Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002608.1 Hibiscus syriacus cultivar Beakdansim tig00005273_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: 129546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:10414 original size:2 final size:2
Alignment explanation
Indices: 10407--10440 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10397 ACAATATAAG
10407 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
10441 TCATATTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11195 original size:23 final size:23
Alignment explanation
Indices: 11150--11195 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11140 GTAGAATGTG
*
11150 TTCAACTTTAATTGCTTTTTTTT
1 TTCAACTTTAATTGCTTTATTTT
* *
11173 TTCAATTTTAATT-CTTTAATTT
1 TTCAACTTTAATTGCTTTATTTT
11195 T
1 T
11196 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (23 bp):
TTCAACTTTAATTGCTTTATTTT
Found at i:11211 original size:15 final size:14
Alignment explanation
Indices: 11169--11213 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
11159 AATTGCTTTT
11169 TTTTTTCAATTTTAA
1 TTTTTTC-ATTTTAA
* *
11184 TTCTTTAATTTTATA
1 TTTTTTCATTTTA-A
11199 TTTTTTCATTTTAA
1 TTTTTTCATTTTAA
11213 T
1 T
11214 CATCTGACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTTCATTTTAA
Found at i:25371 original size:17 final size:16
Alignment explanation
Indices: 25349--25380 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25339 CAGTGACGAG
25349 GAAGAAGAAGATAAGAA
1 GAAGAAGAAGA-AAGAA
25366 GAAGAAGAAGAAAGA
1 GAAGAAGAAGAAAGA
25381 GAATAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (16 bp):
GAAGAAGAAGAAAGAA
Found at i:26537 original size:18 final size:16
Alignment explanation
Indices: 26505--26535 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26495 AATATCGAAA
26505 CTTGAACTCAAAAAAG
1 CTTGAACTCAAAAAAG
26521 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
26536 AAATTAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:27856 original size:25 final size:29
Alignment explanation
Indices: 27828--27879 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 29
27818 TTGATAAATA
27828 TTAATTA-AA-TTAAT-TTTT-TTATTTT
1 TTAATTACAATTTAATATTTTGTTATTTT
27853 TTAATTACAATTTAATATTTTGTTATT
1 TTAATTACAATTTAATATTTTGTTATT
27880 AAATCAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
26 2 0.09
27 5 0.22
28 4 0.17
29 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TTAATTACAATTTAATATTTTGTTATTTT
Found at i:28877 original size:18 final size:18
Alignment explanation
Indices: 28854--28901 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
28844 ATTTGTGTTT
28854 TATTTTTTAAAATATATA
1 TATTTTTTAAAATATATA
* *
28872 TA-TTTTT-AATTTTATA
1 TATTTTTTAAAATATATA
28888 TAATTTTTTAAAAT
1 T-ATTTTTTAAAAT
28902 TATCAAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 7 0.29
19 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTTTAAAATATATA
Found at i:28904 original size:18 final size:17
Alignment explanation
Indices: 28854--28904 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
28844 ATTTGTGTTT
28854 TATTTTTTAAAA-TATA
1 TATTTTTTAAAATTATA
**
28870 TATATTTTTAATTTTATA
1 TAT-TTTTTAAAATTATA
28888 TAATTTTTTAAAATTAT
1 T-ATTTTTTAAAATTAT
28905 CAAATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.11
17 7 0.25
18 16 0.57
19 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTTTTAAAATTATA
Found at i:28910 original size:18 final size:17
Alignment explanation
Indices: 28855--28910 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
28845 TTTGTGTTTT
*
28855 ATTTTTTAAAA-TATAT
1 ATTTTTTAAAATTATAA
**
28871 ATATTTTTAATTTTATATA
1 AT-TTTTTAAAATTATA-A
28890 ATTTTTTAAAATTATCAA
1 ATTTTTTAAAATTAT-AA
28908 ATT
1 ATT
28911 GTGACATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
18 19 0.61
19 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTTAAAATTATAA
Found at i:29122 original size:14 final size:13
Alignment explanation
Indices: 29097--29161 Score: 76
Period size: 14 Copynumber: 4.7 Consensus size: 13
29087 TTAAATATCA
29097 AATAATTAATTTT
1 AATAATTAATTTT
29110 AATAATCTAATTTT
1 AATAAT-TAATTTT
*
29124 AAAAATTAATAGTTT
1 AATAATTAAT--TTT
29139 AATAATTTAATTTT
1 AATAA-TTAATTTT
*
29153 AAAAATTAA
1 AATAATTAA
29162 AATATATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
13 14 0.31
14 19 0.42
15 7 0.16
