Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000253.1 Hibiscus syriacus cultivar Beakdansim tig00000464_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: 106800
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:537 original size:111 final size:110
Alignment explanation
Indices: 341--562 Score: 385
Period size: 112 Copynumber: 2.0 Consensus size: 110
331 AACAATAACC
*
341 CAAATCAGTAGAAATCCAAACCAAATCAAAACCCATTAAAAAAACAAAATAAATCCCGAAAAATC
1 CAAATCAGTAGAAATCCAAACCAAATCAAAACCCATTAAAAAAACAAAATAAATCCCAAAAAATC
*
406 GGGATTTCATTAGTAAAAATCAGAAATCTA-TTTCCTACTCACTAGA
66 AGGATTTCATTAGTAAAAATC--AAATCTATTTTCCTACTCACTAGA
452 CAAATCAGTAGAAATCCAAACCAAATCGAAAACCCATTAAAAAAACAAAATAAATCCCAAAAAAT
1 CAAATCAGTAGAAATCCAAACCAAATC-AAAACCCATTAAAAAAACAAAATAAATCCCAAAAAAT
517 CAGGATTTCATTAGT-AAAATCAAATCTATTTTCCTACTCACTAGA
65 CAGGATTTCATTAGTAAAAATCAAATCTATTTTCCTACTCACTAGA
562 C
1 C
563 CTCATCATCT
Statistics
Matches: 107, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
109 7 0.07
110 17 0.16
111 33 0.31
112 50 0.47
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.22
Consensus pattern (110 bp):
CAAATCAGTAGAAATCCAAACCAAATCAAAACCCATTAAAAAAACAAAATAAATCCCAAAAAATC
AGGATTTCATTAGTAAAAATCAAATCTATTTTCCTACTCACTAGA
Found at i:1605 original size:2 final size:2
Alignment explanation
Indices: 1600--1663 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
1590 TTCGTTAGTG
1600 AT AT 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 AT AT
1642 AT A- AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1664 TAATATTAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1903 original size:18 final size:18
Alignment explanation
Indices: 1872--1921 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1862 CATATTTTGA
*
1872 ATTTTCATTCTATTATCTT
1 ATTTT-ATTTTATTATCTT
*
1891 -TTTTATTTGTATTATTTT
1 ATTTTATTT-TATTATCTT
1909 ATTTTATTTTATT
1 ATTTTATTTTATT
1922 TTGTGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 16 0.59
19 8 0.30
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTATTTTATTATCTT
Found at i:7418 original size:2 final size:2
Alignment explanation
Indices: 7411--7435 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7401 TAAAGGCGAT
7411 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7436 GAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8283 original size:16 final size:16
Alignment explanation
Indices: 8256--8295 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8246 GATCGAGAAA
*
8256 ACATATATCAACACAT
1 ACATACATCAACACAT
*
8272 ATATACATCAACACAT
1 ACATACATCAACACAT
8288 ACATACAT
1 ACATACAT
8296 GATACATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:8910 original size:15 final size:15
Alignment explanation
Indices: 8890--8942 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
8880 TAATTTTGTC
8890 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
* *
8905 TCTCTTGAAACAATT
1 TCTCTTGAGACAGTT
* *
8920 ATCTC-TGAGTCTGTT
1 -TCTCTTGAGACAGTT
8935 TCTCTTGA
1 TCTCTTGA
8943 AACAATCATC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 4 0.13
15 22 0.73
16 4 0.13
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:8936 original size:30 final size:30
Alignment explanation
Indices: 8902--8974 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
8892 TCTTGAGACA
*
8902 GTTTCTCTTGAAACAATTATCTCTGAGTCT
1 GTTTCTCTTGAAACAATCATCTCTGAGTCT
8932 GTTTCTCTTGAAACAATCATCTCTGAGTCT
1 GTTTCTCTTGAAACAATCATCTCTGAGTCT
8962 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
8975 TAAATCCCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (30 bp):
GTTTCTCTTGAAACAATCATCTCTGAGTCT
Found at i:10507 original size:16 final size:18
Alignment explanation
Indices: 10483--10520 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
10473 CATTTTAGTC
10483 ATATATGTT-AAGTG-TT
1 ATATATGTTCAAGTGTTT
*
10499 ATATCTGTTCAAGTGTTT
1 ATATATGTTCAAGTGTTT
10517 ATAT
1 ATAT
10521 TTCTAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (18 bp):
ATATATGTTCAAGTGTTT
Found at i:17728 original size:33 final size:33
Alignment explanation
Indices: 17658--17720 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
17648 TCAATGCCCC
* **
17658 CTCGATCCTGGGTTCATCCTCTTCTCTGGACAA
1 CTCGATCCTGGGCTCATCCTCACCTCTGGACAA
17691 CTCGATCCTGGGCTCATCCATCACCT-TGGA
1 CTCGATCCTGGGCTCATCC-TCACCTCTGGA
17721 TGACTCGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.16, C:0.35, G:0.19, T:0.30
Consensus pattern (33 bp):
CTCGATCCTGGGCTCATCCTCACCTCTGGACAA
Found at i:19232 original size:16 final size:17
Alignment explanation
Indices: 19211--19244 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
19201 CCGACCAAAT
19211 TTCACTATTCAC-TAAA
1 TTCACTATTCACGTAAA
19227 TTCACTATTCACGTAAA
1 TTCACTATTCACGTAAA
19244 T
1 T
19245 AGTAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (17 bp):
TTCACTATTCACGTAAA
Found at i:21908 original size:26 final size:27
Alignment explanation
Indices: 21865--21916 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
21855 AAAAGTTAAG
21865 AATTTTTTCAAAAATATATAAA-ATTTAT
1 AATTTTTT-AAAAATATA-AAATATTTAT
*
21893 AATTTTTT-AAATTATAAAATATTT
1 AATTTTTTAAAAATATAAAATATTT
21917 TTTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
28 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AATTTTTTAAAAATATAAAATATTTAT
Found at i:26424 original size:2 final size:2
Alignment explanation
Indices: 26417--26454 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
26407 TGAATTTTTC
26417 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
26455 TAGCGTGACT
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:27962 original size:3 final size:3
Alignment explanation
Indices: 27954--28024 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
27944 TTTGGGCCTG
* * * * * *
27954 TAA TAA TAA TAA TTA TAT TAA TAA TAT TAT TAT TAA T-A CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
28001 TAA TAT TAA TAA CAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
28025 AAATGAGAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 1 0.02
3 54 0.98
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:27996 original size:20 final size:20
Alignment explanation
Indices: 27954--28024 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
27944 TTTGGGCCTG
*
27954 TAATAATAATAATT-ATATTAA
1 TAATAATAAT-ATTAATA-CAA
* *
27975 TAATATTATTATTAATACAA
1 TAATAATAATATTAATACAA
27995 TAATAATAATATTAATAACAA
1 TAATAATAATATTAAT-ACAA
*
28016 CAATAATAA
1 TAATAATAA
28025 AAATGAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 19 0.45
21 23 0.55
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATAATAATATTAATACAA
Found at i:28700 original size:177 final size:177
Alignment explanation
Indices: 28403--29336 Score: 1350
Period size: 177 Copynumber: 5.3 Consensus size: 177
28393 AACAGAAAAG
* * * * * *
28403 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCAAATGACTTATAAATCAAGAAACCCCT
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * *
28468 AAAGGCTTAGTTTCTTAGTTGTCAAGTAACCCCTTTGTTAGGCTTAGTTTCCTTTAACAACTATT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
*
28533 TTGAGATAATTAGGAAACCCCCGAAGGCTTAGTTTCTAAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCT-AAAATCTCAT
* * * *
