20
Alignment explanation
Indices: 6562184--6562282 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 20
6562174 AGGGTGTCAA
6562184 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
**
6562205 AGTGCATCCATGTGTCCCTGC
1 AGTGCATCCATG-CACCCTGC
6562226 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* * *
6562247 TAGTGCATCTATGCATCATGC
1 -AGTGCATCCATGCACCCTGC
6562268 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
6562283 TCAAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 32 0.49
22 13 0.20
23 3 0.05
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:6565818 original size:2 final size:2
Alignment explanation
Indices: 6565811--6565846 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6565801 TAATCCATCC
6565811 AT AT AT 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 AT AT AT
6565847 CTTGCAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6566934 original size:2 final size:2
Alignment explanation
Indices: 6566917--6566960 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
6566907 TTCCATTTTC
* *
6566917 AT AT A- AT AT AT CT AT AT AT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6566958 AT A
1 AT A
6566961 AGACGACGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6569712 original size:150 final size:149
Alignment explanation
Indices: 6569442--6569748 Score: 596
Period size: 150 Copynumber: 2.1 Consensus size: 149
6569432 GAAATCTCAA
6569442 TAATTCATGCAAATTGTAGCTTTAAAAGCACTGTGAGTGCGTCATAGATAAAAAAATGGCCTTGT
1 TAATTCATGCAAATTGTAGCTTTAAAAGCACTGTGAGTGCGTCATAGATAAAAAAATGGCCTTGT
*
6569507 TAGCAAATGCTCATAGTTCATCTAAGAAAATCTGCTACCAGCTCAACCGTATTTACTTTTAGAAT
66 TAGCAAATGCTCATAGTTCATCTAAGAAAATCTGCTACCAGCCCAACCGTATTTACTTTTAGAAT
6569572 AGCCATAATCCTCCTACCT
131 AGCCATAATCCTCCTACCT
6569591 TAATTCATGCAAATTGTAGCTTTAAAAGCACTGTGAGTGCGTCATAGATAAAAAAAATGGCCTTG
1 TAATTCATGCAAATTGTAGCTTTAAAAGCACTGTGAGTGCGTCATAGAT-AAAAAAATGGCCTTG
6569656 TTAGCAAATGCTCATAGTTCATCTAAGAAAATCTGCTACCAGCCCAACCGTATTTACTTTTAGAA
65 TTAGCAAATGCTCATAGTTCATCTAAGAAAATCTGCTACCAGCCCAACCGTATTTACTTTTAGAA
6569721 TAGCCATAATCCTCCTACCT
130 TAGCCATAATCCTCCTACCT
6569741 TAATTCAT
1 TAATTCAT
6569749 TGAAAAATCC
Statistics
Matches: 156, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
149 49 0.31
150 107 0.69
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (149 bp):
TAATTCATGCAAATTGTAGCTTTAAAAGCACTGTGAGTGCGTCATAGATAAAAAAATGGCCTTGT
TAGCAAATGCTCATAGTTCATCTAAGAAAATCTGCTACCAGCCCAACCGTATTTACTTTTAGAAT
AGCCATAATCCTCCTACCT
Found at i:6572773 original size:2 final size:2
Alignment explanation
Indices: 6572766--6572803 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6572756 TTCTCTACTA
6572766 AT AT AT AT 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 AT AT AT AT
6572804 TCACTTAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6573496 original size:38 final size:37
Alignment explanation
Indices: 6573333--6573734 Score: 243
Period size: 36 Copynumber: 11.1 Consensus size: 37
6573323 ACGGTTTTCT
* * ** * *
6573333 AAAATATATATATTATATAGTATCGAAAATATTTCG-
1 AAAATATATATAATATATAGTTTTAAAAACATTTTGA
* * * *
6573369 GAAATATATATATTATATAGTTTTGAAAA-ATATTG-
1 AAAATATATATAATATATAGTTTTAAAAACATTTTGA
* * *
6573404 AAAACATATATAATGTATAGTTTTTGAAAATGC-TTTTG-
1 AAAATATATATAATATATAG-TTTT-AAAA-ACATTTTGA
* *
6573442 -AAA-ATATATAATATATAGTTTTGAAATCATTTTGAA
1 AAAATATATATAATATATAGTTTTAAAAACATTTTG-A
*
6573478 AAAATATATATAATATATAGTTTTTAAAACATTTTTTGA
1 AAAATATATATAATATATAGTTTTAAAAACA--TTTTGA
* * *
6573517 AAAAT-TATATAATATATACTTTTTAAAATATTTTTGA
1 AAAATATATATAATATATAGTTTTAAAAACA-TTTTGA
* * *
6573554 AAAA-ACTTATATAATATATAATTTAAAAAAACAATTTGA
1 AAAATA--TATATAATATATAGTTT-TAAAAACATTTTGA
* *
6573593 AAAA-ATTTATAATATATAGTTTTAAAAACATTTTTCA
1 AAAATATATATAATATATAGTTTTAAAAACA-TTTTGA
*
6573630 AAAACT-TATAT-A-ATAT--TTTTAAAATCATTTTTG-
1 AAAA-TATATATAATATATAGTTTTAAAAACA-TTTTGA
* * * **
6573663 AAAA-CTATATAATATCTAGTTTTGAAAAC-TTTTTT
1 AAAATATATATAATATATAGTTTTAAAAACATTTTGA
* *
6573698 TAAA-A-ATATAATATATAG-TTTAAAAATATTTTTGA
1 AAAATATATATAATATATAGTTTTAAAAACA-TTTTGA
6573733 AA
1 AA
6573735 TATAGATTAT
Statistics
Matches: 296, Mismatches: 44, Indels: 53
0.75 0.11 0.13
Matches are distributed among these distances:
32 5 0.02
33 13 0.04
34 42 0.14
35 32 0.11
36 63 0.21
37 44 0.15
38 55 0.19
39 32 0.11
40 10 0.03
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (37 bp):
AAAATATATATAATATATAGTTTTAAAAACATTTTGA
Found at i:6573766 original size:3 final size:3
Alignment explanation
Indices: 6573753--6573805 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
6573743 ATATAGTTTA
* *
6573753 TAT TA- TAT TAT TAT TAT TAT TAT CAT TTT TAT T-T TAT T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6573797 TAT T-T TAT T
1 TAT TAT TAT T
6573806 CATTTAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 10 0.24
3 31 0.76
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:6573769 original size:6 final size:5
Alignment explanation
Indices: 6573753--6573805 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
6573743 ATATAGTTTA
* *
6573753 TATTA TATTAT TATTAT TATTAT CATTTT TATTT TATTT TATTT TATTT
1 TATTT TATT-T TATT-T TATT-T TATT-T TATTT TATTT TATTT TATTT
6573802 TATT
1 TATT
6573806 CATTTAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 24 0.56
6 19 0.44
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:6573789 original size:5 final size:5
Alignment explanation
Indices: 6573779--6573805 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6573769 TTATTATCAT
6573779 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
6573806 CATTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:6574388 original size:17 final size:18
Alignment explanation
Indices: 6574354--6574389 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6574344 CTCAGTAAAC
6574354 AAACCAAAAAGCACACAAA
1 AAACCAAAAA-CACACAAA
6574373 AAACCAAAAA-ACACAAA
1 AAACCAAAAACACACAAA
6574390 GGCAACCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.72, C:0.25, G:0.03, T:0.00
Consensus pattern (18 bp):
AAACCAAAAACACACAAA
Found at i:6574922 original size:24 final size:24
Alignment explanation
Indices: 6574876--6574922 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6574866 AATGGAACCT
*
6574876 TTTCTTATTTTCATGTTTTATTTA
1 TTTCTTATTTTCATGTTTAATTTA
*
6574900 TTTCTTATATTTTAT-TTTAATTT
1 TTTCTTAT-TTTCATGTTTAATTT
6574923 CGTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTCTTATTTTCATGTTTAATTTA
Found at i:6574935 original size:2 final size:2
Alignment explanation
Indices: 6574928--6574976 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
6574918 AATTTCGTAT
*