16 5 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
AATAATTAATTTT
Found at i:29142 original size:29 final size:27
Alignment explanation
Indices: 29100--29161 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 27
29090 AATATCAAAT
29100 AATTAATTTTAATAATCTAATTTTAAA
1 AATTAATTTTAATAATCTAATTTTAAA
*
29127 AATTAATAGTTTAATAATTTAATTTTAAA
1 AATTAAT--TTTAATAATCTAATTTTAAA
29156 AATTAA
1 AATTAA
29162 AATATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 7 0.22
29 25 0.78
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTAATTTTAATAATCTAATTTTAAA
Found at i:29175 original size:29 final size:28
Alignment explanation
Indices: 29109--29193 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
29099 TAATTAATTT
* * *
29109 TAATAATCTAATTTTAAAAATTAATAGTT
1 TAATAATTTAATTTTAAAAATTAA-AATA
29138 TAATAATTTAATTTTAAAAATTAAAATA
1 TAATAATTTAATTTTAAAAATTAAAATA
* *
29166 TATTATATTTAAATTTTTATAAATTAAA
1 TAATA-ATTT-AA-TTTTAAAAATTAAA
29194 CATTATATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 6 0.12
29 27 0.56
30 2 0.04
31 13 0.27
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
TAATAATTTAATTTTAAAAATTAAAATA
Found at i:36802 original size:27 final size:27
Alignment explanation
Indices: 36772--36972 Score: 231
Period size: 27 Copynumber: 7.4 Consensus size: 27
36762 AAGCCAACAT
* * *
36772 AGGCATGCAGATCCCAGGGACCAACAG
1 AGGCATGCTGATCCTAGGGACCTACAG
* * * * *
36799 AGGCACGCAGATTCAAGGGACCTACAC
1 AGGCATGCTGATCCTAGGGACCTACAG
* * * * *
36826 AGACACGCTGATCCAAGGGATCTACAC
1 AGGCATGCTGATCCTAGGGACCTACAG
** * *
36853 AGAAACGCTGATCCTAGGGACCTACGG
1 AGGCATGCTGATCCTAGGGACCTACAG
*
36880 AGGCATGCTGATCCTAGGGACCTACGG
1 AGGCATGCTGATCCTAGGGACCTACAG
*
36907 AGGCATGCTGATCCTAGGGACCTACGG
1 AGGCATGCTGATCCTAGGGACCTACAG
36934 AGGCATGCTGATCCTAGGGACCTACAG
1 AGGCATGCTGATCCTAGGGACCTACAG
36961 AGGCATGCTGAT
1 AGGCATGCTGAT
36973 ACAAGAGGCC
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.15
Consensus pattern (27 bp):
AGGCATGCTGATCCTAGGGACCTACAG
Found at i:37654 original size:26 final size:26
Alignment explanation
Indices: 37605--37655 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
37595 GTTTTTAATC
* ***
37605 ATGTCATTTAATTATTTTTTTGATAA
1 ATGTCATTTAATTAATTAAATGATAA
37631 ATGTCATTTAATTAATTAAATGATA
1 ATGTCATTTAATTAATTAAATGATA
37656 TACTTATATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (26 bp):
ATGTCATTTAATTAATTAAATGATAA
Found at i:37718 original size:21 final size:21
Alignment explanation
Indices: 37685--37726 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37675 TACCGTTAAC
37685 TTTTAATGAGAATGA-TGATGT
1 TTTTAATGAGAAT-ATTGATGT
37706 TTTTAAT-AGGAATATTGATGT
1 TTTTAATGA-GAATATTGATGT
37727 GGTAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (21 bp):
TTTTAATGAGAATATTGATGT
Found at i:40343 original size:29 final size:29
Alignment explanation
Indices: 40308--40389 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
40298 AAACTAAATT
*
40308 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
40337 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
40366 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
40390 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:45110 original size:29 final size:29
Alignment explanation
Indices: 45075--45156 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
45065 AAACTAAATT
*
45075 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
45104 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
45133 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
45157 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:45973 original size:22 final size:22
Alignment explanation
Indices: 45919--45975 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 22
45909 GTAACGCGAT
*
45919 TTTGAAAAATGTGTTGCGATAG
1 TTTGAAAAATGTGTTGCGAGAG
45941 -TT--AAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGAGAG
*
45960 TTTGAAAAACGTGTTG
1 TTTGAAAAATGTGTTG
45976 TTGCGATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
21 2 0.07
22 10 0.33
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (22 bp):
TTTGAAAAATGTGTTGCGAGAG
Found at i:45990 original size:22 final size:19
Alignment explanation
Indices: 45924--45990 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 19
45914 GCGATTTTGA
*
45924 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
