Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006664.1 Hibiscus syriacus cultivar Beakdansim tig00016507_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: 138679
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Found at i:4229 original size:21 final size:21
Alignment explanation
Indices: 4189--4265 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 21
4179 CGTGGGGGGT
4189 ATCGATTCCC-TCAATGAGGGA
1 ATCGATTCCCTTCAA-GAGGGA
4210 ATCGATTCCCATTCAA-AGGGAGA
1 ATCGATTCCC-TTCAAGA-GG-GA
* * *
4233 ATCGGTTCCCCTTCAAGGGGGT
1 ATCGATT-CCCTTCAAGAGGGA
4255 ATCGATTCCCT
1 ATCGATTCCCT
4266 CTGCACTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
21 15 0.33
22 9 0.20
23 19 0.41
24 3 0.07
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (21 bp):
ATCGATTCCCTTCAAGAGGGA
Found at i:4234 original size:23 final size:22
Alignment explanation
Indices: 4208--4264 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
4198 CTCAATGAGG
4208 GAATCGATTCCCATTCAAAGGGA
1 GAATCGATTCCCATTC-AAGGGA
* * *
4231 GAATCGGTTCCCCTTCAAGGGG
1 GAATCGATTCCCATTCAAGGGA
*
4253 GTATCGATTCCC
1 GAATCGATTCCC
4265 TCTGCACTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (22 bp):
GAATCGATTCCCATTCAAGGGA
Found at i:8333 original size:116 final size:117
Alignment explanation
Indices: 8119--8334 Score: 278
Period size: 116 Copynumber: 1.9 Consensus size: 117
8109 AAATCGAAGT
*
8119 TTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCATTT
1 TTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
* *
8184 TGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGAAAA
66 TGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
* * * *
8236 TTTCATTTTCAA-AGTTTTCAGATTTTATTTTTGAAA-CTCTAACTCCTT-TCTCAACATTTCAT
1 TTTCATTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACATTTCAT
* * **
8298 TTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
64 TTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
8335 ATCAATTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
115 1 0.01
116 49 0.58
117 35 0.41
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (117 bp):
TTTCATTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
TGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAA
Found at i:15490 original size:13 final size:13
Alignment explanation
Indices: 15472--15496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15462 TTCCCTCTTC
15472 ACATGAAAAGTAG
1 ACATGAAAAGTAG
15485 ACATGAAAAGTA
1 ACATGAAAAGTA
15497 ATCCATCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (13 bp):
ACATGAAAAGTAG
Found at i:19621 original size:13 final size:13
Alignment explanation
Indices: 19603--19628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19593 CAATTGTTGG
19603 TAAATAAAAAAAT
1 TAAATAAAAAAAT
19616 TAAATAAAAAAAT
1 TAAATAAAAAAAT
19629 AATGAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAAAAAAAT
Found at i:19746 original size:3 final size:3
Alignment explanation
Indices: 19738--19800 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
19728 CTCCTCACTC
* ** ** * * *
19738 TCA TCA TCA TCA TCA CCA TTG TCA TTG TCA TCA TCG TCG TCG TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
19786 TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA
19801 GGAGTAGATA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:21763 original size:18 final size:17
Alignment explanation
Indices: 21710--21764 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
21700 CTAATACTAA
*
21710 AAAATTTAAATAAATA-
1 AAAATTAAAATAAATAT
21726 AAATATTAAAA-ATAAT-T
1 AAA-ATTAAAATA-AATAT
21743 AAAATTAAAATAGAATAT
1 AAAATTAAAATA-AATAT
21761 AAAA
1 AAAA
21765 ATGTTACCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 11 0.34
17 16 0.50
18 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATTAAAATAAATAT
Found at i:21960 original size:17 final size:17
Alignment explanation
Indices: 21938--21979 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
21928 AATTTGACCA
21938 GGTTTGAGCTTTAAGAG
1 GGTTTGAGCTTTAAGAG
21955 GGTTTGAGCTTTAAGAG
1 GGTTTGAGCTTTAAGAG
21972 GGTTTGAG
1 GGTTTGAG
21980 AGGATTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (17 bp):
GGTTTGAGCTTTAAGAG
Found at i:22908 original size:8 final size:8
Alignment explanation
Indices: 22820--22913 Score: 52
Period size: 8 Copynumber: 11.6 Consensus size: 8
22810 TAATTATTAA
22820 ATTATATAT
1 ATTATA-AT
22829 ATTGATAACT
1 ATT-ATAA-T
*
22839 TTTATAAT
1 ATTATAAT
*
22847 ATAAT-AT
1 ATTATAAT
*
22854 AATATAAT
1 ATTATAAT
* *
22862 ATTTTATT
1 ATTATAAT
*
22870 GTTATAAT
1 ATTATAAT
22878 CA-TAT--T
1 -ATTATAAT
22884 ATTATAAT
1 ATTATAAT
22892 ATATATAAT
1 AT-TATAAT
22901 ATTATAAT
1 ATTATAAT
*
22909 TTTAT
1 ATTAT
22914 TTTAATAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
5 1 0.02
6 4 0.06
7 5 0.08
8 32 0.50
9 16 0.25
10 6 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATTATAAT
Found at i:23059 original size:23 final size:24
Alignment explanation
Indices: 23014--23075 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
23004 TCCGTAAAAT
*
23014 ATAATATAA-CATTTT-TATTTTA
1 ATAATATAATTATTTTATATTTTA
*
23036 ATATTATAATT-TTTTATATTTTA
1 ATAATATAATTATTTTATATTTTA
*
23059 ATAATATTATTATTTTA
1 ATAATATAATTATTTTA
23076 GTAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 12 0.36
23 16 0.48
24 5 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
ATAATATAATTATTTTATATTTTA
Found at i:23086 original size:19 final size:19
Alignment explanation
Indices: 23052--23128 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 19
23042 TAATTTTTTA
23052 TATTTTAAT-AAT-ATTAT
1 TATTTTAATAAATAATTAT
*
23069 TATTTTAGTAAATAATTAAT
1 TATTTTAATAAATAATT-AT
* * *
23089 ATAATTAATAATATATAATTCT
1 -T-ATT-TTAATAAATAATTAT
23111 TATTTTAATAAATAATTA
1 TATTTTAATAAATAATTA
23129 ATGTAATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 8 0.17
18 3 0.07
19 14 0.30
20 5 0.11
21 2 0.04
22 4 0.09
23 10 0.22
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
TATTTTAATAAATAATTAT
Found at i:23179 original size:27 final size:26
Alignment explanation
Indices: 23149--23223 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
23139 TAGTAATTTT
23149 TATTTTAATAAAATATAATAATCATAA
1 TATTTTAATAAAATATAATAAT-ATAA
* *
23176 TATTTTTTTATAAAAT-T-ATGGATATAA
1 TA--TTTTAATAAAATATAAT-AATATAA
23203 TATTTTAATAATAATA-AATAA
1 TATTTTAATAA-AATATAATAA