6574928 TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6574967 TA TA TA TA TA
1 TA TA TA TA TA
6574977 CATTTATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:6574974 original size:27 final size:27
Alignment explanation
Indices: 6574925--6574991 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
6574915 TTTAATTTCG
*
6574925 TATTATATATATATATATATATATATATT
1 TATTAT-TAT-TATATATATATATACATT
6574954 TATTATTATTATATATATATATACATT
1 TATTATTATTATATATATATATACATT
6574981 TATTATTATTA
1 TATTATTATTA
6574992 ATTATTTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 28 0.76
28 3 0.08
29 6 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTATTATTATATATATATATACATT
Found at i:6575086 original size:16 final size:16
Alignment explanation
Indices: 6575017--6575089 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 16
6575007 TTCTTTTCCC
6575017 TTTTATTTTA-TTTTA
1 TTTTATTTTATTTTTA
* * * *
6575032 TCTTATATATATATTTG
1 TTTTAT-TTTATTTTTA
*
6575049 GTTTATTTAATATTTTTA
1 TTTTATTT--TATTTTTA
6575067 --TTATTTTATTTTTA
1 TTTTATTTTATTTTTA
6575081 TTTTATTTT
1 TTTTATTTT
6575090 TCCCATGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
14 8 0.19
15 5 0.12
16 17 0.40
17 7 0.16
18 6 0.14
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:6575125 original size:35 final size:34
Alignment explanation
Indices: 6575086--6575152 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
6575076 TTTTATTTTA
6575086 TTTTTCCCATGATTTATTTGGATTTATTT-TTCCTT
1 TTTTTCCCATGATTTATTT--ATTTATTTATTCCTT
***
6575121 TTTTTCTTTTGATTTATTTATTTATTTATTCC
1 TTTTTCCCATGATTTATTTATTTATTTATTCC
6575153 CTCAAACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 8 0.29
34 4 0.14
35 16 0.57
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (34 bp):
TTTTTCCCATGATTTATTTATTTATTTATTCCTT
Found at i:6579121 original size:95 final size:95
Alignment explanation
Indices: 6579002--6579257 Score: 301
Period size: 96 Copynumber: 2.7 Consensus size: 95
6578992 AAATTCTAAT
*
6579002 ATTATAAATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
1 ATTAT-AATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
*
6579067 TGGATAAGATTTAACTAGCCTGA-AATAGGAG
65 TGGATAAGATTCAACTAGCCTGATAA-AGGAG
** * *
6579098 ATTATAATATACAATAAAGCTTGAATTGTCCTTCTAGAGCAATTGGTTAAACGCCCCCGGCTTTA
1 ATTATAATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACG-CCCCGACTTTA
* * * *
6579163 TAGATAATATTCAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAACTAGCCTGATAAAGGAG
* * * *
6579194 ATTATAATAT-C--TATA--TTAAGCTGTCCCTCTAGAGCAATTGGTTAATCGGCCC-AGCTTTA
1 ATTATAATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGA-CTTTA
6579253 TGGAT
65 TGGAT
6579258 TTAGCTAGCC
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
90 12 0.09
91 28 0.20
93 3 0.02
95 45 0.33
96 48 0.35
97 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATTCAACTAGCCTGATAAAGGAG
Found at i:6580523 original size:84 final size:84
Alignment explanation
Indices: 6580380--6581191 Score: 955
Period size: 84 Copynumber: 9.7 Consensus size: 84
6580370 GAAACTATTG
* * * * * *
6580380 GCAGCATAGCTCAAGGCGATAAGGGCTATCTGCCAACAAAAGACCTTCGAATTTGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
6580445 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
** *
6580464 ATAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
6580529 GCTCCAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
* *
6580548 GCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
6580613 GCTCTAAGGCACATCATTT
66 GCTCCAAGGCATATCATTT
* * *
6580632 GCAGCATAACTCAAGGCTAGAAGGGCTATATGCC-ACCAAAATACCTTCGATTTCGACTACGCTC
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
6580696 AGCTCCAAGGCATATCATTT
65 AGCTCCAAGGCATATCATTT
* * * * * * *
6580716 GCAACATAACACAAGGCTAGAAAGGTTATCTACCAACCAAATACCTTCGAGTTAGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
6580781 ACTCCAAGGCACATCATTT
66 GCTCCAAGGCATATCATTT
* * * * * * * *
6580800 GCAGCATAGCTCAAGGCTAGAATGACTATGTTCC-ACCAAAAGACCTTCAAGTTCGATTACACTC
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTC
*
6580864 AACTCCAAGGCATATCATTT
65 AGCTCCAAGGCATATCATTT
* * * * * * *
6580884 GCAGCATAACTCAAGGCTATAAGGGTTATCTACCGACCAAAAACCTTCGAGTTTGACTACGCTTA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
6580949 GCTCCAAGGCACATTATTT
66 GCTCCAAGGCATATCATTT
** * * * * **
6580968 GCAATATAGCTCAAGGCAAGAAGAGCTATTTGCCAATAAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
*
6581033 GCTCAAAGGCATATCATTT
66 GCTCCAAGGCATATCATTT
* * * * * * *
6581052 GCAGTATAACTCAAGGCTAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTTGATTACACTTA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * **
6581117 GCTCAAAGACGCATCATTT
66 GCTCCAAGGCATATCATTT
* * * ** *
6581136 ACAACATAACTCAAGGCGAGAAGAACTATCTG-TAACCACAAGACCTTCGAGTTCGA
1 GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCA-AAGACCTTCGAGTTCGA
6581192 TTTCATTCAG
Statistics
Matches: 622, Mismatches: 101, Indels: 10
0.85 0.14 0.01
Matches are distributed among these distances:
83 11 0.02
84 605 0.97
85 6 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (84 bp):
GCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCATATCATTT
Found at i:6581916 original size:36 final size:34
Alignment explanation
Indices: 6581800--6582146 Score: 138
Period size: 38 Copynumber: 9.6 Consensus size: 34
6581790 ACAGTTTTCT
* * **
6581800 AAAATATATATATTATATAGTTTCGAAAACATTTCAAA
1 AAAATATATA-A-TATATAGTTTTGAAATCATTT--TG
* * **
6581838 AAAAAATATATTATATAGTTTTG-AATTTTTTTG
1 AAAATATATAATATATAGTTTTGAAATCATTTTG
*
6581871 AAAACATATATAATGTATAGTTTTTGAAAATGC-TTTTG
1 -AAA-ATATATAATATATAG-TTTTG-AAAT-CATTTTG
6581909 AAAATATATAATATATAGTTTTGAAATCATTTTG
1 AAAATATATAATATATAGTTTTGAAATCATTTTG
* * *
6581943 AAAATATATATATAATATTTAATTTTTAAAACATTTTTTG
1 AAAATATATA-AT-ATA--TAGTTTTGAAATCA--TTTTG
* *
6581983 AAAAATTATATAATATATAATTATT-AAAACATTTTTG
1 -AAAA-TATATAATATATAGTT-TTGAAATCA-TTTTG
* * *
6582020 AAAAAACTTATATAATATATAATTTTAAAAAACATTTTTG
1 --AAAA--TATATAATATATAGTTTT-GAAATCA-TTTTG
* * *
6582060 AAAAAATTATATACTTTATAGTTTTG--AT--TTTTT
1 --AAAA-TATATAATATATAGTTTTGAAATCATTTTG
* **
6582093 TAAA-ATATAATATATAGTTTAAAAAAT-ATTTTTG
1 AAAATATATAATATATAGTTT-TGAAATCA-TTTTG
*
6582127 -AAATATATATTATATAGTTT
1 AAAATATATAATATATAGTTT
6582147 ATATTATTAT
Statistics
Matches: 254, Mismatches: 29, Indels: 56
0.75 0.09 0.17
Matches are distributed among these distances:
29 14 0.06
31 3 0.01
32 2 0.01
33 8 0.03
34 41 0.16
35 24 0.09
36 34 0.13
37 9 0.04
38 46 0.18
39 35 0.14
40 26 0.10
41 6 0.02
42 6 0.02
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (34 bp):
AAAATATATAATATATAGTTTTGAAATCATTTTG
Found at i:6581955 original size:38 final size:37
Alignment explanation