28581 TTGAAAACATCCTGCACTGAAGATCTTATGGATGGCCCGAAGGACTTATAAATAAAG-AACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * *
28645 AAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAATAGCTATT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
* *
28710 TTGAGATAATTAGTAAACCCCCGAAGGCTTGGTTTCTAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
28757 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAA-GACTTACGAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCG-AAGGACTTACAAATCAAGAAACCCC
** * ** * * *
28821 CGAAGGCTTAGTTTCTTACATGTCAATGAACCATTTTTTTAGGCTTAACTTCCTTTAATAACTCT
65 CGAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCT
*
28886 TTTGAGATAATTAGAAAACCCCCGAAGGCTTAATTTCTAAAATCTCAT
130 TTTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * * * *
28934 TTAAAAACATCCTGCACTAAAGATCTTATTGATGGCTCGAAGGACTTAAAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * *
28999 GAAGGCTTAGTTTCTTAGTTGTCAATGAACCTCTTTTTTAGGCTTAGCTTCCTTTAAAAACTCTT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
* *
29064 TTGAGATAATTAGAAAACCCCCAAAGGCTTAGTTTTTAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
29111 TTGAAAACATCTTGCACTAAAGGTCTTATGGATGGCCCAAAGGATTTACAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * *
29176 GAATGCTTAGTTTCTTAGTTGCCAAGGAACCTCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
*
29241 TTGAGATAATTAGAAAACCCTCGAAGGCTTAGTTTCTAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
29288 TTGAAAACATCATACACTAAAGGTCTTATGGATTGCCCGAAGGACTTAC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTAC
29337 CAATTCGAGA
Statistics
Matches: 685, Mismatches: 68, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
176 61 0.09
177 572 0.84
178 52 0.08
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (177 bp):
TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
Found at i:30918 original size:52 final size:51
Alignment explanation
Indices: 30810--30919 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 51
30800 ATATCCCAAA
* * * *
30810 CTTTTTATACTGGTGTGAGCCTTCAAGATGCCCCACATGGAATACTTCTTT
1 CTTTTTATGCTGATGTGAGCCTTCAAAATGCCCCACATGGAATACTTCTAT
* * * * *
30861 TTTTTTCATGCTGATGTGAGCCTTCAAAATGTCCCATATGGATTGCTTCTAT
1 CTTTTT-ATGCTGATGTGAGCCTTCAAAATGCCCCACATGGAATACTTCTAT
30913 CTTTTTA
1 CTTTTTA
30920 ATGTTGATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
51 6 0.12
52 42 0.88
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (51 bp):
CTTTTTATGCTGATGTGAGCCTTCAAAATGCCCCACATGGAATACTTCTAT
Found at i:32452 original size:10 final size:10
Alignment explanation
Indices: 32437--32505 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 10
32427 TTGATTCAAT
32437 TTCTTTTTTC
1 TTCTTTTTTC
32447 TTC-TTTTTC
1 TTCTTTTTTC
32456 ATCTCTCTTTTTC
1 -T-TCT-TTTTTC
*
32469 TTTTTCTTTTTC
1 -TTCT-TTTTTC
*
32481 TCTCTTTTTTT
1 T-TCTTTTTTC
*
32492 TTCTTTTTTT
1 TTCTTTTTTC
32502 TTCT
1 TTCT
32506 CTCTAATGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.12
10 17 0.34
11 9 0.18
12 11 0.22
13 7 0.14
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:32482 original size:22 final size:20
Alignment explanation
Indices: 32438--32499 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
32428 TGATTCAATT
*
32438 TCTTTTTTCTTCTTTTTCATCTC
1 TCTTTTTTTTTC-TTTT--TCTC
32461 TCTTTTTCTTTTTCTTTTTCTC
1 TC-TTTT-TTTTTCTTTTTCTC
32483 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
32500 TTTTCTCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
22 6 0.17
23 2 0.06
24 8 0.22
25 5 0.14
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTTTTTTCTTTTTCTC
Found at i:32500 original size:22 final size:22
Alignment explanation
Indices: 32438--32507 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
32428 TGATTCAATT
* *
32438 TCTTTTTTCTTCTTTTTCATCTC
1 TCTTTTTTTTTCTTTTT-TTCTC
*
32461 TCTTTTTCTTTT-TCTTTTTCTC
1 TCTTTTT-TTTTCTTTTTTTCTC
*
32483 TCTTTTTTTTTCTTTTTTTTTC
1 TCTTTTTTTTTCTTTTTTTCTC
32505 TCT
1 TCT
32508 CTAATGGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.10
22 22 0.55
23 11 0.28
24 3 0.08
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (22 bp):
TCTTTTTTTTTCTTTTTTTCTC
Found at i:32502 original size:24 final size:25
Alignment explanation
Indices: 32440--32509 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
32430 ATTCAATTTC
32440 TTTTTTC-TTCTTTTTCATCTCTCTT
1 TTTTTTCTTTCTTTTTC-TCTCTCTT
*
32465 TTTCTT-TTTCTTTTTCTCTCT-TT
1 TTTTTTCTTTCTTTTTCTCTCTCTT
*
32488 TTTTTTCTTTTTTTTTCTCTCT
1 TTTTTTCTTTCTTTTTCTCTCT
32510 AATGGATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
23 7 0.17
24 19 0.47
25 14 0.35
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTTTCTTTCTTTTTCTCTCTCTT
Found at i:39763 original size:18 final size:19
Alignment explanation
Indices: 39724--39764 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
39714 GGAACATGAC
39724 GGCGGAGTAGTTGAATGGA
1 GGCGGAGTAGTTGAATGGA
*
39743 GGCGGAGTGGTTGAA-GGA
1 GGCGGAGTAGTTGAATGGA
39761 GGCG
1 GGCG
39765 TCGAAATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.22, C:0.07, G:0.54, T:0.17
Consensus pattern (19 bp):
GGCGGAGTAGTTGAATGGA
Found at i:39947 original size:3 final size:3
Alignment explanation
Indices: 39939--40030 Score: 107
Period size: 3 Copynumber: 31.3 Consensus size: 3
39929 ATTTGGGCCT
* * * *
39939 ATA ATA ATA ATA ATT ATA TTA ATA ATA ATA ATA TTA ATA A-A AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
39986 ATA TTA ATA A-A ATA ATA ATA ATA ATA TTA GTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40031 AAATGAGAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
2 4 0.05
3 71 0.95
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:39987 original size:17 final size:17
Alignment explanation
Indices: 39965--40011 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
39955 TATTAATAAT
39965 AATAATATTAATAAAAA
1 AATAATATTAATAAAAA
*
39982 AATAATATTAATAAAAT
1 AATAATATTAATAAAAA
*
39999 AATAATAATAATA
1 AATAATATTAATA
40012 TTAGTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATATTAATAAAAA
Found at i:44579 original size:2 final size:2
Alignment explanation
Indices: 44572--44607 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44562 TGAATTTTTC
44572 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
44608 TAGCGTGACT
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:46058 original size:3 final size:3
Alignment explanation
Indices: 46050--46120 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
46040 TTTGGGCCTG
* * * * * *
46050 TAA TAA TAA TAA TTA TAT TAA TAA TAT TAT TAT TAA T-A CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
46097 TAA TAT TAA TAA CAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
46121 AAATGAGAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 1 0.02
3 54 0.98
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:46092 original size:20 final size:20
Alignment explanation
Indices: 46050--46120 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
46040 TTTGGGCCTG
*
46050 TAATAATAATAATT-ATATTAA
1 TAATAATAAT-ATTAATA-CAA
* *
46071 TAATATTATTATTAATACAA
1 TAATAATAATATTAATACAA
46091 TAATAATAATATTAATAACAA
1 TAATAATAATATTAAT-ACAA
*
46112 CAATAATAA
1 TAATAATAA
46121 AAATGAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 19 0.45