*
45943 AAAATGTGTTGCGAGAGTTTG
1 AAAATGTGTTGCGATAG--TG
45964 AAAAACGTGTTGTTGCGATAGTG
1 -AAAA--TG-TGTTGCGATAGTG
45987 AAAA
1 AAAA
45991 ATCCAAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 16 0.41
21 1 0.03
22 8 0.21
23 2 0.05
24 2 0.05
25 10 0.26
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:46440 original size:21 final size:21
Alignment explanation
Indices: 46416--46460 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
46406 CTAACGCAAA
46416 TTTGGAAAATCGCATTGCGAT
1 TTTGGAAAATCGCATTGCGAT
* **
46437 TTTGTATTATCGCATTGCGAT
1 TTTGGAAAATCGCATTGCGAT
46458 TTT
1 TTT
46461 AATGCGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTGGAAAATCGCATTGCGAT
Found at i:46510 original size:52 final size:52
Alignment explanation
Indices: 46445--46623 Score: 223
Period size: 52 Copynumber: 3.3 Consensus size: 52
46435 ATTTTGTATT
*
46445 ATCGCATTGCGATTTTAATGCGATTTTGTATTATCGCATTGCGATAGTCAGA
1 ATCGCGTTGCGATTTTAATGCGATTTTGTATTATCGCATTGCGATAGTCAGA
46497 ATCGCGTTGCGATTTTAATGCGATTTTGTATTATCGCATTGCGATAGTCAGA
1 ATCGCGTTGCGATTTTAATGCGATTTTGTATTATCGCATTGCGATAGTCAGA
*** * *
46549 ATCGCGTTGCGAGAGTCAGAATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGC--GA-TTTTAA------TGCGATTTTGTATTATCGCATTGCGATAGTCAGA
46610 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
46624 ATGTATTATC
Statistics
Matches: 111, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
52 61 0.55
54 2 0.02
55 3 0.03
58 1 0.01
59 2 0.02
61 42 0.38
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (52 bp):
ATCGCGTTGCGATTTTAATGCGATTTTGTATTATCGCATTGCGATAGTCAGA
Found at i:46558 original size:20 final size:20
Alignment explanation
Indices: 46529--46803 Score: 247
Period size: 20 Copynumber: 13.6 Consensus size: 20
46519 ATTTTGTATT
*
46529 ATCGCATTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
*
46549 ATCGCGTTGCGAGAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
**
46569 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
46590 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
**
46610 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
46631 ATCGCGTTGCGATAATCAGA
1 ATCGCGTTGCGATAGTCAGA
*
46651 ATCGCGTTGCGATAATCAGA
1 ATCGCGTTGCGATAGTCAGA
**
46671 ATCGCGTTGCGATTATGT-ATT
1 ATCGCGTTGCGA-TA-GTCAGA
*
46692 ATCGCGTTGCGATAGTCATA
1 ATCGCGTTGCGATAGTCAGA
* * *
46712 ATTGTGTTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAGA
*
46732 ATCGCGTTGCGA-A-TCTGGA
1 ATCGCGTTGCGATAGTC-AGA
* ** * *
46751 AACTGATTTGCGATACT-GGA
1 ATC-GCGTTGCGATAGTCAGA
46771 GATCGCGTTGCGATAGTCAGA
1 -ATCGCGTTGCGATAGTCAGA
46792 ATCGCGTTGCGA
1 ATCGCGTTGCGA
46804 ATCTGGAAAC
Statistics
Matches: 209, Mismatches: 31, Indels: 30
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.01
19 9 0.04
20 143 0.68
21 49 0.23
22 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:46594 original size:41 final size:41
Alignment explanation
Indices: 46549--46743 Score: 227
Period size: 41 Copynumber: 4.8 Consensus size: 41
46539 GATAGTCAGA
*
46549 ATCGCGTTGCGAGAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
46590 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* * * **
46631 ATCGCGTTGCGATAATCAGAATCGCGTTGCGATAAT-CAGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
** *
46671 ATCGCGTTGCGATTATGT-ATTATCGCGTTGCGA-TA-GTCATA
1 ATCGCGTTGCGA-TA-GTCAGAATCGCGTTGCGATTATGT-ATT
* * *
46712 ATTGTGTTGCGATAGTCAAAATCGCGTTGCGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGA
46744 ATCTGGAAAC
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 29 0.22
41 101 0.76
42 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
Found at i:46610 original size:61 final size:62
Alignment explanation
Indices: 46515--46803 Score: 272
Period size: 61 Copynumber: 4.7 Consensus size: 62
46505 GCGATTTTAA
* * * *
46515 TGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCGA-GA-GTCAGAATCGCGT
1 TGCGATTATGTATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGT-AGAATCGCGT
* **
46576 TGCGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGCGT
1 TGCGATTATGTATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
* * * * **
46638 TGCGATAAT-CAGAATCGCGTTGCGATAATCAGAATCGCGTTGCGATTATGTATTATCGCGT
1 TGCGATTATGTATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
* * * * * * **
46699 TGCGA-TA-GTCATAATTGTGTTGCGATAGTCAAAATCGCGTTGCGA--ATCTGGAAACTGATT