Indices: 6581800--6582086 Score: 200
Period size: 38 Copynumber: 7.7 Consensus size: 37
6581790 ACAGTTTTCT
* * *
6581800 AAAATATATATATTATATAGTTTCGAAAACA-TTTCA
1 AAAATATATATAATATATAGTTTTGAAAACATTTTGA
* * * ***
6581836 AAAAAAAATATATTATATAGTTTTG-AATTTTTTTG-
1 AAAATATATATAATATATAGTTTTGAAAACATTTTGA
* *
6581871 AAAACATATATAATGTATAGTTTTTGAAAATGC-TTTTG-
1 AAAATATATATAATATATAG-TTTTGAAAA--CATTTTGA
*
6581909 -AAA-ATATATAATATATAGTTTTGAAATCATTTTGA
1 AAAATATATATAATATATAGTTTTGAAAACATTTTGA
* * *
6581944 AAATATATATATAATATTTAATTTTTAAAACATTTTTTGA
1 AAA-ATATATATAATATATAGTTTTGAAAACA--TTTTGA
*
6581984 AAAAT-TATATAATATATAATTATT-AAAACATTTTTGA
1 AAAATATATATAATATATAGTT-TTGAAAACA-TTTTGA
* *
6582021 AAAA-ACTTATATAATATATAATTTTAAAAAACATTTTTGA
1 AAAATA--TATATAATATATAGTTTT-GAAAACA-TTTTGA
* *
6582061 AAAA-ATTATATACTTTATAGTTTTGA
1 AAAATA-TATATAATATATAGTTTTGA
6582087 TTTTTTTAAA
Statistics
Matches: 209, Mismatches: 24, Indels: 34
0.78 0.09 0.13
Matches are distributed among these distances:
33 1 0.00
34 5 0.02
35 26 0.12
36 46 0.22
37 17 0.08
38 51 0.24
39 36 0.17
40 27 0.13
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
AAAATATATATAATATATAGTTTTGAAAACATTTTGA
Found at i:6582042 original size:39 final size:38
Alignment explanation
Indices: 6581909--6582072 Score: 201
Period size: 38 Copynumber: 4.3 Consensus size: 38
6581899 AATGCTTTTG
* * *
6581909 AAAA-TATATAATATATAGTTTTGAAATCA-TTTTGAA
1 AAAATTATATAATATATAATTTTAAAAACATTTTTGAA
* * *
6581945 AATATATATATAATATTTAATTTTTAAAACATTTTTTG-A
1 AAAAT-TATATAATATATAATTTTAAAAACA-TTTTTGAA
6581984 AAAATTATATAATATATAATTATT-AAAACATTTTTGAA
1 AAAATTATATAATATATAATT-TTAAAAACATTTTTGAA
6582022 AAAACTTATATAATATATAATTTTAAAAAACATTTTTGAA
1 AAAA-TTATATAATATATAATTTT-AAAAACATTTTTGAA
6582062 AAAATTATATA
1 AAAATTATATA
6582073 CTTTATAGTT
Statistics
Matches: 112, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
36 3 0.03
37 6 0.05
38 49 0.44
39 31 0.28
40 23 0.21
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (38 bp):
AAAATTATATAATATATAATTTTAAAAACATTTTTGAA
Found at i:6582156 original size:3 final size:3
Alignment explanation
Indices: 6582148--6582189 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6582138 ATATAGTTTA
6582148 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6582190 CATTTAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6582759 original size:19 final size:19
Alignment explanation
Indices: 6582735--6582775 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
6582725 GCCCCTCAGT
*
6582735 AAAAAACCAAAAAACACACA
1 AAAAAAACAAAAAA-ACACA
6582755 AAAAAAACAAAAAAACACA
1 AAAAAAACAAAAAAACACA
6582774 AA
1 AA
6582776 GACAACCCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAACACA
Found at i:6583395 original size:26 final size:26
Alignment explanation
Indices: 6583366--6583420 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6583356 TTTTATTTTA
*
6583366 ATTTCGTATATATATATATATATATT
1 ATTTCGTATATATATATACATATATT
** * *
6583392 ATTTTTTATATATATGTACATTTATT
1 ATTTCGTATATATATATACATATATT
6583418 ATT
1 ATT
6583421 ATTATTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTCGTATATATATATACATATATT
Found at i:6584269 original size:81 final size:81
Alignment explanation
Indices: 6584129--6584298 Score: 277
Period size: 81 Copynumber: 2.1 Consensus size: 81
6584119 GATCGGTATC
6584129 AAAATGTTCACATTTCACTCATCTTTCTTCTTCTAGGATTAGTTTTCCACAAAACACACTCAAAA
1 AAAA-GTTCACATTTCACTCATCTTTCTTCTTCTAGGATTAGTTTTCCACAAAACACACTCAAAA
6584194 TCGATGAAAACCCATAT
65 TCGATGAAAACCCATAT
** *
6584211 AAAAGTTCACATTTCACTCATCTTTCTTCTTCTAGGATTAGTTTTCTGCAAAACACACTCAGAAT
1 AAAAGTTCACATTTCACTCATCTTTCTTCTTCTAGGATTAGTTTTCCACAAAACACACTCAAAAT
* * *
6584276 CGATGCAAATCCATCT
66 CGATGAAAACCCATAT
6584292 AAAAGTT
1 AAAAGTT
6584299 GATGTGTTGC
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 78 0.95
82 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.34
Consensus pattern (81 bp):
AAAAGTTCACATTTCACTCATCTTTCTTCTTCTAGGATTAGTTTTCCACAAAACACACTCAAAAT
CGATGAAAACCCATAT
Found at i:6588985 original size:16 final size:16
Alignment explanation
Indices: 6588966--6588996 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6588956 ATATTTTTAT
6588966 ATTAATATTCATAATC
1 ATTAATATTCATAATC
*
6588982 ATTAATATTTATAAT
1 ATTAATATTCATAAT
6588997 TCACTGATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTAATATTCATAATC
Found at i:6595202 original size:170 final size:170
Alignment explanation
Indices: 6594920--6595265 Score: 674
Period size: 170 Copynumber: 2.0 Consensus size: 170
6594910 TTGGTAAATG
6594920 ATTGAATGGGGCAATAACTAAACAAAACCACTGAAGGAACAAATTCGAAGTGTTTGTTCTAGATA
1 ATTGAATGGGGCAATAACTAAACAAAACCACTGAAGGAACAAATTCGAAGTGTTTGTTCTAGATA
6594985 TTGAACACCAAAAAATCCAACTTTATTTTCAAAATTCTACACGTTCAGAAATATTTCAACTTCAT
66 TTGAACACCAAAAAATCCAACTTTATTTTCAAAATTCTACACGTTCAGAAATATTTCAACTTCAT
6595050 CTTAAATCCCAGCATTATGGTAGTAAGGAAAATATATGTT
131 CTTAAATCCCAGCATTATGGTAGTAAGGAAAATATATGTT
**
6595090 ATTGAATGGGGCAATAACTAAACAAAACCACTGAAGGAACAAATTCGAAGTGTTTGTTCTATTTA
1 ATTGAATGGGGCAATAACTAAACAAAACCACTGAAGGAACAAATTCGAAGTGTTTGTTCTAGATA
6595155 TTGAACACCAAAAAATCCAACTTTATTTTCAAAATTCTACACGTTCAGAAATATTTCAACTTCAT
66 TTGAACACCAAAAAATCCAACTTTATTTTCAAAATTCTACACGTTCAGAAATATTTCAACTTCAT
6595220 CTTAAATCCCAGCATTATGGTAGTAAGGAAAATATATGTT
131 CTTAAATCCCAGCATTATGGTAGTAAGGAAAATATATGTT
6595260 ATTGAA
1 ATTGAA
6595266 GAAACAAGTA
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 174 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (170 bp):
ATTGAATGGGGCAATAACTAAACAAAACCACTGAAGGAACAAATTCGAAGTGTTTGTTCTAGATA
TTGAACACCAAAAAATCCAACTTTATTTTCAAAATTCTACACGTTCAGAAATATTTCAACTTCAT
CTTAAATCCCAGCATTATGGTAGTAAGGAAAATATATGTT
Found at i:6596064 original size:14 final size:14
Alignment explanation
Indices: 6596045--6596088 Score: 70
Period size: 14 Copynumber: 3.0 Consensus size: 14
6596035 TAACAGACTT
6596045 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6596059 GTCTGTTTTCTACACA
1 GTCTGTTTTCT--ACA
6596075 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6596089 TGGTATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.48
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:6596077 original size:16 final size:16
Alignment explanation
Indices: 6596045--6596088 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
6596035 TAACAGACTT
6596045 GTCTGTTTTCT--ACA
1 GTCTGTTTTCTACACA
6596059 GTCTGTTTTCTACACA
1 GTCTGTTTTCTACACA
6596075 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
6596089 TGGTATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 11 0.39
16 17 0.61
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.48
Consensus pattern (16 bp):
GTCTGTTTTCTACACA