23224 ATTATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
25 8 0.21
26 4 0.11
27 12 0.32
28 3 0.08
29 11 0.29
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (26 bp):
TATTTTAATAAAATATAATAATATAA
Found at i:23362 original size:14 final size:14
Alignment explanation
Indices: 23343--23370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23333 CGTCAACTAA
23343 TTTTTAAAAAATAT
1 TTTTTAAAAAATAT
23357 TTTTTAAAAAATAT
1 TTTTTAAAAAATAT
23371 AATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTAAAAAATAT
Found at i:24358 original size:2 final size:2
Alignment explanation
Indices: 24351--24393 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24341 TACAACATTC
24351 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
24393 A
1 A
24394 GGGTTAAGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24676 original size:2 final size:2
Alignment explanation
Indices: 24616--24661 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
24606 TATATTGAAC
24616 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
24658 AT AT
1 AT AT
24662 TGAACATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25667 original size:23 final size:23
Alignment explanation
Indices: 25640--25696 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
25630 TTGACCCTTA
25640 ATTTTGATTTTTACCCT-GATTTT
1 ATTTT-ATTTTTACCCTCGATTTT
* * *
25663 CTTTTAAATTTTACCCTCTATTTT
1 ATTTT-ATTTTTACCCTCGATTTT
25687 ATTTTATTTT
1 ATTTTATTTT
25697 AATTTAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.19, C:0.14, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTTTATTTTTACCCTCGATTTT
Found at i:25685 original size:24 final size:23
Alignment explanation
Indices: 25648--25692 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
25638 TAATTTTGAT
*
25648 TTTTACCCTGATTTTCTTTTAAA
1 TTTTACCCTGATTTTATTTTAAA
*
25671 TTTTACCCTCTATTTTATTTTA
1 TTTTACCCT-GATTTTATTTTA
25693 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTACCCTGATTTTATTTTAAA
Found at i:25955 original size:18 final size:18
Alignment explanation
Indices: 25934--25975 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
25924 TATTACTACA
*
25934 TTCTATTAT-ATTTATTTT
1 TTCTATTATAATTT-TATT
25952 TTCT-TTATAATTTTATT
1 TTCTATTATAATTTTATT
25969 TTCTATT
1 TTCTATT
25976 TTTCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTATTATAATTTTATT
Found at i:25959 original size:17 final size:20
Alignment explanation
Indices: 25934--25970 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
25924 TATTACTACA
25934 TTCTATTAT-A-TTTATTTT
1 TTCTATTATAATTTTATTTT
25952 TTCT-TTATAATTTTATTTT
1 TTCTATTATAATTTTATTTT
25971 CTATTTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (20 bp):
TTCTATTATAATTTTATTTT
Found at i:26085 original size:5 final size:5
Alignment explanation
Indices: 26000--26097 Score: 60
Period size: 5 Copynumber: 19.6 Consensus size: 5
25990 GTTTCTATTT
* ** *
26000 TTTTA GTTTTA TTTGA TTCCA TTTT- TTTTA TTTTCA TTTTCA TCTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA
* * * *
26047 TTCTA TTTTA CTTTA -TTTC TTTTA TTAT- TTTTA TTTTA TTTT- TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA
26095 TTT
1 TTT
26098 AGCTACTTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
4 12 0.17
5 43 0.60
6 17 0.24
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:26092 original size:18 final size:19
Alignment explanation
Indices: 26058--26098 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
26048 TCTATTTTAC
26058 TTTATTTCTTTTATTATT-
1 TTTATTTCTTTTATTATTA
*
26076 TTTATTT-TATTTTTTATTA
1 TTTATTTCT-TTTATTATTA
26095 TTTA
1 TTTA
26099 GCTACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.75
19 4 0.20
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTCTTTTATTATTA
Found at i:26092 original size:21 final size:23
Alignment explanation
Indices: 26052--26097 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
26042 TCTTATTCTA
26052 TTTTACTTTATTTCTTTTATTAT
1 TTTTACTTTATTTCTTTTATTAT
*
26075 TTTTATTTTA-TT-TTTTATTAT
1 TTTTACTTTATTTCTTTTATTAT
26096 TT
1 TT
26098 AGCTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 9 0.41
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTACTTTATTTCTTTTATTAT
Found at i:28409 original size:19 final size:19
Alignment explanation
Indices: 28385--28428 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
28375 CCAGATCATG
28385 AGGACACCAAGACTATGGA
1 AGGACACCAAGACTATGGA
28404 AGGACACCAAGACTATGGA
1 AGGACACCAAGACTATGGA
28423 AGGACA
1 AGGACA
28429 TCTTAACCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.27, T:0.09
Consensus pattern (19 bp):
AGGACACCAAGACTATGGA
Found at i:36457 original size:65 final size:64
Alignment explanation
Indices: 36382--36507 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 64
36372 AATACTTCAC
* ** * *
36382 TTAGGATGAAAACTCGAGAGGGTATCCTAAGTTGAAAAAGAA-AAAGAAAG-AAAAAGAAAAAAC
1 TTAGGATGAAAACTCGAAAGGACACCCTAAATT-AAAAA-AAGAAA-AAAGAAAAAAGAAAAAAC
36445 GT
63 GT
*
36447 TTAGGGTGAAAACTCGAAAGGACACCCTAAATTAAAAAAAGAAAAAAGAAAAAAGAAAAAA
1 TTAGGATGAAAACTCGAAAGGACACCCTAAATTAAAAAAAGAAAAAAGAAAAAAGAAAAAA
36508 AAAGAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
63 6 0.11
64 20 0.38
65 27 0.51
ACGTcount: A:0.58, C:0.09, G:0.20, T:0.13
Consensus pattern (64 bp):
TTAGGATGAAAACTCGAAAGGACACCCTAAATTAAAAAAAGAAAAAAGAAAAAAGAAAAAACGT
Found at i:36486 original size:1 final size:1
Alignment explanation
Indices: 36480--36596 Score: 90
Period size: 1 Copynumber: 117.0 Consensus size: 1
36470 ACCCTAAATT
* * * * * * * *
36480 AAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
36545 AGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
36597 TAAGGTGGGT
Statistics
Matches: 84, Mismatches: 32, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:36493 original size:7 final size:7
Alignment explanation
Indices: 36481--36591 Score: 188
Period size: 7 Copynumber: 15.6 Consensus size: 7
36471 CCCTAAATTA
36481 AAAAAAG
1 AAAAAAG
36488 AAAAAAG
1 AAAAAAG
36495 AAAAAAG
1 AAAAAAG
36502 AAAAAAAAAG
1 ---AAAAAAG
36512 AAAAAAG
1 AAAAAAG
36519 AAAAAAG
1 AAAAAAG
36526 AAAAAAG
1 AAAAAAG
36533 AAAAAAG
1 AAAAAAG
36540 AAAAAAG
1 AAAAAAG
36547 AAAAAAG
1 AAAAAAG
36554 AAAAAAG
1 AAAAAAG
36561 AAAAAAG
1 AAAAAAG
36568 AAAAAAG
1 AAAAAAG
36575 AAAAAAG
1 AAAAAAG
36582 -AAAAAG
1 AAAAAAG
36588 AAAA
1 AAAA
36592 GAAAATAAGG
Statistics
Matches: 100, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.06