1 TGCGATTATGT-ATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATC-GCGT
* *
46759 TGCGA-TACTGGA-GATCGCGTTGCGATAGTCAGAATCGCGTTGCGA
1 TGCGATTA-TGTATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGA
46804 ATCTGGAAAC
Statistics
Matches: 192, Mismatches: 29, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
59 5 0.03
60 39 0.20
61 128 0.67
62 18 0.09
63 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (62 bp):
TGCGATTATGTATAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTAGAATCGCGT
Found at i:46630 original size:102 final size:102
Alignment explanation
Indices: 46515--46724 Score: 348
Period size: 102 Copynumber: 2.1 Consensus size: 102
46505 GCGATTTTAA
* * *
46515 TGCGATTTTGTATTATCGCATTGCGATAGTCAGAATCGCGTTGCGAGAGTCAGAATCGCGTTGCG
1 TGCGATTATGTATTATCGCATTGCGATAATCAGAATCGCGTTGCGAGAATCAGAATCGCGTTGCG
46580 ATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGT
66 ATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGT
* *
46617 TGCGATTATGTATTATCGCGTTGCGATAATCAGAATCGCGTTGCGATAATCAGAATCGCGTTGCG
1 TGCGATTATGTATTATCGCATTGCGATAATCAGAATCGCGTTGCGAGAATCAGAATCGCGTTGCG
* * *
46682 ATTATGTATTATCGCGTTGCGATAGTCATAATTGTGT
66 ATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGT
46719 TGCGAT
1 TGCGAT
46725 AGTCAAAATC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (102 bp):
TGCGATTATGTATTATCGCATTGCGATAATCAGAATCGCGTTGCGAGAATCAGAATCGCGTTGCG
ATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGT
Found at i:46786 original size:60 final size:60
Alignment explanation
Indices: 46717--46844 Score: 247
Period size: 60 Copynumber: 2.1 Consensus size: 60
46707 TCATAATTGT
46717 GTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGC
1 GTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGC
*
46777 GTTGCGATAGTCAGAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGC
1 GTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGC
46837 GTTGCGAT
1 GTTGCGAT
46845 TTAGAGATCG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 67 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (60 bp):
GTTGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGC
Found at i:46841 original size:20 final size:20
Alignment explanation
Indices: 46758--46863 Score: 85
Period size: 20 Copynumber: 5.3 Consensus size: 20
46748 GGAAACTGAT
46758 TTGCGATACTGGAGATCGCG
1 TTGCGATACTGGAGATCGCG
* *
46778 TTGCGATAGT-CAGAATCGCG
1 TTGCGATACTGGAG-ATCGCG
* **
46798 TTGCGA-ATCTGGA-AACTGAT
1 TTGCGATA-CTGGAGATC-GCG
46818 TTGCGATACTGGAGATCGCG
1 TTGCGATACTGGAGATCGCG
* * *
46838 TTGCGAT-TTAGAGATCGCA
1 TTGCGATACTGGAGATCGCG
46857 TTGCGAT
1 TTGCGAT
46864 TTTATTGGTC
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
19 21 0.31
20 42 0.63
21 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATACTGGAGATCGCG
Found at i:46853 original size:19 final size:19
Alignment explanation
Indices: 46829--46865 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46819 TGCGATACTG
*
46829 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
46848 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
46866 TATTGGTCAT
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:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:56217 original size:30 final size:30
Alignment explanation
Indices: 56146--56228 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
56136 CCCGAAGGAC
* *
56146 CTATCCAGAGGTCACAAAG-ACCCCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
*
56175 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* * *
56205 CTGTCCATAGGTCCCAAAGAACCT
1 CTATCCAGAGGTCACAAAGAACCT
56229 AGGTAAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 18 0.39
30 28 0.61
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:56244 original size:31 final size:31
Alignment explanation
Indices: 56206--56298 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
56196 CCTCGGCAAC
* *
56206 TGTCCATAGGTCCCAAAGAACCTAGGTAAAA
1 TGTCCATATGTCCCAAAGAACATAGGTAAAA
* ** * *
56237 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCAAAGAACATAGGTAAAA
*
56268 TGTCCATATGTCTCGAAAG-ACATAGGTAAAA
1 TGTCCATATGTC-CCAAAGAACATAGGTAAAA
56299 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
31 45 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (31 bp):
TGTCCATATGTCCCAAAGAACATAGGTAAAA