Found at i:6597786 original size:51 final size:51
Alignment explanation
Indices: 6597727--6597827 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
6597717 TCAGGGGGAG
*
6597727 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
6597778 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTAT
6597828 CATTTCCTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
Found at i:6604288 original size:37 final size:37
Alignment explanation
Indices: 6604212--6604288 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
6604202 TTTTTATATT
*
6604212 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
6604249 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
6604286 TTT
1 TTT
6604289 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:6604451 original size:18 final size:19
Alignment explanation
Indices: 6604428--6604464 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6604418 CCAGTAATCC
6604428 TATTCT-CTGGTAATCTTT
1 TATTCTACTGGTAATCTTT
6604446 TATTCTCACTGGTAATCTT
1 TATTCT-ACTGGTAATCTT
6604465 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (19 bp):
TATTCTACTGGTAATCTTT
Found at i:6605501 original size:20 final size:18
Alignment explanation
Indices: 6605472--6605510 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
6605462 TTTCATTTTT
6605472 TTATAAAAATATATCAATTA
1 TTATAAAAAT-TATC-ATTA
*
6605492 TTATATAAATTATCATTA
1 TTATAAAAATTATCATTA
6605510 T
1 T
6605511 AGTCAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATAAAAATTATCATTA
Found at i:6606943 original size:22 final size:22
Alignment explanation
Indices: 6606915--6606960 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6606905 AACTTAATAA
6606915 ATTATATTAATAATTTAGGGAT
1 ATTATATTAATAATTTAGGGAT
6606937 ATTATATTAATAATTTAGGGAT
1 ATTATATTAATAATTTAGGGAT
6606959 AT
1 AT
6606961 GGTCAACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (22 bp):
ATTATATTAATAATTTAGGGAT
Found at i:6607188 original size:77 final size:76
Alignment explanation
Indices: 6607058--6607211 Score: 245
Period size: 77 Copynumber: 2.0 Consensus size: 76
6607048 GGTGTGAGAG
* * * *
6607058 TCGTCATTGTCTCTGTAGTATTTGATCTGGATTAATCGATTAATAAATTGAAAACTAGTGGTTAT
1 TCGTCATTGTCTCTGTAGTATCTGATCTAGATTAATCAATTAATAAATCGAAAACTAGTGGTTAT
6607123 ACTATAAAAAAT
66 ACTA-AAAAAAT
* *
6607135 TCGTCCTTGTCTCTGTAGTATCTGATCTAGATTAATTAATTAATAAATCGAAAACTAGTGGTTAT
1 TCGTCATTGTCTCTGTAGTATCTGATCTAGATTAATCAATTAATAAATCGAAAACTAGTGGTTAT
6607200 ACTAAAAAAAT
66 ACTAAAAAAAT
6607211 T
1 T
6607212 AGGGATATGA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 8 0.11
77 63 0.89
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (76 bp):
TCGTCATTGTCTCTGTAGTATCTGATCTAGATTAATCAATTAATAAATCGAAAACTAGTGGTTAT
ACTAAAAAAAT
Found at i:6608847 original size:17 final size:18
Alignment explanation
Indices: 6608810--6608850 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
6608800 ATATTATGTA
*
6608810 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
6608828 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
6608845 TTTACT
1 TTTACT
6608851 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:6613182 original size:20 final size:19
Alignment explanation
Indices: 6613141--6613186 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6613131 AATATGGTAA
*
6613141 AAAAATTATCTTAATTTAC
1 AAAAATTATCTAAATTTAC
6613160 AAAAATTATCATAAAATTT-C
1 AAAAATTATC-T-AAATTTAC
6613180 AAAAATT
1 AAAAATT
6613187 GTATCACCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTATCTAAATTTAC
Found at i:6615547 original size:225 final size:225
Alignment explanation
Indices: 6615155--6615842 Score: 1006
Period size: 225 Copynumber: 3.1 Consensus size: 225
6615145 ATATAATCAA
* * * * *
6615155 TTAATTACTCGAAACATTATCAACCATAATAACATAATAGAG-AGCGCTTATATAATGTAATATG
1 TTAATTACTTGAAACATTATCAACCATAATAACATAACA-AGTAACGCTTATTTAATGTAATAAG
* * * * * *
6615219 TGACTCCTTTTTAAAGCTGATGGAGTCTTAGAAATACGATGATAACAAAATA-GTTTAATTATTT
65 TAACGCATGTTTAAAGCTGATGGAGCCTTAGAAAT-CGATGATAACAAAATATG-TTAATTAATT
* * *
6615283 GATTTGTTATCAATTTTATCAACATATTAGGTAGCGCCTAAAATGTTACTAAAGTTTAAGCTGAT
128 GATTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGTTGAT
* * * *
6615348 GGAGTCTTAAAAATCCGACGATAACAAAATAAG
193 GGAGCCTTAGAAATCAGACGATAACAAAATATG
* * *
6615381 TTAATTACTTGGAATATTATCAACCATAATAACATAACAAGTAACACTTATTTAATGTAATAAGT
1 TTAATTACTTGAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTAATAAGT
6615446 AACGCATGTTTAAAGCTGATGG-GCCTTAGAAATCTGATGATAACAAAATATGTTAATTAATTGA
66 AACGCATGTTTAAAGCTGATGGAGCCTTAGAAATC-GATGATAACAAAATATGTTAATTAATTGA
6615510 TTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGTTGATGG
130 TTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGTTGATGG
6615575 AGCCTTAGAAATCAGACGATAACAAAATATG
195 AGCCTTAGAAATCAGACGATAACAAAATATG
*
6615606 TTAATTACTAT-AAACATTATCAACCATAATAACGTAACAAGTAACGCTTATTTAATGTAATAAG
1 TTAATTACT-TGAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTAATAAG
* * * * * * *
6615670 TAATGCTTGTTTAAAGTTGATGGAGCCTTAGAATTCGACGATAACAAAATATGATAATTACTTGA
65 TAACGCATGTTTAAAGCTGATGGAGCCTTAGAAATCGATGATAACAAAATATGTTAATTAATTGA
* * *
6615735 TTTGTTATGAATATTATCAACATATTAGGTAGCGTCTAAAATATTACCAAAGTTTAAGTTGATGG
130 TTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGTTGATGG
*
6615800 AGCCTTAGAAATCTGACGATAACAAAATATG
195 AGCCTTAGAAATCAGACGATAACAAAATATG
6615831 TTAATTACTTGA
1 TTAATTACTTGA
6615843 TTTGTTTTCA
Statistics
Matches: 420, Mismatches: 36, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
224 2 0.00
225 333 0.79
226 85 0.20
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (225 bp):
TTAATTACTTGAAACATTATCAACCATAATAACATAACAAGTAACGCTTATTTAATGTAATAAGT
AACGCATGTTTAAAGCTGATGGAGCCTTAGAAATCGATGATAACAAAATATGTTAATTAATTGAT
TTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGTTGATGGA
GCCTTAGAAATCAGACGATAACAAAATATG
Found at i:6615665 original size:23 final size:23
Alignment explanation
Indices: 6615639--6615683 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6615629 CCATAATAAC
6615639 GTAACAAGTAACGCTTATTTAAT
1 GTAACAAGTAACGCTTATTTAAT
* * *
6615662 GTAATAAGTAATGCTTGTTTAA
1 GTAACAAGTAACGCTTATTTAA
6615684 AGTTGATGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (23 bp):
GTAACAAGTAACGCTTATTTAAT
Found at i:6616038 original size:15 final size:15
Alignment explanation
Indices: 6616018--6616049 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6616008 AAACTAACAT
6616018 GTTTCGAAATTATAA
1 GTTTCGAAATTATAA
6616033 GTTTCGAAATTATAA
1 GTTTCGAAATTATAA
6616048 GT
1 GT
6616050 ATCAATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (15 bp):
GTTTCGAAATTATAA
Found at i:6616999 original size:21 final size:21
Alignment explanation