7 87 0.87
10 7 0.07
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:41710 original size:12 final size:12
Alignment explanation
Indices: 41683--41717 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
41673 TATTATATCA
41683 TTATTTTATCTTT
1 TTATTTTAT-TTT
41696 TTATTTTATTTT
1 TTATTTTATTTT
41708 TTA-TTTATTT
1 TTATTTTATTT
41718 ATTCATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 7 0.32
12 6 0.27
13 9 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:42020 original size:17 final size:18
Alignment explanation
Indices: 41985--42023 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
41975 TCTATTCTAC
41985 TTTATTTCTTTTATTATT
1 TTTATTTCTTTTATTATT
42003 TTTATTT-TATTT-TTATT
1 TTTATTTCT-TTTATTATT
42020 TTTA
1 TTTA
42024 GCTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTTCTTTTATTATT
Found at i:51981 original size:21 final size:20
Alignment explanation
Indices: 51895--52052 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
51885 AAATGACCAA
**
51895 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
51914 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
51934 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
51954 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
51975 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
51996 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
52016 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
52037 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
52053 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:52081 original size:20 final size:20
Alignment explanation
Indices: 52019--52288 Score: 303
Period size: 20 Copynumber: 13.5 Consensus size: 20
52009 CGATTTTCCA
* ** *
52019 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
52039 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
52059 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52079 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52099 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52119 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52139 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52159 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52179 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
52199 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
52219 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
52239 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
52259 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
52279 AAATCACAAC
1 AAATCGCAAC
52289 ACTGAAATTT
Statistics
Matches: 214, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 210 0.98
21 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:53010 original size:24 final size:24
Alignment explanation
Indices: 52971--53017 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
52961 AAATTTGGTC
52971 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
52995 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
53018 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:55382 original size:33 final size:34
Alignment explanation
Indices: 55331--55495 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
55321 CGGAAATTAC
* *
55331 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
55364 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
55398 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
55436 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
55469 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
55496 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:55414 original size:19 final size:19
Alignment explanation
Indices: 55345--55533 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
55335 GCAACGAGAG
55345 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55364 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
55378 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
55398 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55417 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55436 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55450 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55469 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55488 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
55502 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
55521 AATCGCATTGCGA
1 AATCGCAATGCGA
55534 TTCTCCCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 84 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:55472 original size:52 final size:52
Alignment explanation
Indices: 55331--55533 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
55321 CGGAAATTAC
*
55331 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
55378 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
55436 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
55488 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
55534 TTCTCCCGTT
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 85 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:55582 original size:19 final size:19
Alignment explanation
Indices: 55542--55691 Score: 203
Period size: 19 Copynumber: 8.4 Consensus size: 19
55532 GATTCTCCCG
55542 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
55562 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55581 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55595 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55614 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55633 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55647 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55666 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55685 TTGCGAT
1 TTGCGAT
55692 AGTCAATTTT
Statistics
Matches: 116, Mismatches: 4, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
14 12 0.10
16 14 0.12
17 14 0.12
19 61 0.53
20 15 0.13
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:55636 original size:52 final size:52
Alignment explanation
Indices: 55523--55691 Score: 320
Period size: 52 Copynumber: 3.2 Consensus size: 52
55513 GAAATTAAAA
*
55523 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
55576 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
55628 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
55680 TCGCATTGCGAT