Found at i:56958 original size:2 final size:2
Alignment explanation
Indices: 56951--56983 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
56941 TACAAATTCC
56951 TA TA 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 TA TA T
56984 CTAACTCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57607 original size:64 final size:63
Alignment explanation
Indices: 57494--57634 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 63
57484 GCACTACACC
* * * *
57494 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGGATGCATCGATGCACTCCTT
1 ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGAATGCATCAATGCACTCCAT
* * * * *
57558 ATGCATCGATGTATAAATCCTATTCGATGTTTTCTTTTTAAAT-TAATGCATTAATGCACTGCAT
1 ATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGAATGCATCAATGCACTCCAT
*
57622 GTGCATCGATGCA
1 ATGCATCGATGCA
57635 CCTTAAACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
64 54 0.84
65 7 0.11
66 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (63 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGAATGCATCAATGCACTCCAT
Found at i:58540 original size:2 final size:2
Alignment explanation
Indices: 58533--58569 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58523 CTTTTTCCTT
58533 TA TA TA TA 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 TA TA TA TA T
58570 TCATAGCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58654 original size:20 final size:19
Alignment explanation
Indices: 58615--58656 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
58605 GTAACTTCAA
*
58615 TCCATTTTCATTTCTTTAT
1 TCCATTTTCATTTATTTAT
*
58634 TCCATTCTTCCTTTATTTAT
1 TCCATT-TTCATTTATTTAT
58654 TCC
1 TCC
58657 TTATACACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (19 bp):
TCCATTTTCATTTATTTAT
Found at i:60755 original size:31 final size:31
Alignment explanation
Indices: 60717--60811 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
60707 GAACCTCGAC
* *
60717 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
60748 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* *
60779 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
60810 AA
1 AA
60812 ACCCTCGACT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 49 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:62078 original size:63 final size:62
Alignment explanation
Indices: 61942--62105 Score: 193
Period size: 63 Copynumber: 2.6 Consensus size: 62
61932 TCTTTTAATG
* * *
61942 AAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTA
1 AAGGAATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTA
** * *
62006 TGGGGATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTCTTTTTA
1 AAGGAATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTA
** * *
62069 AATTAATGCATCGATGCACTGCATGTGCATCGATGCA
1 AAGGAATGCATCGATGCACT-CCTATGCATCGATGCA
62106 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
62 1 0.01
63 66 0.78
64 18 0.21
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (62 bp):
AAGGAATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTA
Found at i:63050 original size:21 final size:21
Alignment explanation
Indices: 63002--63061 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
62992 CGAGGGTTAT
* * *
63002 ATGAGGTCTTTCGGAACATAT
1 ATGAGGTCCTTCGGGACATAC
**
63023 ACAAGGTCCTTCGGGACATAC
1 ATGAGGTCCTTCGGGACATAC
*
63044 ATGAGGTCCTTCAGGACA
1 ATGAGGTCCTTCGGGACA
63062 AATTTATAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGAGGTCCTTCGGGACATAC
Found at i:63643 original size:30 final size:30
Alignment explanation
Indices: 63609--63686 Score: 120
Period size: 31 Copynumber: 2.6 Consensus size: 30
63599 ACCAACATCA
* *
63609 AAATTTCATATAATTGTTTTTTTAAAACAT
1 AAATTTCAGATAATTCTTTTTTTAAAACAT
*
63639 AAATTTGAAGATAATTCTTTTTTTAAAACAT
1 AAATTT-CAGATAATTCTTTTTTTAAAACAT
63670 AAATTTCAGATAATTCT
1 AAATTTCAGATAATTCT
63687 AAAATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 16 0.37
31 27 0.63
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (30 bp):
AAATTTCAGATAATTCTTTTTTTAAAACAT
Found at i:72073 original size:23 final size:23
Alignment explanation
Indices: 72024--72086 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
72014 GTTTTATATT
* **
72024 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
72047 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
72070 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