Indices: 6616956--6617049 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
6616946 TTTTCCCAAT
** *
6616956 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTTGAAAA
6616976 TCGCAATGCGAATTTTGAAAA
1 TCGCAATGCGAATTTTGAAAA
6616997 TCGCAATGCGAATTTTGAAAA
1 TCGCAATGCGAATTTTGAAAA
*
6617018 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTTGAAAA
*
6617039 TCGCAACGCGA
1 TCGCAATGCGA
6617050 TACTAACTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
20 12 0.18
21 56 0.82
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTTGAAAA
Found at i:6617064 original size:20 final size:20
Alignment explanation
Indices: 6617039--6617111 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
6617029 ATTTGGAAAA
6617039 TCGCAACGCGATACTAACTT
1 TCGCAACGCGATACTAACTT
*
6617059 TCGCAACTCGATACTTAA-TT
1 TCGCAACGCGATAC-TAACTT
* *
6617079 TCGCAACGCAATACTGACTT
1 TCGCAACGCGATACTAACTT
*
6617099 TCGCAACGAGATA
1 TCGCAACGCGATA
6617112 ATACATAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.04
20 40 0.89
21 3 0.07
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTAACTT
Found at i:6617327 original size:22 final size:22
Alignment explanation
Indices: 6617299--6617342 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6617289 ACTCTCTCAC
6617299 CCATCTCCGACGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
*
6617321 CCATCTCCGGCGAAATCCGTCT
1 CCATCTCCGACGAAATCCGTCT
6617343 ATCTCCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.23
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCT
Found at i:6617653 original size:20 final size:20
Alignment explanation
Indices: 6617604--6617662 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6617594 TTTATTCTCT
* **
6617604 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
6617624 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
6617644 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
6617663 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:6617850 original size:25 final size:24
Alignment explanation
Indices: 6617796--6617850 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6617786 TGTTTATTAT
* *
6617796 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
6617820 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
6617846 TGTTT
1 TGTTT
6617851 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:6619262 original size:20 final size:20
Alignment explanation
Indices: 6619237--6619278 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6619227 TAGTTTACTT
6619237 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
6619257 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
6619277 TC
1 TC
6619279 ACAATGTGAA
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:6619332 original size:14 final size:14
Alignment explanation
Indices: 6619313--6619371 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
6619303 TTGTGTTTCG
6619313 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
6619327 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
6619344 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
6619360 CTTTGCGATTTT
1 CGTTGCGATTTT
6619372 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 18 0.49
15 3 0.08
16 3 0.08
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:6619345 original size:33 final size:33
Alignment explanation
Indices: 6619308--6619387 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
6619298 GCGATTTGTG
*
6619308 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
6619341 TTTCGCATTGCGATTTTGTCTTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
6619374 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
6619388 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:6619406 original size:20 final size:20
Alignment explanation
Indices: 6619371--6619446 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
6619361 TTTGCGATTT
*
6619371 TCATTT-CGCATTGCGATAG
1 TCATTTCCGCGTTGCGATAG
*
6619390 CCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
6619410 TCATTTCCGCGTTGCGATAG
1 TCATTTCCGCGTTGCGATAG
*
6619430 TCATTTTCGCGTTGCGA
1 TCATTTCCGCGTTGCGA
6619447 AAGTAAGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 5 0.10
20 47 0.90
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.36
Consensus pattern (20 bp):
TCATTTCCGCGTTGCGATAG
Found at i:6619416 original size:39 final size:40
Alignment explanation
Indices: 6619362--6619446 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
6619352 GATTTTGTCT
**
6619362 TTGCGATTTTCATTT-CGCATTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTCCGCATTGCGATAGCCATTTCCGCG
* * *
6619401 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCATTGCGATAGCCATTTCCGCG
6619441 TTGCGA
1 TTGCGA
6619447 AAGTAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.32
40 27 0.68
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCATTGCGATAGCCATTTCCGCG
Found at i:6619457 original size:20 final size:19
Alignment explanation
Indices: 6619373--6619472 Score: 65
Period size: 20 Copynumber: 5.1 Consensus size: 19
6619363 TGCGATTTTC
* * **
6619373 ATTTCGCATTGCGATAGCC
1 ATTTCGCGTTGCGAAAGTA
* *
6619392 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGAAAGTA
*
6619412 ATTTCCGCGTTGCGATAGTCA
1 ATTT-CGCGTTGCGAAAGT-A
*
6619433 TTTTCGCGTTGCGAAAGTA
1 ATTTCGCGTTGCGAAAGTA
***
6619452 AGTTTCATTTTGCGAAAGTA
1 A-TTTCGCGTTGCGAAAGTA
6619472 A
1 A
6619473 ACTATTCTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
19 5 0.07
20 61 0.88
21 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (19 bp):
ATTTCGCGTTGCGAAAGTA
Found at i:6619466 original size:40 final size:40
Alignment explanation
Indices: 6619381--6619457 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
6619371 TCATTTCGCA
* * *
6619381 TTGCGATAGCCATTTCCGCGTTGCGATAGTCATTTCCGCG
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGTAATTTCCACG
* *
6619421 TTGCGATAGTCATTTTCGCGTTGCGAAAGTAAGTTTC
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGTAA-TTTC
6619458 ATTTTGCGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (40 bp):
TTGCGATAGCCATTTCCGCGTTGCGAAAGTAATTTCCACG
Found at i:6620266 original size:152 final size:151
Alignment explanation
Indices: 6619991--6620294 Score: 599
Period size: 152 Copynumber: 2.0 Consensus size: 151
6619981 TGGATGAGAG
6619991 TTGGCTCTCGTATGAGTTATCGGCTAGTACCCTTCCGTATCTGAAGTGGAGAGGAGACAACTACC
1 TTGGCTCTCGTATGAGTTATCGGCTAGTACCCTTCCGTATCTGAAGTGGAGAGGAGACAACTACC
6620056 GGAAACAATTCTGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGA
66 GGAAACAATTCTGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGA
6620121 GCCAAGGGTGTTACACTGACA
131 GCCAAGGGTGTTACACTGACA