21 23 0.55
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATAATAATATTAATACAA
Found at i:46797 original size:177 final size:177
Alignment explanation
Indices: 46500--47432 Score: 1336
Period size: 177 Copynumber: 5.3 Consensus size: 177
46490 AAGAGAAAAG
* * * * *
46500 TTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCAAATGACTTATAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* *
46565 AAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGTTTCCTTTAACAACTCTT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
*
46630 TTGAGATAATTATG-AAACCCCCGATGGCTTAGTTTCTAAAATTCTCAT
131 TTGAGATAATTA-GAAAACCCCCGAAGGCTTAGTTTCTAAAA-TCTCAT
* * * *
46678 TTGAAAACATCCTGCACTAAAGATCTTATGGATGGCCCGAAGGACTTATAAATAAAG-ATCCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * *
46742 GAAGGCTTAGTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAATAGCTATT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
* * * *
46807 TTGAGATAATTAGTAAACCCTCGAAGGCTTGGTTTCTAAAACCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
46854 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAA-GACTTACGAATCAAGAAACCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCG-AAGGACTTACAAATCAAGAAACCCC
* * * * * * *
46918 CAAAGGCTTAGTTTCTTACTTGTCAATGAACCACTTTTTTAGGCTTAACTTCCTTTAATAACTCT
65 CGAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCT
*
46983 TTTGAGATAATTAGAAAA-CCCCGAAGGCTTAATTTCTAAAATCTCAT
130 TTTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
47030 TTAAAAACATCCTGCACTAAAGGTCTTATGGATGGCTCGAAGGACTTAAAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * * *
47095 GAAGGCTTAGTTTCTTAGTTGTCAATGAATCCCTTTTTTAGGCTTAGCTTCCTTTAAAAACTTTT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
* *
47160 TTGAGATAATTAGAAAACCCGCAAAGGCTTAGTTTCTAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* * *
47207 TTGAAAACATCATGCACTAAAGGTCTTATGGATGGCCCAAAGGATTTACAAATCAAGAAACCCCC
1 TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
* * * * *
47272 GAATGCTTAGTTTCTTAGTTGCCTAGGAACCCCTTTATTAGGCTTAGATTCCTTTAACAACTCTT
66 GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
47337 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
131 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
* *
47384 TTGAAAACATCAC-GCACTGAAGGTCTTATGGATTGCCCGAAGGACTTAC
1 TTGAAAACATC-CTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTAC
47433 CAATTCGAGA
Statistics
Matches: 673, Mismatches: 76, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
175 2 0.00
176 210 0.31
177 410 0.61
178 51 0.08
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (177 bp):
TTGAAAACATCCTGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTACAAATCAAGAAACCCCC
GAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTT
TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
Found at i:47232 original size:353 final size:351
Alignment explanation
Indices: 46500--47431 Score: 1375
Period size: 353 Copynumber: 2.6 Consensus size: 351
46490 AAGAGAAAAG
* *
46500 TTGAAAACATCCA-GCACTGAAGGTCTTATGGATGGCCCAAATGACTTATAAATCAAGAAACCCC
1 TTGAAAACAT-CATGCACTGAAGGTCTTATGGATGGCCCAAAGGACTTACAAATCAAGAAACCCC
* *
46564 CAAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGTTTCCTTTAACAACTCT
65 CAAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTA-ATTCCTTTAACAACTCT
* *
46629 TTTGAGATAATTATGAAACCCCCGATGGCTTAGTTTCTAAAATTCTCATTTGAAAACATCCTGCA
129 TTTGAGATAATTA-GAAAACCCCGAAGGCTTAGTTTCTAAAA-TCTCATTTGAAAACATCCTGCA
* * *
46694 CTAAAGATCTTATGGATGGCCCGAAGGACTTATAAATAAAGATCCCCCGAAGGCTTAGTTTCTTA
192 CTAAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATAAAGAACCCCCGAAGGCTTAGTTTCTTA
* * * *
46759 GTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAATAGCTATTTTGAGATAATTAGTAAA
257 GTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAAAAACTATTTTGAGATAATTAGAAAA
* * *
46824 CCCTCGAAGGCTTGGTTTCTAAAACCTCAT
322 CCCGCAAAGGCTTAGTTTCTAAAACCTCAT
* * * *
46854 TTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAA-GACTTACGAATCAAGAAACCCC
1 TTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCC-AAAGGACTTACAAATCAAGAAACCCC
* * * * *
46918 CAAAGGCTTAGTTTCTTACTTGTCAATGAACCACTTTTTTAGGCTTAACTTCCTTTAATAACTCT
65 CAAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAA-TTCCTTTAACAACTCT
* *
46983 TTTGAGATAATTAGAAAACCCCGAAGGCTTAATTTCTAAAATCTCATTTAAAAACATCCTGCACT
129 TTTGAGATAATTAGAAAACCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACT
* *
47048 AAAGGTCTTATGGATGGCTCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAG
194 AAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATAAAG-AACCCCCGAAGGCTTAGTTTCTTAG
* * * *
47113 TTGTCAATGAATCCCTTTTTTAGGCTTAGCTTCCTTTAAAAACTTTTTTGAGATAATTAGAAAAC
258 TTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAAAAACTATTTTGAGATAATTAGAAAAC
*
47178 CCGCAAAGGCTTAGTTTCTAAAATCTCAT
323 CCGCAAAGGCTTAGTTTCTAAAACCTCAT
* *
47207 TTGAAAACATCATGCACTAAAGGTCTTATGGATGGCCCAAAGGATTTACAAATCAAGAAACCCCC
1 TTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCAAAGGACTTACAAATCAAGAAACCCCC
* * * *
47272 GAATGCTTAGTTTCTTAGTTGCCTAGGAACCCCTTTATTAGGCTTAGATTCCTTTAACAACTCTT
66 AAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTA-ATTCCTTTAACAACTCTT
47337 TTGAGATAATTAGAAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCAC-GCAC
130 TTGAGATAATTAGAAAA-CCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATC-CTGCAC
* *
47401 TGAAGGTCTTATGGATTGCCCGAAGGACTTA
193 TAAAGGTCTTATGGATGGCCCGAAGGACTTA
47432 CCAATTCGAG
Statistics
Matches: 518, Mismatches: 52, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
352 60 0.12
353 259 0.50
354 196 0.38
355 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (351 bp):
TTGAAAACATCATGCACTGAAGGTCTTATGGATGGCCCAAAGGACTTACAAATCAAGAAACCCCC
AAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAATTCCTTTAACAACTCTTT
TGAGATAATTAGAAAACCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTAA
AGGTCTTATGGATGGCCCGAAGGACTTAAAAATAAAGAACCCCCGAAGGCTTAGTTTCTTAGTTG
TCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAAAAACTATTTTGAGATAATTAGAAAACCCG
CAAAGGCTTAGTTTCTAAAACCTCAT
Found at i:49006 original size:52 final size:51
Alignment explanation
Indices: 48908--49051 Score: 148
Period size: 52 Copynumber: 2.8 Consensus size: 51
48898 ATATCCCAAA
* * *
48908 CTTTTTATGCTGGTGTGAGCCTTCAAGATGCCCTACATGGAATACTTCTGT
1 CTTTTTATGCTGATGTGAGCCTTCAAAATGCCCTACATGGAATACTTCTAT
* * *
48959 CTTTTTCATGCTGATGTGAGCCTTTAAAATGTCCTATAT-GAATTACTTCTAT
1 CTTTTT-ATGCTGATGTGAGCCTTCAAAATGCCCTACATGGAA-TACTTCTAT
* * * * *
49011 CTTTTTAATGTTGATATCAGCCTTCAAGATACCCT-CATGGA
1 CTTTTT-ATGCTGATGTGAGCCTTCAAAATGCCCTACATGGA
49052 TAATATGGAC
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
51 11 0.15
52 64 0.85
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (51 bp):
CTTTTTATGCTGATGTGAGCCTTCAAAATGCCCTACATGGAATACTTCTAT
Found at i:50595 original size:6 final size:6
Alignment explanation
Indices: 50570--50649 Score: 60
Period size: 6 Copynumber: 13.3 Consensus size: 6
50560 TTCTTTTTTC
* * *
50570 TTCTTT TTCATCT CTCTTT TTCTTT TTCTTT TTC--T CTCTTT TTCTTT
1 TTCTTT TTC-TTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
*
50617 TTC--T CTCTTT TTCTTTTT TTCTTTT TTCTTT TT
1 TTCTTT TTCTTT TTC--TTT TTC-TTT TTCTTT TT