1 TCGCATTGCGAT
55692 AGTCAATTTT
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 82 0.71
53 33 0.29
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:55651 original size:33 final size:33
Alignment explanation
Indices: 55523--55673 Score: 137
Period size: 33 Copynumber: 4.4 Consensus size: 33
55513 GAAATTAAAA
*
55523 TCGCATTGCGATTCTCCCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
55556 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 T-CGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TCATT
* * * *
55597 GCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
55628 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
55661 TCGCATTGCGATT
1 TCGCATTGCGATT
55674 TTCATTTCGC
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
31 9 0.10
32 5 0.05
33 39 0.42
34 10 0.11
35 2 0.02
36 3 0.03
37 5 0.05
39 10 0.11
40 6 0.06
41 4 0.04
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:55817 original size:14 final size:14
Alignment explanation
Indices: 55798--55834 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
55788 CATCAATTAC
55798 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
55812 ACAAATCATCTTTT
1 ACAAATCAACTTTT
55826 ACAAATCAA
1 ACAAATCAA
55835 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:57827 original size:14 final size:14
Alignment explanation
Indices: 57808--57864 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
57798 GCGAAATGAA
*
57808 AATCGCAACGACAG
1 AATCGCAACGAAAG
57822 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
57839 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
57855 AATCGCAACG
1 AATCGCAACG
57865 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:57835 original size:33 final size:33
Alignment explanation
Indices: 57789--57881 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
57779 GCGAAACCAA
*
57789 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
57822 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
57855 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
57882 TGCGATTTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:57846 original size:19 final size:19
Alignment explanation
Indices: 57752--57886 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
57742 TAGTTTACTT
* *
57752 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
57772 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
57791 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
57810 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
57824 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
57843 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
57857 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
57876 TCGCAATGCGA
1 TCGCAACGCGA
57887 TTTGGTTTCG
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:57927 original size:33 final size:33
Alignment explanation
Indices: 57882--57972 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
57872 AAAATCGCAA
57882 TGCGA-TTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
57914 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
57947 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
57973 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 5 0.09
33 48 0.87
34 2 0.04
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:57935 original size:19 final size:19
Alignment explanation
Indices: 57882--58009 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
57872 AAAATCGCAA
57882 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
57900 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
57914 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
57933 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
57947 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
57966 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
57985 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
58005 TGCGA
1 TGCGA
58010 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 7 0.08
19 42 0.47
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:58320 original size:93 final size:93
Alignment explanation
Indices: 58057--58431 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
58047 ATGGATTGCA
58057 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58121 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58149 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58213 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58241 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58306 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58334 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
58399 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58427 TTACT
1 TTACT
58432 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 96 0.34
93 184 0.66
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:60151 original size:14 final size:14
Alignment explanation
Indices: 60132--60221 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
60122 TTGAAATGAA
60132 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
60146 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
60165 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
60179 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
60198 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60212 AATCGCAACG
1 AATCGCAACG
60222 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:60169 original size:33 final size:33
Alignment explanation
Indices: 60124--60238 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
60114 TCTTTTGGTT
60124 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
60157 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
60190 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
60223 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
60239 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:60170 original size:19 final size:19
Alignment explanation
Indices: 60146--60243 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
60136 GCAACGAGAG
*
60146 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
60165 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
60179 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
60198 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
60212 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
60231 AATCGCAATGCGA