6620142 TTGGCTCTCGTATGAGTTATCGGCTAGTACCCTTCCGGTATCTGAAGTGGAGAGGAGACAACTAC
1 TTGGCTCTCGTATGAGTTATCGGCTAGTACCCTTCC-GTATCTGAAGTGGAGAGGAGACAACTAC
6620207 CGGAAACAATTCTGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGG
65 CGGAAACAATTCTGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGG
6620272 AGCCAAGGGTGTTACACTGACA
130 AGCCAAGGGTGTTACACTGACA
6620294 T
1 T
6620295 AAGTAAACTC
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 36 0.24
152 116 0.76
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (151 bp):
TTGGCTCTCGTATGAGTTATCGGCTAGTACCCTTCCGTATCTGAAGTGGAGAGGAGACAACTACC
GGAAACAATTCTGGATAATACCCTTTGGGCTAAGACCGCAGTTGATTTTTATCTACATGAGCGGA
GCCAAGGGTGTTACACTGACA
Found at i:6621672 original size:20 final size:20
Alignment explanation
Indices: 6621647--6621763 Score: 180
Period size: 20 Copynumber: 5.8 Consensus size: 20
6621637 ATTGTGATTT
* *
6621647 TCAGAATCTCGTTACGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
6621667 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
6621687 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
6621707 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
* *
6621727 TCAGTATCGCATTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
6621747 TCAGTATCGCGTTGCGA
1 TCAGAATCGCGTTGCGA
6621764 TTTTGTATTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 92 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:6621823 original size:21 final size:20
Alignment explanation
Indices: 6621797--6621845 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6621787 GTCAGTATCA
*
6621797 CATTGCGATTTTCCAAATTCG
1 CATTGCGA-TTTACAAATTCG
**
6621818 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACAAATTCG
6621838 CATTGCGA
1 CATTGCGA
6621846 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACAAATTCG
Found at i:6621824 original size:41 final size:43
Alignment explanation
Indices: 6621733--6621826 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 43
6621723 AAAGTCAGTA
* * * ** *
6621733 TCGCATTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATC
1 TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCATAATC
6621776 TCG--TTGCGATAGTCAGTATCACATTGCGATTTTCCA-AAT-
1 TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCATAATC
6621815 TCGCATTGCGAT
1 TCGCATTGCGAT
6621827 TTACTTATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
39 3 0.07
40 2 0.05
41 35 0.81
43 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (43 bp):
TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCATAATC
Found at i:6622061 original size:12 final size:12
Alignment explanation
Indices: 6622042--6622075 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6622032 CTCTCCGGCG
6622042 ACATCCGTTCCT
1 ACATCCGTTCCT
*
6622054 ATATCCGTTCCT
1 ACATCCGTTCCT
6622066 ACATCC-TTCC
1 ACATCCGTTCC
6622076 CCATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:6622656 original size:24 final size:24
Alignment explanation
Indices: 6622629--6622682 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
6622619 GTATTTGAAA
6622629 TTTGATATTGGTCAATACCTGGAC
1 TTTGATATTGGTCAATACCTGGAC
* *
6622653 TTTGATATTGGTCAATACTTGGAT
1 TTTGATATTGGTCAATACCTGGAC
6622677 TTTGAT
1 TTTGAT
6622683 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCTGGAC
Found at i:6622874 original size:12 final size:12
Alignment explanation
Indices: 6622857--6622881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6622847 ATATAATCCT
6622857 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6622869 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6622881 G
1 G
6622882 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6625229 original size:19 final size:18
Alignment explanation
Indices: 6625207--6625337 Score: 88
Period size: 19 Copynumber: 7.7 Consensus size: 18
6625197 GAAAATTACT
6625207 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
6625226 ATCGCAA-CG--A-GATA
1 ATCGCAAGCGAAATGAAA
*
6625240 ATCGCAATGCAAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
6625259 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
6625273 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
6625292 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
6625306 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
6625325 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
6625338 TTTAGTTTCA
Statistics
Matches: 86, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
14 27 0.31
15 5 0.06
16 5 0.06
17 5 0.06
18 5 0.06
19 39 0.45
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:6625249 original size:33 final size:33
Alignment explanation
Indices: 6625207--6625333 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
6625197 GAAAATTACT
*
6625207 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6625240 ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6625273 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
6625306 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6625334 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6625375 original size:19 final size:19
Alignment explanation
Indices: 6625333--6625378 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
6625323 AAATCGCAAC
*
6625333 GCGAATTTAGTTTCACGTT
1 GCGATTTTAGTTTCACGTT
*
6625352 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCACGTT
6625371 GCGATTTT
1 GCGATTTT
6625379 GTCGTTGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCACGTT
Found at i:6625390 original size:33 final size:33
Alignment explanation
Indices: 6625348--6625474 Score: 166
Period size: 33 Copynumber: 3.8 Consensus size: 33
6625338 TTTAGTTTCA
* * *
6625348 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTATCT
* * *
6625381 CGTTGCGATTTTTATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
* *
6625414 AGTTACGATTTTCATTTCGCATTGCGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
6625447 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
6625475 AGTAATTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 81 0.99
34 1 0.01
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTATCT
Found at i:6625473 original size:19 final size:19
Alignment explanation
Indices: 6625419--6625474 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
6625409 TCTCTAGTTA
6625419 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
6625438 CGA--TT-ATCTCG--TTG
1 CGATTTTCATTTCGCATTG
6625452 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
6625471 CGAT
1 CGAT
6625475 AGTAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 6 0.20
16 7 0.23
17 7 0.23
19 10 0.33
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:6625600 original size:14 final size:15
Alignment explanation