50650 TTTCTCTCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 6 0.10
6 36 0.61
7 11 0.19
8 6 0.10
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:50605 original size:22 final size:22
Alignment explanation
Indices: 50580--50649 Score: 95
Period size: 22 Copynumber: 3.0 Consensus size: 22
50570 TTCTTTTTCA
50580 TCTCTCTTTTTCTTTTTCTTTT
1 TCTCTCTTTTTCTTTTTCTTTT
50602 TCTCTCTTTTTCTTTTTCTCTCTT
1 TCTCTCTTTTTCTTTTTCT-T-TT
* *
50626 TTTCTTTTTTTCTTTTTTCTTTT
1 TCTCTCTTTTTC-TTTTTCTTTT
50649 T
1 T
50650 TTTCTCTCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 19 0.44
23 4 0.09
24 13 0.30
25 7 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TCTCTCTTTTTCTTTTTCTTTT
Found at i:50611 original size:16 final size:16
Alignment explanation
Indices: 50590--50649 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
50580 TCTCTCTTTT
50590 TCTTTTTCTTTTTCTC
1 TCTTTTTCTTTTTCTC
50606 TCTTTTTCTTTTTCTC
1 TCTTTTTCTTTTTCTC
*
50622 TCTTTTTCTTTTTTTC
1 TCTTTTTCTTTTTCTC
50638 T-TTTTTCTTTTT
1 TCTTTTTCTTTTT
50650 TTTCTCTCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
15 11 0.26
16 32 0.74
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TCTTTTTCTTTTTCTC
Found at i:50637 original size:8 final size:8
Alignment explanation
Indices: 50592--50651 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
50582 TCTCTTTTTC
50592 TTTTTCTT
1 TTTTTCTT
* *
50600 TTTCTCTC
1 TTTTTCTT
50608 TTTTTCTT
1 TTTTTCTT
* *
50616 TTTCTCTC
1 TTTTTCTT
50624 TTTTTCTT
1 TTTTTCTT
50632 TTTTTC-T
1 TTTTTCTT
50639 TTTTTCTT
1 TTTTTCTT
50647 TTTTT
1 TTTTT
50652 TCTCTCTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 7 0.16
8 36 0.84
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:50654 original size:16 final size:15
Alignment explanation
Indices: 50559--50651 Score: 93
Period size: 16 Copynumber: 6.2 Consensus size: 15
50549 CTTGATTCAA
50559 TTTCTTTTTTCTTCTT
1 TTTCTTTTTTCTT-TT
* * *
50575 TTTC--ATCTCTCTT
1 TTTCTTTTTTCTTTT
50588 TTTC-TTTTTCTTTT
1 TTTCTTTTTTCTTTT
*
50602 TCTCTCTTTTTCTTTT
1 TTTCT-TTTTTCTTTT
*
50618 TCTCTCTTTTTCTTTT
1 TTTCT-TTTTTCTTTT
50634 TTTCTTTTTTCTTTT
1 TTTCTTTTTTCTTTT
50649 TTT
1 TTT
50652 TCTCTCTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
13 6 0.09
14 13 0.20
15 13 0.20
16 34 0.52
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:50654 original size:24 final size:23
Alignment explanation
Indices: 50560--50651 Score: 64
Period size: 24 Copynumber: 3.8 Consensus size: 23
50550 TTGATTCAAT
*
50560 TTCTTTTTTCTTCTTTTTCATCTCTCT
1 TTCTTTTTT-TTCTTTTT--T-TCTTT
*
50587 TT-TTCTTTTTCTTTTTCTCTCTTT
1 TTCTTTTTTTTCTTTTT-T-TCTTT
* *
50611 TTC-TTTTTCTCTCTTTTTCTTT
1 TTCTTTTTTTTCTTTTTTTCTTT
50633 TT-TTCTTTTTTCTTTTTTT
1 TTCTT-TTTTTTCTTTTTTT
50652 TCTCTCTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
22 8 0.15
23 13 0.24
24 18 0.33
25 8 0.15
26 5 0.09
27 2 0.04
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (23 bp):
TTCTTTTTTTTCTTTTTTTCTTT
Found at i:56838 original size:347 final size:347
Alignment explanation
Indices: 56203--56856 Score: 1281
Period size: 347 Copynumber: 1.9 Consensus size: 347
56193 GAAATAGAAA
* *
56203 ATATTCCAATATTTCCAATCGAAGAGAAACTAATCCCTAAAATTCTTTTAGGGCGAATATGATAA
1 ATATTCCAATATTTCCAATCGAAGAGAAACTAATCCCTAAAATGCTTTTAGGGCGAATAGGATAA
56268 TTCCTCCTAAGAACTCAATATTTAAATAATTTAATATAACCAAAATGAATATAATTAAAGTAGGC
66 TTCCTCCTAAGAACTCAATATTTAAATAATTTAATATAACCAAAATGAATATAATTAAAGTAGGC
56333 ATATTTTATTTTTTAGGTTTTTATAAGTAAGGTATTTATTTATTTTAAAATATCAGAATAGGAAA
131 ATATTTTATTTTTTAGGTTTTTATAAGTAAGGTATTTATTTATTTTAAAATATCAGAATAGGAAA
56398 TCTAGTTACTTTAAGACATCCATTTCTTAATATTTAAAAATAAATAAATATCATTATTTAATCAA
196 TCTAGTTACTTTAAGACATCCATTTCTTAATATTTAAAAATAAATAAATATCATTATTTAATCAA
56463 TTTGTGAAATTAATCAAATAATACTTATGAATTTTTCATATATATATGAAAAATTCATAAGTATT
261 TTTGTGAAATTAATCAAATAATACTTATGAATTTTTCATATATATATGAAAAATTCATAAGTATT
56528 ATTTGATTAATTTCACAAATTG
326 ATTTGATTAATTTCACAAATTG
56550 ATATTCCAATATTTCCAATCGAAGAGAAACTAATCCCTAAAATGCTTTTAGGGCGAATAGGATAA
1 ATATTCCAATATTTCCAATCGAAGAGAAACTAATCCCTAAAATGCTTTTAGGGCGAATAGGATAA
56615 TTCCTCCTAAGAACTCAATATTTAAATAATTTAATATAACCAAAATGAATATAATTAAAGTAGGC
66 TTCCTCCTAAGAACTCAATATTTAAATAATTTAATATAACCAAAATGAATATAATTAAAGTAGGC
56680 ATATTTTATTTTTTAGGTTTTTATAAGTAAGGTATTTATTTATTTTAAAATATCAGAATAGGAAA
131 ATATTTTATTTTTTAGGTTTTTATAAGTAAGGTATTTATTTATTTTAAAATATCAGAATAGGAAA
*
56745 TCTAGTTACTTTAAGACATTCATTTCTTAATATTTAAAAATAAATAAATATCATTATTTAATCAA
196 TCTAGTTACTTTAAGACATCCATTTCTTAATATTTAAAAATAAATAAATATCATTATTTAATCAA
56810 TTTGTGAAATTAATCAAATAATACTTATGAATTTTTCATATATATAT
261 TTTGTGAAATTAATCAAATAATACTTATGAATTTTTCATATATATAT
56857 ATATATATAT
Statistics
Matches: 304, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
347 304 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (347 bp):
ATATTCCAATATTTCCAATCGAAGAGAAACTAATCCCTAAAATGCTTTTAGGGCGAATAGGATAA
TTCCTCCTAAGAACTCAATATTTAAATAATTTAATATAACCAAAATGAATATAATTAAAGTAGGC
ATATTTTATTTTTTAGGTTTTTATAAGTAAGGTATTTATTTATTTTAAAATATCAGAATAGGAAA
TCTAGTTACTTTAAGACATCCATTTCTTAATATTTAAAAATAAATAAATATCATTATTTAATCAA
TTTGTGAAATTAATCAAATAATACTTATGAATTTTTCATATATATATGAAAAATTCATAAGTATT
ATTTGATTAATTTCACAAATTG
Found at i:56854 original size:2 final size:2
Alignment explanation
Indices: 56847--56872 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56837 TGAATTTTTC
56847 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
56873 TATTGTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57913 original size:3 final size:3
Alignment explanation
Indices: 57905--57998 Score: 109
Period size: 3 Copynumber: 31.7 Consensus size: 3
57895 ATTTGGGCCT
* * * * *
57905 ATA ATA ATA ATT ATT ATA TTA ATA ATA ATA ATA TTA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
57953 ATA TTA ATA A-A ATA ATA ATA ATA TTA GTA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
57999 GAGAATGAGG
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:63010 original size:21 final size:21
Alignment explanation
Indices: 62923--63000 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
62913 ATTTTGACTA
*
62923 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
62944 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
62965 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
62986 TCGCGTTACGATTTT
1 TCGCGTTGCGATTTT
63001 AGAAAATCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:63049 original size:20 final size:20
Alignment explanation
Indices: 63026--63075 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
63016 GTATATGTAA
63026 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
63046 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
63066 GTCACAACGC
1 ATCGCAACGC
63076 TGAATTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:63921 original size:24 final size:24
Alignment explanation
Indices: 63894--63947 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63884 GTATTCGAAA
*
63894 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCAGAC
*
63918 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACTCAGAC
63942 TTTGAT
1 TTTGAT
63948 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:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:66477 original size:20 final size:20
Alignment explanation