72087 ATAAATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:72128 original size:28 final size:28
Alignment explanation
Indices: 72083--72137 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
72073 TTATTTAAAT
72083 ATATATAAATAATATTATTCAT-TATTAA
1 ATATATAAATAATATTATT-ATATATTAA
* *
72111 ATATATAAATATTTTTATTATATATTA
1 ATATATAAATAATATTATTATATATTA
72138 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
ATATATAAATAATATTATTATATATTAA
Found at i:72130 original size:31 final size:30
Alignment explanation
Indices: 72095--72249 Score: 95
Period size: 29 Copynumber: 5.0 Consensus size: 30
72085 ATATAAATAA
*
72095 TATTAT-TCATTATTAAATATATAAATATTTT
1 TATTATAT-ATTATTAAA-ATAAAAATATTTT
**
72126 TATTATATATTATTAAAATAAAAATA-TAA
1 TATTATATATTATTAAAATAAAAATATTTT
* * * *
72155 TATCT-TATATTATTATAATATAATTGATTAT
1 TAT-TATATATTATTAAAATAAAAAT-ATTTT
* *
72186 T-TTATATAATATTAAAA-ATATAATATTATAT
1 TATTATATATTATTAAAATA-AAAATATT-T-T
*
72217 TATTATAAATATTAATAAAATAAATAATATTTT
1 TATTAT--ATATTATTAAAATAAA-AATATTTT
72250 GATGAAAATG
Statistics
Matches: 95, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
29 26 0.27
30 24 0.25
31 20 0.21
32 5 0.05
33 1 0.01
34 12 0.13
35 7 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TATTATATATTATTAAAATAAAAATATTTT
Found at i:72144 original size:24 final size:24
Alignment explanation
Indices: 72063--72145 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
72053 TAAATATCTT
*
72063 TATTAAAATATTATTTA-AATATA
1 TATTAAAATATTATTTATTATATA
* *
72086 TATAAATAATATTATTCATTAT-TA
1 TATTAA-AATATTATTTATTATATA
*
72110 AATATATAAATATT-TTTATTATATA
1 TAT-TA-AAATATTATTTATTATATA
72135 TTATTAAAATA
1 -TATTAAAATA
72146 AAAATATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
23 5 0.11
24 26 0.55
25 13 0.28
26 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTAAAATATTATTTATTATATA
Found at i:72215 original size:22 final size:23
Alignment explanation
Indices: 72190--72233 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
72180 GATTATTTTA
72190 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
72212 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
72234 AAATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:74126 original size:28 final size:29
Alignment explanation
Indices: 74090--74166 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
74080 TTTCTTCTCA
* *
74090 TTTCTATTTTGATTACTAAACTTTAGAAT
1 TTTCTATTTTAATCACTAAACTTTAGAAT
* *
74119 TTTC-ATTTTAATCACTGAACTTTTGAATTAT
1 TTTCTATTTTAATCACTAAACTTTAG-A--AT
*
74150 TTTTTATTTTAATCACT
1 TTTCTATTTTAATCACT
74167 TGACTGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.44
29 5 0.13
31 5 0.13
32 12 0.31
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (29 bp):
TTTCTATTTTAATCACTAAACTTTAGAAT
Found at i:81498 original size:19 final size:20
Alignment explanation
Indices: 81454--81498 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
81444 TTTTTTTCAT
*
81454 ATTAT-AATATTATTTAATA
1 ATTATAAATATAATTTAATA
*
81473 AAT-TAAATATAATTTAA-A
1 ATTATAAATATAATTTAATA
81491 ATTATAAA
1 ATTATAAA
81499 ATATGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTATAAATATAATTTAATA
Found at i:86797 original size:42 final size:42
Alignment explanation
Indices: 86728--86822 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
86718 TATAATATTA
* * *
86728 AAATACATTA-TTTAATTATTAAAAATATAA-AAATTACTAT
1 AAATATATTATTTTAATCATTAAAAATATAATAAATAACTAT
* * *
86768 AAAATATGTTATTTTAATCATTTAAAATATAATAAATAATTAT
1 -AAATATATTATTTTAATCATTAAAAATATAATAAATAACTAT
86811 AAATATATTATT
1 AAATATATTATT
86823 ATAAAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 8 0.18
42 29 0.64
43 8 0.18
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (42 bp):
AAATATATTATTTTAATCATTAAAAATATAATAAATAACTAT
Found at i:88480 original size:23 final size:23
Alignment explanation
Indices: 88450--88501 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
88440 ACTAACATAT
** **
88450 TAGGTAGCTCTTATATAATGTAA
1 TAGGTAGCGATTATATAATAAAA
88473 TAGGTAGCGATTATATAATAAAA
1 TAGGTAGCGATTATATAATAAAA
88496 TAGGTA
1 TAGGTA
88502 TTTAACTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGATTATATAATAAAA
Found at i:88991 original size:199 final size:196
Alignment explanation
Indices: 88593--89293 Score: 844
Period size: 199 Copynumber: 3.5 Consensus size: 196