Indices: 6625581--6625617 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
6625571 CATCAATTAA
6625581 ACAAATCAAC-TTTT
1 ACAAATCAACATTTT
6625595 ACAAATC-ACATTTT
1 ACAAATCAACATTTT
6625609 ACAAATCAA
1 ACAAATCAA
6625618 TTAAACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (15 bp):
ACAAATCAACATTTT
Found at i:6627036 original size:21 final size:21
Alignment explanation
Indices: 6626970--6627036 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6626960 GTGAATCGGG
*
6626970 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
6626990 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
6627012 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
6627033 CTCT
1 CTCT
6627037 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:6627471 original size:78 final size:79
Alignment explanation
Indices: 6627329--6627481 Score: 245
Period size: 78 Copynumber: 1.9 Consensus size: 79
6627319 AAGACAAAAC
*
6627329 AAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAATGTT--A-AATAAACAGTTTAGCAGAATTGGCAGCAACCGAA
6627394 TAAATTTACTTCAACCA
63 TAAATTTACTTCAACCA
* *
6627411 AAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAA
1 AAAGACAAATACTAACTTCACAATGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
6627475 ATTTACT
66 ATTTACT
6627482 AAGCAATCTA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 42 0.62
82 26 0.38
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (79 bp):
AAAGACAAATACTAACTTCACAATGTTAAATAAACAGTTTAGCAGAATTGGCAGCAACCGAATAA
ATTTACTTCAACCA
Found at i:6629189 original size:20 final size:19
Alignment explanation
Indices: 6629162--6629311 Score: 89
Period size: 19 Copynumber: 8.6 Consensus size: 19
6629152 TCTTTTGGTT
6629162 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6629181 GATAATGAAAATCGCAACGGG
1 GA-AATGAAAATCGCAAC-GA
**
6629202 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
**
6629221 G----G--AATCGCAACTC
1 GAAATGAAAATCGCAACGA
**
6629234 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6629253 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
6629267 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
6629286 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
6629300 GAAATGAAAATC
1 GAAATGAAAATC
6629312 ACAATGCGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 36
0.66 0.09 0.24
Matches are distributed among these distances:
13 9 0.09
14 21 0.21
15 1 0.01
16 4 0.04
17 5 0.05
19 28 0.28
20 28 0.28
21 3 0.03
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6629259 original size:33 final size:33
Alignment explanation
Indices: 6629190--6629306 Score: 182
Period size: 33 Copynumber: 3.5 Consensus size: 33
6629180 AGATAATGAA
*
6629190 AATCGCAACGGGGAAATGACTATCGCAACGAG-G
1 AATCGCAAC-GCGAAATGACTATCGCAACGAGAG
*
6629223 AATCGCAACTCGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
**
6629256 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACGAGAG
6629289 AATCGCAACGCGAAATGA
1 AATCGCAACGCGAAATGA
6629307 AAATCACAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
32 20 0.26
33 58 0.74
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAG
Found at i:6629262 original size:14 final size:14
Alignment explanation
Indices: 6629211--6629298 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
6629201 GGAAATGACT
6629211 ATCGCAACGAG-GA
1 ATCGCAACGAGAGA
*
6629224 ATCGCAACTCGAAATGA
1 ATCGCAA--CGAGA-GA
6629241 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
6629257 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
6629276 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
6629290 ATCGCAACG
1 ATCGCAACG
6629299 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 21
0.71 0.05 0.25
Matches are distributed among these distances:
13 7 0.12
14 19 0.32
15 4 0.07
16 4 0.07
17 8 0.13
18 1 0.02
19 17 0.28
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:6629307 original size:33 final size:33
Alignment explanation
Indices: 6629162--6629311 Score: 176
Period size: 33 Copynumber: 4.4 Consensus size: 33
6629152 TCTTTTGGTT
*
6629162 GAAATGAAAATCGCAACGAGATAATGAAAATCGCAACGGG
1 GAAATGAAAATCGCAACGAG---A-G--AATCGCAAC-GC
** *
6629202 GAAATGACTATCGCAACGAG-GAATCGCAACTC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
6629234 GAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6629267 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6629300 GAAATGAAAATC
1 GAAATGAAAATC
6629312 ACAATGCGAT
Statistics
Matches: 102, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
32 20 0.20
33 63 0.62
35 1 0.01
40 18 0.18
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6629353 original size:33 final size:33
Alignment explanation
Indices: 6629316--6629387 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
6629306 AAAATCACAA
**
6629316 TGCGATTTTGGTTTCGCGATGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGATGCGATTATCTCGT
* * *
6629349 TGCGATTTTCATTTCGCGTTGCGATTCTCTCTT
1 TGCGATTTTCATTTCGCGATGCGATTATCTCGT
6629382 TGCGAT
1 TGCGAT
6629388 AGTTATTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGATGCGATTATCTCGT
Found at i:6629396 original size:33 final size:33
Alignment explanation
Indices: 6629327--6629408 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
6629317 GCGATTTTGG
* *
6629327 TTTCGCGATGCGATTATCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATGTTCA
* *
6629360 TTTCGCGTTGCGATTCTCTCTTTGCGATAGTT-A
1 TTTCGCGTTGCGATTATCTCGTTGCGAT-GTTCA
6629393 TTTCCGCGTTGCGATT
1 TTT-CGCGTTGCGATT
6629409 TTCATTCTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 29 0.67
34 14 0.33
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATGTTCA
Found at i:6629974 original size:21 final size:20
Alignment explanation
Indices: 6629928--6630001 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 20
6629918 CGATAGTAAG
*
6629928 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTTCGT
*
6629948 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTTCGT
6629968 AATTCGCATTGCGATTTAT-GT
1 -ATTCGCATTGCGATTT-TCGT
6629989 ATTCGCATTGCGA
1 ATTCGCATTGCGA
6630002 ATTATGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
20 31 0.63
21 17 0.35
22 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTTCGT
Found at i:6630006 original size:20 final size:20
Alignment explanation
Indices: 6629910--6630007 Score: 92
Period size: 20 Copynumber: 4.8 Consensus size: 20
6629900 GCTATGTAAA
* *
6629910 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGA-ATTATGTAT
* *
6629930 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGAATTATGTAT
* *
6629950 TCGCATTGCG-ATTTTCCTAAT
1 TCGCATTGCGAATTAT-GT-AT
*
6629971 TCGCATTGCGATTTATGTAT
1 TCGCATTGCGAATTATGTAT
6629991 TCGCATTGCGAATTATG