Indices: 66423--66511 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
66413 CAACGCAAAA
*
66423 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAATTTGACT
66443 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* *
66463 ATCGCAACGCGAATTTAATT
1 ATCGCAACGCGAATTTGACT
* * *
66483 ATCGTAATGGGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
66503 ATTGCAACG
1 ATCGCAACG
66512 AGAAAATCGC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:66597 original size:20 final size:20
Alignment explanation
Indices: 66549--66627 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
66539 GCAACGCGAA
*
66549 TTGACTTTCGCGTTGCGATTT
1 TTGACTTTCGCATTGCGA-TT
* *
66570 TTGGCTTTCACATTGCGATT
1 TTGACTTTCGCATTGCGATT
66590 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
66610 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
66628 AAGTGTACCT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:66766 original size:14 final size:14
Alignment explanation
Indices: 66747--66783 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
66737 CATCAATTAA
66747 ACAAATCAACTTTT
1 ACAAATCAACTTTT
66761 ACAAATCAACTTTT
1 ACAAATCAACTTTT
66775 ACAAATCAA
1 ACAAATCAA
66784 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:68232 original size:21 final size:21
Alignment explanation
Indices: 68172--68241 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
68162 ATGAATCGGG
* *
68172 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
68193 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
68214 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
68235 CTCTTGA
1 CTCTTGA
68242 GGGATGATAG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:68268 original size:18 final size:19
Alignment explanation
Indices: 68245--68290 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
68235 CTCTTGAGGG
68245 ATGAT-AGACGCCTCTTGA
1 ATGATGAGACGCCTCTTGA
*
68263 ATGATAGGAGAGGCCTCTTGA
1 ATGAT--GAGACGCCTCTTGA
68284 ATGATGA
1 ATGATGA
68291 CAGGTTAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
21 17 0.71
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
ATGATGAGACGCCTCTTGA
Found at i:68290 original size:42 final size:41
Alignment explanation
Indices: 68172--68293 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
68162 ATGAATCGGG
* **
68172 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGG-CCTCTTGAACGATGACAGACGC
* * ** *
68214 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGACGC
1 CTCTTGAATGGTGGGA-GGGCCTCTTGAACGATGACAGACGC
* * *
68256 CTCTTGAATGATAGGAGAGGCCTCTTGAATGATGACAG
1 CTCTTGAATGGTGGGAG-GGCCTCTTGAACGATGACAG
68294 GTTAGTCAGG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.02
42 59 0.94
43 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGCCTCTTGAACGATGACAGACGC
Found at i:68845 original size:20 final size:20
Alignment explanation
Indices: 68822--68873 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
68812 AACGTGAAAA
68822 TGACTATCGCAATGCGAATT
1 TGACTATCGCAATGCGAATT
68842 TGACTATCGCAATGCGAATT
1 TGACTATCGCAATGCGAATT
68862 TGACTATCGCAA
1 TGACTATCGCAA
68874 CGGGATAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (20 bp):
TGACTATCGCAATGCGAATT
Found at i:68974 original size:19 final size:19
Alignment explanation
Indices: 68952--68988 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
68942 CGCGAATTTA
*
68952 GTTTCGCGTTGCGATTTTG
1 GTTTCGCATTGCGATTTTG
68971 GTTTCGCATTGCGATTTT
1 GTTTCGCATTGCGATTTT
68989 CTCATTGCGA
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:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
GTTTCGCATTGCGATTTTG
Found at i:68994 original size:14 final size:14
Alignment explanation
Indices: 68972--69002 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
68962 GCGATTTTGG
68972 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
*
68986 TTTCTCATTGCGAT
1 TTTCGCATTGCGAT
69000 TTT
1 TTT
69003 TATTTCGCAT
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:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (14 bp):
TTTCGCATTGCGAT
Found at i:69013 original size:19 final size:19
Alignment explanation
Indices: 68948--69019 Score: 64
Period size: 19 Copynumber: 4.0 Consensus size: 19
68938 TCAACGCGAA
*
68948 TTTAGTTTCGCGTTGCGATT
1 TTTA-TTTCGCATTGCGATT
**
68968 TTGGTTTCGCATTGCGA--
1 TTTATTTCGCATTGCGATT
*
68985 --T-TTTCTCATTGCGATT
1 TTTATTTCGCATTGCGATT
69001 TTTATTTCGCATTGCGATT
1 TTTATTTCGCATTGCGATT
69020 ATCCCGTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
14 12 0.29
18 1 0.02
19 26 0.63
20 2 0.05
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (19 bp):
TTTATTTCGCATTGCGATT
Found at i:69030 original size:33 final size:33
Alignment explanation
Indices: 68958--69032 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
68948 TTTAGTTTCG
* * *
68958 CGTTGCGATTTTGGTTTCGCATTGCGATTTTCT
1 CGTTGCGATTTTGATTTCGCATTGCGATTATCC
* *
68991 CATTGCGATTTTTATTTCGCATTGCGATTATCC
1 CGTTGCGATTTTGATTTCGCATTGCGATTATCC
69024 CGTTGCGAT
1 CGTTGCGAT
69033 AGTCAAATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTGATTTCGCATTGCGATTATCC
Found at i:69049 original size:20 final size:20
Alignment explanation
Indices: 69024--69072 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
69014 GCGATTATCC
69024 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-AATTCCG
*
69044 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
69064 CGTTGCGAT
1 CGTTGCGAT
69073 TTTTAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:69098 original size:20 final size:21
Alignment explanation
Indices: 69065--69103 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
69055 TCATTTCCGC
69065 GTTGCGATTTTTAAGTTTCGT
1 GTTGCGATTTTTAAGTTTCGT
69086 GTTGCGA-TTTTAAGTTTC
1 GTTGCGATTTTTAAGTTTC
69104 AGAAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.51
Consensus pattern (21 bp):
GTTGCGATTTTTAAGTTTCGT
Found at i:71139 original size:20 final size:20
Alignment explanation
Indices: 71022--71144 Score: 131
Period size: 20 Copynumber: 6.2 Consensus size: 20
71012 GAAACTTAAA
**
71022 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
71042 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
71062 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
** **
71082 ATCGCAATGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
71101 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* **
71121 ATCTCAACACGAATTTGACT
1 ATCGCAACACGAAAATGACT
71141 ATCG
1 ATCG
71145 TTGCAATTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
19 13 0.15
20 71 0.85
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:71535 original size:22 final size:22
Alignment explanation
Indices: 71507--71594 Score: 113
Period size: 22 Copynumber: 4.0 Consensus size: 22
71497 GCGGCTCTGA
* *
71507 GAGATGGAGACGGATTTCGCCG
1 GAGATGGGGACGGATTTCGTCG
* *
71529 GAGATGGGGATGGATTTCGTTG
1 GAGATGGGGACGGATTTCGTCG
*
71551 GAGATGGGGATGGATTTCGTCG
1 GAGATGGGGACGGATTTCGTCG
* *
71573 GATATGGGGACGGATGTCGTCG
1 GAGATGGGGACGGATTTCGTCG
71595 TAGAGAGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.19, C:0.11, G:0.44, T:0.25
Consensus pattern (22 bp):
GAGATGGGGACGGATTTCGTCG
Found at i:71783 original size:20 final size:20
Alignment explanation
Indices: 71760--71805 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