1 AATCGCAACGCGA
60244 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:60274 original size:14 final size:14
Alignment explanation
Indices: 60255--60311 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
60245 TTTGGTTTCG
60255 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
60269 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
60288 CGTTACGATTCTCT
1 CGTTGCGATTCTCT
60302 CGTTGCGATT
1 CGTTGCGATT
60312 GTCATTTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:60287 original size:33 final size:33
Alignment explanation
Indices: 60239--60357 Score: 139
Period size: 33 Copynumber: 3.4 Consensus size: 33
60229 AAAATCGCAA
**
60239 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
60272 TGCGATTTTCATTTCGCGTTACGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
60305 TGCGATTGTCATTTCACGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
60344 TGCGATTTTCATTT
1 TGCGATTTTCATTT
60358 ATCTCGTTGC
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
33 48 0.66
36 1 0.01
37 1 0.01
39 23 0.32
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:60355 original size:20 final size:20
Alignment explanation
Indices: 60295--60369 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 20
60285 TCGCGTTACG
60295 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
* **
60315 ATT-TCACGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTC
*
60334 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
*
60354 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
60370 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 16 0.36
21 13 0.29
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:60490 original size:33 final size:33
Alignment explanation
Indices: 60448--60518 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
60438 AATACTAACT
*
60448 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
60481 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
60514 TGAAA
1 TGAAA
60519 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:60748 original size:22 final size:22
Alignment explanation
Indices: 60696--60750 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
60686 TGGTTGTGAG
**
60696 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
60718 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
60740 GGATTTCTTCG
1 GGATTTCTTCG
60751 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:60922 original size:20 final size:20
Alignment explanation
Indices: 60897--61050 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
60887 CTTTAAATAT
60897 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
60917 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
60939 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
60958 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
60978 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
60998 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
61018 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
61038 CGCGTTGCGATTT
1 CGCGTTGCGATTT
61051 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:61024 original size:40 final size:40
Alignment explanation
Indices: 60896--61050 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
60886 GCTTTAAATA
*
60896 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
60937 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
60977 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
61017 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
61051 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:61371 original size:21 final size:21
Alignment explanation
Indices: 61314--61376 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
61304 ATTATATTTT
61314 AAAATGTAATTATAAAAATATATA
1 AAAAT-TAATT-TAAAAATA-ATA
* **
61338 AAAA-AAAGGTAAAAATAATA
1 AAAATTAATTTAAAAATAATA
61358 AAAATTAATTT-AAAATAAT
1 AAAATTAATTTAAAAATAAT
61377 TAAATTTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 15 0.47
21 11 0.34
22 2 0.06
24 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATTAATTTAAAAATAATA
Found at i:62308 original size:90 final size:90
Alignment explanation
Indices: 62141--62572 Score: 675
Period size: 90 Copynumber: 4.8 Consensus size: 90
62131 CAATCTCGAG
* * * *
62141 TTTGATCTTCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTTATGGAAGAGTAG
1 TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
* *
62206 TGGAATAGATTCTTCTTATTTCAGA
66 TGGAACATATTCTTCTTATTTCAGA
* * *
62231 TTTGGTCTCCACGGAAGAGTTGTGGAATCAAATCAATCTCGAGTCTGATCTTCACGGAAAAGTAG
1 TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
62296 TGGAACATATTCTTCTTATTTCAGA
66 TGGAACATATTCTTCTTATTTCAGA
* * *
62321 TTTGGTATCCACGGAAGAGTAGTGGAAGCAAATCAATCTTGAGTCTGATCTTCACGGAAAAGTAG
1 TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
62386 TGGAACATATTCTTCTTATTTCAAGA
66 TGGAACATATTCTTCTTATTTC-AGA
* * *
62412 TTTGGTCTCCACAGAAGAGTAGTGGAAGTAAATCAATCTTGAGTCTGATCTTCACGGAAGAGTAG
1 TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
62477 TGGAACATATTCTTCTTATTTCAGA
66 TGGAACATATTCTTCTTATTTCAGA
* * * * *
62502 TTTAGTCTCCATGGAAGAGTAGTGGAAGAAAATCAATCTCGAGTCCGATCTCCACGGAAGAGTAG
1 TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
62567 TGGAAC
66 TGGAAC
62573 GGATTTCCCA
Statistics
Matches: 317, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
90 231 0.73
91 86 0.27
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (90 bp):
TTTGGTCTCCACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAG
TGGAACATATTCTTCTTATTTCAGA
Found at i:62487 original size:181 final size:180
Alignment explanation
Indices: 62150--62577 Score: 678
Period size: 181 Copynumber: 2.4 Consensus size: 180
62140 GTTTGATCTT
* * *
62150 CACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTTATGGAAGAGTAGTGGAATAGA
1 CACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAGTGGAACAGA
* *
62215 TTCTTCTTATTTCAGATTTGGTCTCCACGGAAGAGTTGTGGAATCAAATCAATCTCGAGTCTGAT
66 TTCTTCTTATTTCAGATTTGGTCTCCACAGAAGAGTAGTGGAATCAAATCAATCTCGAGTCTGAT
*
62280 CTTCACGGAAAAGTAGTGGAACATATTCTTCTTATTTCAGATTTGGTATC
131 CTTCACGGAAAAGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTATC
* * *
62330 CACGGAAGAGTAGTGGAAGCAAATCAATCTTGAGTCTGATCTTCACGGAAAAGTAGTGGAACATA
1 CACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAGTGGAACAGA
*
62395 TTCTTCTTATTTCAAGATTTGGTCTCCACAGAAGAGTAGTGGAAGT-AAATCAATCTTGAGTCTG