1 TCGCATTGCGAATTATG
6630008 AAAATCGCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.08
20 42 0.67
21 13 0.21
22 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGAATTATGTAT
Found at i:6630016 original size:41 final size:41
Alignment explanation
Indices: 6629930--6630139 Score: 151
Period size: 41 Copynumber: 5.1 Consensus size: 41
6629920 ATAGTAAGAT
* ** *
6629930 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTTTCCTAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTAT-GAAAA
*
6629971 TCGCATTGCGATTTATGTATTCGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAA
** ** * * *
6630012 TCGCAACGC-AAATACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGAATTATGAAAA
* * * * *
6630053 TTGCATTGCGATCGT-CAGTA-TCGCATTGCG-ATTTTCCAAAT
1 TCGCATTGCGAT-TTAC-GTATTCGCATTGCGAATTAT-GAAAA
* * **
6630094 TCACATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAA
6630135 TCGCA
1 TCGCA
6630140 ACGCGAAATT
Statistics
Matches: 128, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
40 11 0.09
41 104 0.81
42 10 0.08
43 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAA
Found at i:6630062 original size:21 final size:21
Alignment explanation
Indices: 6629991--6630063 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
6629981 ATTTATGTAT
* *
6629991 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* * *
6630012 TCGCAACGC-AAATACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
6630032 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
6630053 TTGCATTGCGA
1 TCGCAATGCGA
6630064 TCGTCAGTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:6630120 original size:20 final size:21
Alignment explanation
Indices: 6630073--6630124 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6630063 ATCGTCAGTA
*
6630073 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
6630094 TCACATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
6630114 TCGCATTGCGA
1 TCGCATTGCGA
6630125 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:6630166 original size:21 final size:22
Alignment explanation
Indices: 6630114--6630166 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
6630104 ATTTACTTAT
6630114 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
6630135 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
6630156 TCGCATTGCGA
1 TCGCATTGCGA
6630167 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:6630185 original size:123 final size:122
Alignment explanation
Indices: 6629907--6630186 Score: 334
Period size: 123 Copynumber: 2.3 Consensus size: 122
6629897 GGCGCTATGT
* * * *
6629907 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATT
1 AAATCGCATTGCGATAGTAAAAATCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCAAATT
* * *
6629972 CGCATTGCGATTTATGTATTCGCATTGCGAATTATGAAAATCGCAACGCAAATACGT
66 CACATTGCGATTTATGTATTCGCATTGCGAATTAGGAAAATCGCAACGCAAATACGA
* * *
6630029 AAATCGCAATGCGAATTAG-GAAAATTGCATTGCGATCGTCA-GTA-TCGCATTGCGATTTTCCA
1 AAATCGCATTGCG-A-TAGTAAAAATCGCATTGCGAT--TCACGTATTCGCATTGCGATTTTCCA
* **
6630091 AATTCACATTGCGATTTACT-TATTCGCATTGCGAATTGGGAAAATCGCAACGCGAAATTGGA
62 AATTCACATTGCGATTTA-TGTATTCGCATTGCGAATTAGGAAAATCGCAACGC-AAATACGA
* * *
6630153 AAATCGCATTGCGATAGTCATAATCGCGTTGCGA
1 AAATCGCATTGCGATAGTAAAAATCGCATTGCGA
6630187 ATCTGGAAAC
Statistics
Matches: 133, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
122 15 0.11
123 92 0.69
124 24 0.18
125 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (122 bp):
AAATCGCATTGCGATAGTAAAAATCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCAAATT
CACATTGCGATTTATGTATTCGCATTGCGAATTAGGAAAATCGCAACGCAAATACGA
Found at i:6641229 original size:17 final size:17
Alignment explanation
Indices: 6641205--6641240 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6641195 ATAAAAAAGT
6641205 AAAAAAACATAAA-ATA
1 AAAAAAACATAAACATA
6641221 AAAATAAACATAAACATA
1 AAAA-AAACATAAACATA
6641239 AA
1 AA
6641241 TACAAGGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 9 0.50
18 5 0.28
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAAAACATAAACATA
Found at i:6641233 original size:12 final size:11
Alignment explanation
Indices: 6641182--6641240 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
6641172 TAATTTTAAA
6641182 AAAATAACAAAT
1 AAAATAA-AAAT
*
6641194 AATAA-AAAAGT
1 AA-AATAAAAAT
*
6641205 AAAA-AAACAT
1 AAAATAAAAAT
6641215 AAAATAAAAAT
1 AAAATAAAAAT
*
6641226 AAACATAAACAT
1 AAA-ATAAAAAT
6641238 AAA
1 AAA
6641241 TACAAGGACC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 10 0.26
11 13 0.33
12 14 0.36
13 2 0.05
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:6645144 original size:65 final size:65
Alignment explanation
Indices: 6645008--6645170 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
6644998 CGGTGCACCA
*
6645008 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
** * **
6645072 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATG
6645136 G
65 G
* *
6645137 AGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
6645171 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.43
65 49 0.57
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
Found at i:6645210 original size:65 final size:64
Alignment explanation
Indices: 6645010--6645219 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
6645000 GTGCACCAAG
* * ** *
6645010 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-C
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC
* * *
6645073 TTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA
1 -TGTGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGA
*
6645138 G
64 C
* *
6645139 TGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGG
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGG
6645201 AC
63 AC
6645203 TGATGCATCGGTGCATG
1 TG-TGCATCGGTGCATG
6645220 CCTTTGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 55 0.43
65 62 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC
Found at i:6645410 original size:20 final size:21
Alignment explanation
Indices: 6645387--6645426 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6645377 GAATCGAATA
6645387 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
6645407 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
6645427 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:6651642 original size:22 final size:21
Alignment explanation
Indices: 6651600--6651639 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6651590 GAGTTTGTTT
*
6651600 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6651621 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6651640 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Done.