88583 TTTTATAAGT
* * * * *
88593 AAACCGGTATATTTATAACCGTAACATTGTAAATTTACTTATTACATTATAATTATCGGTTTCAA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * * *
88658 TATTTTTTGGATCGATACAATTT--TAAATGTATCTACACTTTATGCGTGCA-CCTTGTTGGACA
66 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCCGT-TTGG-CA
88720 TTCATTCTGGA-AACAAGTATCGACACAAACTTAAAGAGTGTCGATACATTAT-TTAGACCTATT
128 TTCATTCTGGACAACAAGTATCGACACAAA-TTAAA-AGTGTCGATACATTATGTT-GA-CTATT
*
88783 TTTTCATA
189 TTCTCATA
* * * * *
88791 AAACCGGTATATTTCTATCGGATACATTGTCAATTTACCTATCACATTGTAATTATCGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
88856 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTC
66 TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTC
* * *
88921 ATTATGGACAA-AATGTATCGACACAAATTTAATAAGTGTCGATACTTTATGATGATCTATTTTC
131 ATTCTGGACAACAA-GTATCGACACAAA-TTAA-AAGTGTCGATACATTATGTTGA-CTATTTTC
88985 TCATA
192 TCATA
* *
88990 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACATATTACTTTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * ** *
89055 T-TTTATTGAGAACGATACTTTTAATAATTGTAGGGACACTTTATGTGTGCACCTCGTTTGGGCA
66 TGTTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC-CGTTT-GGCA
* * * *
89119 TTCATTCTGGACAATAAGGATTGACACAAATTACACAAGTGTCGATACATTATGTTGACATGTTT
128 TTCATTCTGGACAACAAGTATCGACACAAATTA-A-AAGTGTCGATACATTATGTTGAC-TATTT
*
89184 TCTAAT-
190 TCTCATA
* * *
89190 TAACCGGTATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
89255 TGTTTTTTGGG-TCGATACTTTTAGTAAAAGTATCGACAC
66 TG-TTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
89294 ATATTTAGGT
Statistics
Matches: 434, Mismatches: 54, Indels: 28
0.84 0.10 0.05
Matches are distributed among these distances:
197 3 0.01
198 88 0.20
199 179 0.41
200 97 0.22
201 62 0.14
202 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (196 bp):
AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCCGTTTGGCATTC
ATTCTGGACAACAAGTATCGACACAAATTAAAAGTGTCGATACATTATGTTGACTATTTTCTCAT
A
Found at i:93543 original size:13 final size:13
Alignment explanation
Indices: 93525--93585 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
93515 GTCACAACTC
93525 GACCCGACCCGTT
1 GACCCGACCCGTT
93538 GACCCGAACCGACCCGTT
1 GA-CC---C-GACCCGTT
*
93556 TACCCGACCCGTT
1 GACCCGACCCGTT
93569 GACCCGACCCGTT
1 GACCCGACCCGTT
93582 GACC
1 GACC
93586 GTTGAACCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 26 0.63
14 3 0.07
17 3 0.07
18 9 0.22
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:93572 original size:8 final size:8
Alignment explanation
Indices: 93561--93607 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
93551 CCGTTTACCC
93561 GACCCGTT
1 GACCCGTT
93569 GACCC---
1 GACCCGTT
93574 GACCCGTT
1 GACCCGTT
93582 GA-CCGTT
1 GACCCGTT
*
93589 GAACCGTT
1 GACCCGTT
93597 GA-CCGTT
1 GACCCGTT
93604 GACC
1 GACC
93608 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.17, C:0.36, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:93579 original size:18 final size:18
Alignment explanation
Indices: 93524--93566 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
93514 GGTCACAACT
93524 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
* *
93542 CGAACCGACCCGTTTACC
1 CGACCCGACCCGTTGACC
93560 CGACCCG
1 CGACCCG
93567 TTGACCCGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.49, G:0.21, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:93589 original size:7 final size:7
Alignment explanation
Indices: 93577--93608 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
93567 TTGACCCGAC
93577 CCGTTGA
1 CCGTTGA
93584 CCGTTGAA
1 CCGTTG-A
93592 CCGTTGA
1 CCGTTGA
93599 CCGTTGA
1 CCGTTGA
93606 CCG
1 CCG
93609 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:93597 original size:15 final size:15
Alignment explanation
Indices: 93577--93605 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93567 TTGACCCGAC
93577 CCGTTGACCGTTGAA
1 CCGTTGACCGTTGAA
93592 CCGTTGACCGTTGA
1 CCGTTGACCGTTGA
93606 CCGGAGTTGA
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:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (15 bp):
CCGTTGACCGTTGAA
Found at i:96084 original size:24 final size:24
Alignment explanation
Indices: 96057--96171 Score: 144
Period size: 24 Copynumber: 4.8 Consensus size: 24
96047 TCGATTTGAT