66 TTCTTCTTATTTC-AGATTTGGTCTCCACAGAAGAGTAGTGGAA-TCAAATCAATCTCGAGTCTG
* *
62459 ATCTTCACGGAAGAGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTCTC
129 ATCTTCACGGAAAAGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTATC
* * * * *
62511 CATGGAAGAGTAGTGGAAGAAAATCAATCTCGAGTCCGATCTCCACGGAAGAGTAGTGGAACGGA
1 CACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAGTGGAACAGA
62576 TT
66 TT
62578 TCCCATCAAA
Statistics
Matches: 226, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
180 72 0.32
181 153 0.68
182 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (180 bp):
CACGGAAGAGTAGTGGAAGCAAATCAATCTCGAGTCTGATCTTCACGGAAGAGTAGTGGAACAGA
TTCTTCTTATTTCAGATTTGGTCTCCACAGAAGAGTAGTGGAATCAAATCAATCTCGAGTCTGAT
CTTCACGGAAAAGTAGTGGAACATATTCTTCTTATTTCAGATTTAGTATC
Found at i:63420 original size:26 final size:27
Alignment explanation
Indices: 63386--63441 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
63376 TACTAAGGGC
63386 CTCGCCATGAG-ACATCTCTAAAAGGT
1 CTCGCCATGAGTACATCTCTAAAAGGT
*
63412 CTCGTCATGAGTACATCTCTAAAAGGT
1 CTCGCCATGAGTACATCTCTAAAAGGT
63439 CTC
1 CTC
63442 TAACCCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (27 bp):
CTCGCCATGAGTACATCTCTAAAAGGT
Found at i:65306 original size:15 final size:15
Alignment explanation
Indices: 65288--65322 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
65278 CGAGGGTTCT
65288 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
65303 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
65318 GTAGT
1 GTAGT
65323 GGTCCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:72154 original size:15 final size:15
Alignment explanation
Indices: 72136--72200 Score: 121
Period size: 15 Copynumber: 4.3 Consensus size: 15
72126 CGAGGGTTCT
*
72136 GTAGTCCTTCAGGAC
1 GTAGTCCTTCGGGAC
72151 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
72166 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
72181 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
72196 GTAGT
1 GTAGT
72201 GGTCCTACGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:74270 original size:21 final size:20
Alignment explanation
Indices: 74246--74298 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 20
74236 AGAGGAAAAT
74246 GAGAATGAAGGAAGAAATGAA
1 GAGAA-GAAGGAAGAAATGAA
74267 GAGAAGAAAGGAAGAAATGAA
1 GAGAAG-AAGGAAGAAATGAA
74288 GAGAAGAAGGA
1 GAGAAGAAGGA
74299 GATGAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (20 bp):
GAGAAGAAGGAAGAAATGAA
Found at i:74818 original size:139 final size:134
Alignment explanation
Indices: 74571--74948 Score: 398
Period size: 139 Copynumber: 2.7 Consensus size: 134
74561 TTTAAGTAAA
* *
74571 TTTTGGATTTGGTCCTCGCATCTATGACT-GAGTTCCATTTAATTATTCGATCCAATAATTGTCT
1 TTTT-GATTTGGTCCTCGCATTTAT-ACTCGAGTTCCATTTAATTATTCGATTC-ATAATTGT-T
* * * * * * * *
74635 AAAATTGGTTATGATTAATAATTAGATCTTCTATTTTAGTTTAATTTCACTTTAGTCCCTTAATT
62 AAAATTGGTTATGATTAAT-ATTAGAGCCTATATTTTAGCTTAATTTCACTTCAGTCCATAAAAT
* **
74700 TGGGTGAAC
126 TAGAAGAAC
*
74709 TTTTGATTTAGTCCTCGCATTTATACTCGATGTTCCATTTCAATTATTCGATTCAGTAATTGGTT
1 TTTTGATTTGGTCCTCGCATTTATACTCGA-GTTCCATTT-AATTATTCGATTCA-TAATT-GTT
*
74774 AAAATTGGTTATGATTAATATTATAGCCTATATTTTATGCTTAATTTCACTTCAGTCCATAAAAT
62 AAAATTGGTTATGATTAATATTAGAGCCTATATTTTA-GCTTAATTTCACTTCAGTCCATAAAAT
*
74839 TAGAAGAAT
126 TAGAAGAAC
* * * *
74848 TTTTAATTTGGTTCTTGCATTTATGCTCGAGGTTCCATTTTAATTATTCGATTTCATAATTTGTT
1 TTTTGATTTGGTCCTCGCATTTATACTCGA-GTTCCA-TTTAATTATTCGA-TTCATAA-TTGTT
* * * * *
74913 AAAATTGATTAGGATTAATATTGGAACCTACATTTT
62 AAAATTGGTTATGATTAATATTAGAGCCTATATTTT
74949 TAGGTTTAAT
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
136 3 0.01
137 20 0.10
138 28 0.14
139 141 0.69
140 11 0.05
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (134 bp):
TTTTGATTTGGTCCTCGCATTTATACTCGAGTTCCATTTAATTATTCGATTCATAATTGTTAAAA
TTGGTTATGATTAATATTAGAGCCTATATTTTAGCTTAATTTCACTTCAGTCCATAAAATTAGAA
GAAC
Found at i:90992 original size:5 final size:5
Alignment explanation
Indices: 90984--91022 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
90974 TTTATTTTTT
* * *
90984 ATAAC ATAAT ATAAC ACAAC ATAAC ACAAC ATAAC ATAA
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAA
91023 TAATTGATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
ATAAC
Found at i:92656 original size:21 final size:21
Alignment explanation
Indices: 92632--92681 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
92622 TCCTAATCTC
* * *
92632 AAACTCAAATCCTAATTTATA
1 AAACTCAAATCCCAACTTACA
*
92653 AAACT-TAATCCCAACTTACA
1 AAACTCAAATCCCAACTTACA
92673 AAACTCAAA
1 AAACTCAAA
92682 GCTAATATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (21 bp):
AAACTCAAATCCCAACTTACA
Found at i:92718 original size:15 final size:15
Alignment explanation
Indices: 92695--92727 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
92685 AATATTCACT
92695 CTCAACGGCGGCACC
1 CTCAACGGCGGCACC
*
92710 CTCATCGGCGGCACC
1 CTCAACGGCGGCACC
92725 CTC
1 CTC
92728 CATAAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.48, G:0.24, T:0.12
Consensus pattern (15 bp):
CTCAACGGCGGCACC
Found at i:93339 original size:30 final size:30
Alignment explanation
Indices: 93286--93343 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
93276 ACGTGGCATT
* *
93286 AAAATACTAATAAATTATGCCATGTCATAA
1 AAAATACTAATAAATAAGGCCATGTCATAA
93316 AAAATACTAATAAA-AAGGTCCATGTCAT
1 AAAATACTAATAAATAAGG-CCATGTCAT
93344 GTAGAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.28
Consensus pattern (30 bp):
AAAATACTAATAAATAAGGCCATGTCATAA
Found at i:95775 original size:3 final size:3
Alignment explanation
Indices: 95756--95814 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
95746 TATACAAAAA
*
95756 TAT TAT AAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
95802 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
95815 TATGTTTACA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:99917 original size:14 final size:15
Alignment explanation
Indices: 99898--99927 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99888 GATCAATACT
99898 TTTGCA-TTTGCATC
1 TTTGCATTTTGCATC
99912 TTTGCATTTTGCATC
1 TTTGCATTTTGCATC
99927 T
1 T
99928 GCATTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (15 bp):
TTTGCATTTTGCATC
Found at i:101657 original size:2 final size:2
Alignment explanation