71750 ATTATCGCAA
71760 TGCGATAGTCAGAATCGCGT
1 TGCGATAGTCAGAATCGCGT
*
71780 TGCGATAGTCAGAATCGTGT
1 TGCGATAGTCAGAATCGCGT
71800 TGCGAT
1 TGCGAT
71806 TTACATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGCGATAGTCAGAATCGCGT
Found at i:71924 original size:20 final size:19
Alignment explanation
Indices: 71901--71946 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
71891 GGAAACTGAT
* *
71901 TTGCGATACTGGAGATTGCA
1 TTGCGAT-CTAGAGATCGCA
*
71921 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
71940 TTGCGAT
1 TTGCGAT
71947 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:71940 original size:19 final size:19
Alignment explanation
Indices: 71912--71948 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
71902 TGCGATACTG
*
71912 GAGATTGCATTGCGATTTA
1 GAGATCGCATTGCGATTTA
71931 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
71949 TGTTGGTCAT
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:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:72118 original size:18 final size:18
Alignment explanation
Indices: 72095--72131 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
72085 TTTTAAACTT
72095 AAACAGT-ATTTAATTAAA
1 AAACAGTAATTTAA-TAAA
72113 AAACAGTAATTTAATAAA
1 AAACAGTAATTTAATAAA
72131 A
1 A
72132 GTGGTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
AAACAGTAATTTAATAAA
Found at i:72430 original size:20 final size:21
Alignment explanation
Indices: 72405--72497 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
72395 TTTTCCCAAT
*
72405 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* * **
72425 TCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
72446 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
72466 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
72487 TCGCAATGCGA
1 TCGCAATGCGA
72498 TAATACAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:72450 original size:41 final size:41
Alignment explanation
Indices: 72405--72497 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
72395 TTTTCCCAAT
*
72405 TCGCAATGCGAATAAGTAAATCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
72446 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
72487 TCGCAATGCGA
1 TCGCAATGCGA
72498 TAATACAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:72556 original size:20 final size:20
Alignment explanation
Indices: 72508--72560 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
72498 TAATACAAAA
* * *
72508 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTAACTT
72528 TCGCAACGCGATTCTAACTT
1 TCGCAACGCGATTCTAACTT
72548 TCGCAACGCGATT
1 TCGCAACGCGATT
72561 TACATAGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTAACTT
Found at i:73136 original size:19 final size:19
Alignment explanation
Indices: 73076--73156 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
73066 TTCGAGAATG
73076 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
73096 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
73112 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
73129 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
73148 AAAATCGCA
1 AAAATCGCA
73157 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:73174 original size:19 final size:19
Alignment explanation
Indices: 73152--73336 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
73142 GAAACCAAAA
*
73152 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
73171 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
73190 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
73209 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
73229 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
73245 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
73262 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
73276 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
73295 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
73315 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
73335 TC
1 TC
73337 AACCAAAAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73229 original size:39 final size:38
Alignment explanation
Indices: 73152--73336 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
73142 GAAACCAAAA
*
73152 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
73190 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * **
73229 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* * **
73262 TCGCGTTGTGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
73295 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
73335 TC
1 TC
73337 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.02
33 37 0.30
34 9 0.07
35 1 0.01
36 3 0.02
38 21 0.17
39 30 0.25
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:73313 original size:20 final size:20
Alignment explanation
Indices: 73279--73336 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
73269 GTGATTCTCT
**
73279 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
73299 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
73319 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
73337 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:75417 original size:21 final size:21
Alignment explanation
Indices: 75393--75459 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
75383 TCATTCCTTG
75393 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
75414 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
75435 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
75456 AGAG
1 AGAG
75460 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:75417 original size:42 final size:42
Alignment explanation
Indices: 75338--75459 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
75328 CCTGACTCGC
* * * * * *
75338 CTATCATCCCTCAAGA-GTCCACTCCTATCATTGAAGAGGCCC
1 CTATCATCCTTGAAGAGGTCC-CTCCCACCATTCAAGAGGCCA
*
75380 CTATCATTCCTTG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCA
1 CTATCA-TCCTTGAAGAGGT-CCCTCCCACCATTCAAGAGGCCA
* *
75422 CTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 CTATCATCCTTGAAGAGGTCCCTCCCACCATTCAAGAG
75460 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
41 5 0.08
42 53 0.80
43 8 0.12
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (42 bp):
CTATCATCCTTGAAGAGGTCCCTCCCACCATTCAAGAGGCCA
Found at i:76842 original size:14 final size:14
Alignment explanation
Indices: 76823--76858 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
76813 ATTGTTTAAT
76823 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
76837 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
76851 TGATTTGT
1 TGATTTGT
76859 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:77084 original size:33 final size:32
Alignment explanation
Indices: 77041--77167 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
77031 ATTAAATTCG
*
77041 CGTTGTGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
77074 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
** *
77107 CGTTTTGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
77140 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
77168 AGTAATTTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
31 3 0.04
33 73 0.92
35 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:77135 original size:66 final size:66