Indices: 101652--101683 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101642 TATACCCAGA
101652 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
101684 GTATGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103246 original size:31 final size:32
Alignment explanation
Indices: 103186--103248 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
103176 AAGAAACGAT
*
103186 GAATGATGGGGCATCTTTGGAAATTCAACATC
1 GAATGATGGGGCATATTTGGAAATTCAACATC
* *
103218 GAATGTTGGGGCATATTTGG-GATTCAACATC
1 GAATGATGGGGCATATTTGGAAATTCAACATC
103249 ATGATGTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (32 bp):
GAATGATGGGGCATATTTGGAAATTCAACATC
Found at i:103523 original size:35 final size:35
Alignment explanation
Indices: 103477--103544 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
103467 TTTTAAGAAA
* *
103477 AAAAATCTTTGAG-TCTGTTTCCTTTGAAACAAAAC
1 AAAAATATTTGAGATC-GTTTCCCTTGAAACAAAAC
103512 AAAAATATTTGAGATCGTTTCCCTTGAAACAAA
1 AAAAATATTTGAGATCGTTTCCCTTGAAACAAA
103545 TTTTATCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (35 bp):
AAAAATATTTGAGATCGTTTCCCTTGAAACAAAAC
Found at i:104657 original size:20 final size:20
Alignment explanation
Indices: 104632--104674 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
104622 TCTAAAGGCC
104632 CATTTAGAACCATATAGATG
1 CATTTAGAACCATATAGATG
* * *
104652 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATATAGATG
104672 CAT
1 CAT
104675 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
CATTTAGAACCATATAGATG
Found at i:108123 original size:15 final size:15
Alignment explanation
Indices: 108103--108131 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108093 AACCGAACCG
108103 AACCGAATTAACCAT
1 AACCGAATTAACCAT
108118 AACCGAATTAACCA
1 AACCGAATTAACCA
108132 AGCTTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:108679 original size:9 final size:9
Alignment explanation
Indices: 108665--108689 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
108655 TTTAATTTCA
108665 GTTAATTCG
1 GTTAATTCG
108674 GTTAATTCG
1 GTTAATTCG
108683 GTTAATT
1 GTTAATT
108690 AACCGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (9 bp):
GTTAATTCG
Found at i:113064 original size:21 final size:21
Alignment explanation
Indices: 113024--113064 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
113014 ACGTTTTCAC
* *
113024 CTTTCACTTTCTATCTTTTTA
1 CTTTCACTTTCTAACATTTTA
*
113045 CTTTTACTTTCTAACATTTT
1 CTTTCACTTTCTAACATTTT
113065 CTTCTCCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (21 bp):
CTTTCACTTTCTAACATTTTA
Found at i:115706 original size:20 final size:20
Alignment explanation
Indices: 115681--115723 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
115671 TCTAAAGGCC
115681 CATTTAGAACCATATAGATG
1 CATTTAGAACCATATAGATG
* * *
115701 CATTTAGAAGCATTTAGTTG
1 CATTTAGAACCATATAGATG
115721 CAT
1 CAT
115724 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (20 bp):
CATTTAGAACCATATAGATG
Found at i:117622 original size:21 final size:20
Alignment explanation
Indices: 117566--117626 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 20
117556 TCCTTAAAGA
*
117566 GTGGTCCTTCGAGACATATAT
1 GTGGTCCTTCG-GACATCTAT
117587 GTGGTCCTTCGGGACATCTAT
1 GTGGTCCTTC-GGACATCTAT
117608 GTGGTCCTTCAGGACATCT
1 GTGGTCCTTC-GGACATCT
117627 CTACATGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (20 bp):
GTGGTCCTTCGGACATCTAT
Found at i:117635 original size:23 final size:21
Alignment explanation
Indices: 117588--117636 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
117578 GACATATATG
* **
117588 TGGTCCTTCGGGACATCTATG
1 TGGTCCTTCAGGACATCTACA
117609 TGGTCCTTCAGGACATCTCTACA
1 TGGTCCTTCAGGACA--TCTACA
117632 TGGTC
1 TGGTC
117637 ATTCGGGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (21 bp):
TGGTCCTTCAGGACATCTACA
Found at i:118314 original size:16 final size:17
Alignment explanation
Indices: 118281--118314 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
118271 TTAAATTTCC
118281 TAAAACTTTTGTAAAAG
1 TAAAACTTTTGTAAAAG
*
118298 TAAAAGTTTTG-AAAAG
1 TAAAACTTTTGTAAAAG
118314 T
1 T
118315 CAATGTGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (17 bp):
TAAAACTTTTGTAAAAG
Found at i:119418 original size:21 final size:21
Alignment explanation
Indices: 119394--119439 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
119384 TTCTCTAGAG
119394 AGAGCTTAAAATGAGAGGTTT
1 AGAGCTTAAAATGAGAGGTTT
*
119415 AGAGCTTAGAATGAGAGGTTT
1 AGAGCTTAAAATGAGAGGTTT
119436 AGAG
1 AGAG
119440 AGCATAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (21 bp):
AGAGCTTAAAATGAGAGGTTT
Found at i:119418 original size:23 final size:23
Alignment explanation
Indices: 119392--119447 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
119382 AATTCTCTAG
119392 AGAGAGCTTAAAATGAGAGGTTT
1 AGAGAGCTTAAAATGAGAGGTTT
*
119415 --AGAGCTTAGAATGAGAGGTTT
1 AGAGAGCTTAAAATGAGAGGTTT
*
119436 AGAGAGCATAAA
1 AGAGAGCTTAAA
119448 GTCCAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 20 0.71
23 8 0.29
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.23
Consensus pattern (23 bp):
AGAGAGCTTAAAATGAGAGGTTT
Found at i:120670 original size:21 final size:21
Alignment explanation
Indices: 120644--120699 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
120634 TCTTTGTGTG
120644 TTATATAAGCTTAAGGAAAAC
1 TTATATAAGCTTAAGGAAAAC
*
120665 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAAC
*
120686 TTATATAAGATTAA
1 TTATATAAGCTTAA
120700 AACAACAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (21 bp):
TTATATAAGCTTAAGGAAAAC
Found at i:122107 original size:21 final size:21
Alignment explanation
Indices: 122081--122133 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
122071 TCTTTATAGA
122081 GTGGTCATTCGGGACATCTAT
1 GTGGTCATTCGGGACATCTAT
* *
122102 GTGGTCCTTCAGGACATCTAT
1 GTGGTCATTCGGGACATCTAT
122123 GTGGTCATTCG
1 GTGGTCATTCG
122134 AGATAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (21 bp):
GTGGTCATTCGGGACATCTAT
Found at i:123351 original size:131 final size:128
Alignment explanation
Indices: 122909--123350 Score: 485
Period size: 131 Copynumber: 3.4 Consensus size: 128
122899 GAGACATTAT
* *** * *
122909 CCCTAAAGATGGCCTGCCATCCTCATGGTGTAGGAACCGTGTCATCCACCGACCAAACCTCCTTA
1 CCCTAAAGATGGCCTGCCGTCCTCATCACGTAGGAACCATGTCATCC-CCGACCAAACCTCCTCA
* * * *
122974 TCATGTAGGAGCCGTGTCACTCCTAGATAACCAACCGTCCTCATCAC-GTAGGAACCATGTTATC