Alignment explanation
Indices: 77034--77166 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
77024 ACGCGAAATT
* *
77034 AAATTCGCGTTGTGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGTGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
77099 G
66 G
* *
77100 AAATTAGCGTTTTGATTTTCATTTCGCATTACGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGTGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
77165 G
66 G
77166 A
1 A
77167 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (66 bp):
AAATTAGCGTTGTGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:79691 original size:24 final size:24
Alignment explanation
Indices: 79657--79710 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
79647 CTGAAACATC
* *
79657 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
79681 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
79705 ATCAAA
1 ATCAAA
79711 TTTCGAATAC
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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:80827 original size:20 final size:20
Alignment explanation
Indices: 80770--80818 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
80760 ATTCATTTGA
80770 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
80790 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
80810 TTATCGCAA
1 CTATCGCAA
80819 TGAGAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:80870 original size:33 final size:33
Alignment explanation
Indices: 80833--80903 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
80823 AAAATCGCAA
80833 TGCGAAATGAAAATCGCATTGCAATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCAATTTTCTCGT
** ** ** *
80866 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCAATTTTCTCGT
80899 TGCGA
1 TGCGA
80904 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCAATTTTCTCGT
Found at i:80873 original size:14 final size:14
Alignment explanation
Indices: 80851--80904 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
80841 GAAAATCGCA
*
80851 TTGCAATTTTCTCG
1 TTGCGATTTTCTCG
80865 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
80882 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
80898 TTGCGAT
1 TTGCGAT
80905 AGCCATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 17 0.50
16 3 0.09
17 3 0.09
19 11 0.32
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:80912 original size:33 final size:33
Alignment explanation
Indices: 80846--80923 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
80836 GAAATGAAAA
* ***
80846 TCGCATTGCAATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
80879 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
* *
80912 TCACGTTGCGAT
1 TCGCATTGCGAT
80924 AGTCTGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:82976 original size:19 final size:19
Alignment explanation
Indices: 82896--83013 Score: 86
Period size: 20 Copynumber: 6.4 Consensus size: 19
82886 TAGTTTACTT
* *
82896 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
82916 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
* ***
82935 TCACAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
82955 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
82974 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
82988 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
83006 TCGCAACG
1 TCGCAACG
83014 ACAAAATCGC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.15
19 24 0.30
20 28 0.35
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:82989 original size:14 final size:14
Alignment explanation
Indices: 82970--83027 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
82960 ATGCGAAATG
82970 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
82984 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
83000 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
83016 AAAATCGCAACG
1 AAAATCGCAACG
83028 CGAAACACAA
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:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:83012 original size:32 final size:33
Alignment explanation
Indices: 82954--83032 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
82944 GGAAATGGCT
*
82954 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
82987 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
83019 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
83033 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:83076 original size:13 final size:13
Alignment explanation
Indices: 83060--83116 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 13
83050 TTTCATTTCG
83060 CGTTGCGATTTTT
1 CGTTGCGATTTTT
83073 CGTTGCGATTTCATTT
1 CGTTGCGA-TT--TTT
83089 CGCATTGCGATTTTGT
1 CG--TTGCGATTTT-T
83105 CGTTGCGATTTT
1 CGTTGCGATTTT
83117 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
13 8 0.21
14 12 0.32
15 2 0.05
16 8 0.21
17 2 0.05
18 6 0.16
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.49
Consensus pattern (13 bp):
CGTTGCGATTTTT
Found at i:83082 original size:31 final size:32
Alignment explanation
Indices: 83044--83132 Score: 153
Period size: 31 Copynumber: 2.8 Consensus size: 32
83034 ACAAATCGCA
*
83044 TTGCGATTTCATTTCGCGTTGCGATTTT-TCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
83075 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
83107 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGA-TTTCATTTCGCATTGCGAT
83133 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 27 0.49
32 9 0.16
33 19 0.35
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCATTGCGATTTTGTCG
Found at i:83151 original size:20 final size:19
Alignment explanation
Indices: 83117--83171 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
83107 TTGCGATTTT
*
83117 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
83136 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
83156 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
83172 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:83679 original size:18 final size:18
Alignment explanation
Indices: 83653--83697 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
83643 GTCGATCAGA
*
83653 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
83671 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
83689 TGATGGCTC
1 TGATGGCTC
83698 CCGAAGTGGA
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:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:85042 original size:20 final size:20
Alignment explanation
Indices: 85017--85054 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85007 AATAGTTTCT
85017 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
85037 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
85055 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:85343 original size:22 final size:22
Alignment explanation
Indices: 85318--85361 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
85308 GATTTAGATA
85318 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
85340 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
85362 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:85574 original size:20 final size:20
Alignment explanation
Indices: 85549--85601 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
85539 GATTATGTAT
*
85549 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
85569 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
85589 TATCTCGTTGCGA
1 TATCGCGTTGCGA
85602 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:85657 original size:21 final size:21
Alignment explanation
Indices: 85628--85720 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
85618 TGCGATAGTA
85628 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
85649 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
85669 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
85690 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
85710 TCGCATTGCGA
1 TCGCATTGCGA
85721 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:85679 original size:41 final size:41
Alignment explanation
Indices: 85628--85720 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
85618 TGCGATAGTA
85628 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
85669 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
85710 TCGCATTGCGA
1 TCGCATTGCGA
85721 ATTGGGAAAA
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:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:89987 original size:24 final size:25
Alignment explanation
Indices: 89959--90033 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 25
89949 ATTTTTTAGG
* *
89959 AAAATATAAAAATATT-TTAAATTT
1 AAAATATAAAAATATTCATAAAATT
*
89983 AAAATATAAAATTATTCATAAAATT
1 AAAATATAAAAATATTCATAAAATT
*
90008 -AAATACAAAAATA-TCA-AAAATAT
1 AAAATATAAAAATATTCATAAAAT-T
90031 AAA
1 AAA
90034 TTAAGTTACT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.12
23 4 0.09
24 28 0.65
25 6 0.14
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAATATAAAAATATTCATAAAATT
Found at i:90036 original size:28 final size:28
Alignment explanation
Indices: 90003--90059 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
89993 ATTATTCATA
90003 AAATTAA-ATAC-AAAAATATCAAAAATAT
1 AAATTAAGATACTAAAAAT-T-AAAAATAT
*
90031 AAATTAAGTTACTAAAAATTAAAAATAT
1 AAATTAAGATACTAAAAATTAAAAATAT
90059 A
1 A
90060 TTATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 16 0.62
29 4 0.15
30 6 0.23
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATTAAGATACTAAAAATTAAAAATAT
Found at i:92975 original size:19 final size:19
Alignment explanation
Indices: 92953--92998 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
92943 AATGATTTGC
*
92953 TTTTGAAAGAAAAATTTAA
1 TTTTGAAAGAAAAAATTAA
92972 TTTTGAAAGAAAAAATTAA
1 TTTTGAAAGAAAAAATTAA
92991 TTTTGAAA
1 TTTTGAAA
92999 AATGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (19 bp):
TTTTGAAAGAAAAAATTAA
Found at i:96095 original size:2 final size:2
Alignment explanation
Indices: 96088--96116 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96078 ACACTTCAAT
96088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96117 GAACATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97676 original size:3 final size:3
Alignment explanation
Indices: 97657--97728 Score: 126
Period size: 3 Copynumber: 23.7 Consensus size: 3
97647 TCATTTTTTA
*
97657 ATT ATA ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
97703 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
97729 ATATATATAG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:102944 original size:16 final size:15
Alignment explanation
Indices: 102923--102952 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
102913 TGTATTCTAA
102923 TTTAATCATTTTTAAT
1 TTTAAT-ATTTTTAAT
102939 TTTAATATTTTTAA
1 TTTAATATTTTTAA
102953 AATTTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATATTTTTAAT
Found at i:104624 original size:4 final size:4
Alignment explanation
Indices: 104615--104640 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
104605 AAATCTATAT
104615 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
104641 AATATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:105772 original size:16 final size:16
Alignment explanation
Indices: 105751--105782 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
105741 TGTCTTTTTG
105751 AAAATAAAGAATTAAT
1 AAAATAAAGAATTAAT
*
105767 AAAATAAAGAGTTAAT
1 AAAATAAAGAATTAAT
105783 GTAATTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (16 bp):
AAAATAAAGAATTAAT
Found at i:106139 original size:44 final size:44
Alignment explanation
Indices: 106091--106347 Score: 143
Period size: 45 Copynumber: 5.8 Consensus size: 44
106081 ATTGGGTTAC
* *
106091 CAAAAGTAAAATCAAATAATTAGTTCCTTTGATTATTGAATTAT
1 CAAAAGTAAAATCAAAGAATTAGTTCCTTTGATTATTGAATTGT
* * * * *
106135 CAAAAGTAAAATCAAAGGATTTGTT-TTTATTATTATTGAGA-TGC
1 CAAAAGTAAAATCAAAGAATTAGTTCCTT-TGATTATTGA-ATTGT
* * * *
106179 CAAAAGTAAAATAAAAGGAA-TAGTTCATTTTGATTATTTAGTTGT
1 CAAAAGTAAAATCAAA-GAATTAGTTC-CTTTGATTATTGAATTGT
* * * **
106224 TAAAAGTAAAATCAAATG-ATTAGTTCCTTATAATTTTTGTGTTG-
1 CAAAAGTAAAATCAAA-GAATTAGTTCCTT-TGATTATTGAATTGT
* * * * *
106268 CGGAAATTAAAATCAAAGAACTAGTTCTTTTCGATT-TTTAGATTG-
1 C-AAAAGTAAAATCAAAGAATTAGTTCCTTT-GATTATTGA-ATTGT
* * *
106313 CGAAAA-TTAAATCAAAGGATTATTTCCTTTTGATT
1 C-AAAAGTAAAATCAAAGAATTAGTTCC-TTTGATT
106348 TCGATTTCTG
Statistics
Matches: 163, Mismatches: 37, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 78 0.48
45 80 0.49
46 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (44 bp):
CAAAAGTAAAATCAAAGAATTAGTTCCTTTGATTATTGAATTGT
Found at i:106308 original size:89 final size:91
Alignment explanation
Indices: 106090--106341 Score: 218
Period size: 89 Copynumber: 2.8 Consensus size: 91
106080 TATTGGGTTA
* * * * *
106090 CCAAAAGTAAAATCAAA-TAATTAGTTC-CTTTGATTATTGA-ATTATC-AAAAGTAAAATCAAA
1 CCAAAAGTAAAATAAAAGGAA-TAGTTCATTTTGATTATTTAGATT-GCGAAAAGTAAAATCAAA
* * *
106151 GGATTTGTT-TTTATTATTATTGAGATG
64 GGATTAGTTCCTTATAATTATTGAGATG
** *
106178 CCAAAAGTAAAATAAAAGGAATAGTTCATTTTGATTATTTAG-TTGTTAAAAGTAAAATCAAATG
1 CCAAAAGTAAAATAAAAGGAATAGTTCATTTTGATTATTTAGATTGCGAAAAGTAAAATCAAAGG
* * *
106242 ATTAGTTCCTTATAATTTTTGTGTTG
66 ATTAGTTCCTTATAATTATTGAGATG
** * * *
106268 CGGAAATTAAAATCAAA-GAACTAGTTC-TTTTCGATT-TTTAGATTGCGAAAA-TTAAATCAAA
1 CCAAAAGTAAAATAAAAGGAA-TAGTTCATTTT-GATTATTTAGATTGCGAAAAGTAAAATCAAA
*
106329 GGATTATTTCCTT
64 GGATTAGTTCCTT
106342 TTGATTTCGA
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
88 22 0.16
89 69 0.51
90 43 0.32
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (91 bp):
CCAAAAGTAAAATAAAAGGAATAGTTCATTTTGATTATTTAGATTGCGAAAAGTAAAATCAAAGG
ATTAGTTCCTTATAATTATTGAGATG
Found at i:106568 original size:58 final size:57
Alignment explanation
Indices: 106482--106648 Score: 187
Period size: 57 Copynumber: 2.9 Consensus size: 57
106472 AATCTTGCGT
* *
106482 TGATTCTAATTTTGTAAGGAAAATAAATAGTTGAATTTGTTTCTTTGAGAATCTTAAA
1 TGATTCTAACTTTGTAACGAAAATAAATAGTTGAATTT-TTTCTTTGAGAATCTTAAA
* *
106540 TGATTCTAA-TTTGTAACGAAAATAAAATAGTTGAATTATATTC-TTGAGACTCTTAAA
1 TGATTCTAACTTTGTAACGAAAAT-AAATAGTTGAATT-TTTTCTTTGAGAATCTTAAA
* ** * *
106597 TGATTCTAACTTCGTAATAAAAATAAATTGTCGAATTTATTT-TCTTGAGAAT
1 TGATTCTAACTTTGTAACGAAAATAAATAGTTGAATTT-TTTCT-TTGAGAAT
106649 TGTGTCTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
56 1 0.01
57 48 0.52
58 43 0.46
59 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (57 bp):
TGATTCTAACTTTGTAACGAAAATAAATAGTTGAATTTTTTCTTTGAGAATCTTAAA
Done.