65 TCACGTAGAAGACGTGTCAC-CCCAGATAACC-ACCGTCCTCATCACAG-AGGAACCATGTTATC
*
123038 AT
127 AC
* * * * *
123040 TCCTAAAGATGGCCTAG-TGTCCTCATCACGTAGGAATCGTGTCATCCCCGACCAAATCTCCTCA
1 CCCTAAAGATGGCCT-GCCGTCCTCATCACGTAGGAACCATGTCATCCCCGACCAAACCTCCTCA
* * *
123104 TCACGTA-AGAGACGTGTCACCCCAGATAACGACCGTCCTAATCACATAGGAACCATGTTATCAC
65 TCACGTAGA-AGACGTGTCACCCCAGATAACCACCGTCCTCATCACAGAGGAACCATGTTATCAC
* * * * *
123168 CATTCCTAAAGATGGCTTGCCGTTCTCATCACGTAGGAACCATGCCATCCCCTGACTAGACCTCC
1 C---CCTAAAGATGGCCTGCCGTCCTCATCACGTAGGAACCATGTCATCCCC-GACCAAACCTCC
* *
123233 TCATCACGTAGAAGTCGTGTCACCCCAGATAACCAGCCGTCCTCATCACAGAGAAACCATGTTAT
62 TCATCACGTAGAAGACGTGTCACCCCAGATAACCA-CCGTCCTCATCACAGAGGAACCATGTTAT
123298 CAC
126 CAC
* * * *
123301 CCCTTAAAGATGGCATGTCGTCCTCATCGCGTAGAAACCATGTCATCCCC
1 CCC-TAAAGATGGCCTGCCGTCCTCATCACGTAGGAACCATGTCATCCCC
123351 TTAGATGACC
Statistics
Matches: 262, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
128 29 0.11
129 9 0.03
130 34 0.13
131 118 0.45
132 41 0.16
133 31 0.12
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (128 bp):
CCCTAAAGATGGCCTGCCGTCCTCATCACGTAGGAACCATGTCATCCCCGACCAAACCTCCTCAT
CACGTAGAAGACGTGTCACCCCAGATAACCACCGTCCTCATCACAGAGGAACCATGTTATCAC
Found at i:124795 original size:30 final size:30
Alignment explanation
Indices: 124761--124823 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
124751 GTTATATGAG
*
124761 CTATGTGATAAAGGTATAGAAATGATATGT
1 CTATGTGATAAAGGTATAGAAATAATATGT
*
124791 CTATGTGATAAAGGTATGGAAATAATATGT
1 CTATGTGATAAAGGTATAGAAATAATATGT
124821 CTA
1 CTA
124824 CGCGATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAGGTATAGAAATAATATGT
Found at i:125080 original size:23 final size:23
Alignment explanation
Indices: 125046--125131 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
125036 ACATATTATA
*
125046 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
125069 TGGCACTTCGGTGCATTTCTATG
1 TGGCACTTCGGTGCAATTCTACG
* *
125092 CTGTCA-TTCGAGAT-AAATTCTACG
1 -TGGCACTTCG-G-TGCAATTCTACG
125116 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
125132 ATTTATACGA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
22 1 0.02
23 31 0.63
24 16 0.33
25 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:125681 original size:20 final size:20
Alignment explanation
Indices: 125656--125693 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
125646 ATGCATCGAT
125656 GCACTGT-AGCACTGTTCATG
1 GCACTGTAAG-ACTGTTCATG
125676 GCACTGTAAGACTGTTCA
1 GCACTGTAAGACTGTTCA
125694 CTGTACTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (20 bp):
GCACTGTAAGACTGTTCATG
Found at i:134558 original size:15 final size:16
Alignment explanation
Indices: 134527--134559 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
134517 ATTTGGTATC
134527 TTTTGTTCTTCTTATA
1 TTTTGTTCTTCTTATA
*
134543 TTTTTTTCTT-TTATA
1 TTTTGTTCTTCTTATA
134558 TT
1 TT
134560 AGTAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTGTTCTTCTTATA
Found at i:134563 original size:100 final size:97
Alignment explanation
Indices: 134446--134634 Score: 272
Period size: 100 Copynumber: 1.9 Consensus size: 97
134436 ACATCTTGTA
*
134446 TTTTTTTTTATATTAGTAAAATTAGTTTTCTATGT-GTAGTTGGTTTTTTCTGTTTAGGTTTTTT
1 TTTTTTTTTATATTAGTAAAATTAGTTTTCTATGTCATAGTTGGTTTTTTCTGTTTAGG-TTTTT
134510 TACGAAAATTTGGTATCTTTTGTTCTTCTTATATT
65 TACGAAAATTT--TATCTTTTGTTCTTCTTATATT
* * * *
134545 TTTTTCTTTTATATTAGTAAAATTTGTTTTCTCTGTCATGGTTGGTTTTTTCTTTTTAGGTTTTT
1 TTTTT-TTTTATATTAGTAAAATTAGTTTTCTATGTCATAGTTGGTTTTTTCTGTTTAGGTTTTT
* *
134610 TACGTAAATTTTATTTTTTGTTCTT
65 TACGAAAATTTTATCTTTTGTTCTT
134635 TTTTTTCAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
98 13 0.16
99 5 0.06
100 43 0.53
101 20 0.25
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.62
Consensus pattern (97 bp):
TTTTTTTTTATATTAGTAAAATTAGTTTTCTATGTCATAGTTGGTTTTTTCTGTTTAGGTTTTTT
ACGAAAATTTTATCTTTTGTTCTTCTTATATT
Found at i:137615 original size:16 final size:16
Alignment explanation
Indices: 137594--137626 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
137584 ATATTAAGAA
137594 AAAATAATAG-AAAAAT
1 AAAATAA-AGTAAAAAT
137610 AAAATAAAGTAAAAAT
1 AAAATAAAGTAAAAAT
137626 A
1 A
137627 TATATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAGTAAAAAT
Found at i:137664 original size:23 final size:25
Alignment explanation
Indices: 137610--137664 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 25
137600 ATAGAAAAAT
137610 AAAATAAAGTAAAAATATATATATAA
1 AAAATAAAG-AAAAATATATATATAA
*
137636 ATAATAAA-AAAAATA-ATAT-TAA
1 AAAATAAAGAAAAATATATATATAA
137658 GAAAATA
1 -AAAATA
137665 TATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.12
23 9 0.35
24 7 0.27
26 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATAAAGAAAAATATATATATAA
Found at i:137668 original size:40 final size:39
Alignment explanation
Indices: 137595--137677 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 39
137585 TATTAAGAAA
*
137595 AAATAATAGAAAAATAAAATAAAGTAAAAATATATATAT
1 AAATAATAAAAAAATAAAATAAAGTAAAAATATATATAT
* *
137634 AAATAATAAAAAAAATAATATTAAG--AAAATATATATA-
1 AAATAAT-AAAAAAATAAAATAAAGTAAAAATATATATAT
137671 AAA-AATA
1 AAATAATA
137678 TATTTAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 1 0.03
36 3 0.08
37 3 0.08
38 12 0.30
39 7 0.17
40 14 0.35
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (39 bp):
AAATAATAAAAAAATAAAATAAAGTAAAAATATATATAT
Found at i:137673 original size:27 final size:26
Alignment explanation
Indices: 137634--137694 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
137624 ATATATATAT
137634 AAATAATAAAAAAAATA-ATATTAAGA
1 AAATAATAAAAAAAATATAT-TTAAGA
*
137660 AAATATATATAAAAAATATATTTAAGA
1 AAATA-ATAAAAAAAATATATTTAAGA
*
137687 AAAAAATA
1 AAATAATA
137695 CATAGTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 8 0.26
27 21 0.68
28 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.26
Consensus pattern (26 bp):
AAATAATAAAAAAAATATATTTAAGA
Found at i:137744 original size:16 final size:14
Alignment explanation
Indices: 137723--137765 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 14
137713 ATACGTATAT
137723 ATATATATAATATAA
1 ATATATATAATA-AA
137738 GATATATATAATAAA
1 -ATATATATAATAAA
137753 ATA-ATATAATAAA
1 ATATATATAATAAA
137766 TAAAAAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 3 0.11
15 2 0.07
16 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATATATAATAAA
Done.