96057 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
96081 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
* *
96105 TTCTAATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
96129 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
* *
96152 TTTCTGATATGAAACTTGAC
1 -TTCTGATCTGATACTTGAC
96172 CTGATTTATG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.04
24 76 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:98370 original size:13 final size:13
Alignment explanation
Indices: 98370--98427 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
98360 CCGTTGACCC
98370 GACCCGACCCGTT
1 GACCCGACCCGTT
*
98383 TACCCGACCCGTT
1 GACCCGACCCGTT
98396 GACCCGACCCGTT
1 GACCCGACCCGTT
*
98409 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
98424 GACC
1 GACC
98428 GTTGACCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:98399 original size:8 final size:8
Alignment explanation
Indices: 98388--98434 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
98378 CCGTTTACCC
98388 GACCCGTT
1 GACCCGTT
98396 GACCC---
1 GACCCGTT
98401 GACCCGTT
1 GACCCGTT
98409 GA-CCGTT
1 GACCCGTT
98416 GACCCGTT
1 GACCCGTT
98424 GA-CCGTT
1 GACCCGTT
98431 GACC
1 GACC
98435 AGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:98406 original size:18 final size:18
Alignment explanation
Indices: 98351--98393 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
98341 GGTCACAACT
98351 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
98369 CGACCCGACCCGTTTACC
1 CGACCCGACCCGTTGACC
98387 CGACCCG
1 CGACCCG
98394 TTGACCCGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.51, G:0.21, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:98416 original size:7 final size:7
Alignment explanation
Indices: 98404--98434 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
98394 TTGACCCGAC
98404 CCGTTGA
1 CCGTTGA
98411 CCGTTGA
1 CCGTTGA
98418 CCCGTTGA
1 -CCGTTGA
98426 CCGTTGA
1 CCGTTGA
98433 CC
1 CC
98435 AGAGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:98421 original size:15 final size:15
Alignment explanation
Indices: 98388--98434 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
98378 CCGTTTACCC
*
98388 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
98401 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
98416 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
98431 GACC
1 GACC
98435 AGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:103909 original size:201 final size:200
Alignment explanation
Indices: 103564--104755 Score: 1171
Period size: 201 Copynumber: 5.8 Consensus size: 200
103554 CGTTATTTAT
* * *
103564 AAGTATCGACACAAATCT-AAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAATCGG
1 AAGTATCGACACAAATCTCAAAA-GTGTCGATACATTATGTTGACCTATTTTCACATAAAACCGG
* *
103628 TACATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * *
103693 GAGATCGATACTTTTTAAAAAATGTATCGACACTTTATGCATGCAACCATTTT-GACATTCATTT
130 GGGATCGATACTTTTT-AAAAATGTATCGACACTTTATGCGTGC-ACCATTTTGGGCATTCATTC
103757 TGGACAAA
193 TGGACAAA
* * *
103765 AAGTATCGACACAAATCT-AAAATGTGTCGATACATTATGTTCACCTATTTTAACATAAAACCAG
1 AAGTATCGACACAAATCTCAAAA-GTGTCGATACATTATGTTGACCTATTTTCACATAAAACCGG
103829 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * * *
103894 AGGATCGATACTTTTTATAAATGTATCGACATTTTATTCGTTCACCCTTTTGGGCATTCATTCTG
130 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTG
103959 GACAAA
195 GACAAA
* * * * * * *
103965 ACGTATCGACACATCA-CTCAAAAGTGTCGACACATTATGTAGACCTATTCTGACATAAAACTGG
1 AAGTATCGACACA-AATCTCAAAAGTGTCGATACATTATGTTGACCTATTTTCACATAAAACCGG
* * * ** * * * **
104029 TATATATATACCGATTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTAA
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * * * *
104094 GGGATCGATACTGTTTAAAAATATATCGACACTTTATGGGTGCACCATTTT-TGTATTTTCCTTA
130 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCA--TTCATTC
104158 TGGACCAAA
193 TGGA-CAAA
* * * * ** * * *
104167 AA-TATCAACACAAATTTCACAAGTGTCGATACATTAT-TTATATTTATTTTCTCAAAAAAACTG
1 AAGTATCGACACAAATCTCAAAAGTGTCGATACATTATGTT-GACCTATTTTCAC-ATAAAACCG
* *
104230 ATTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
104295 TGGGATCGATACTTTTTATAAATGTATCGACACTTTAAGCGTTCACCCTTTTGGGCATTCATTCG
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCT
104360 GGACAAA
194 GGACAAA
* *
104367 AAGTATCGACACAACAT-TCAAAAGTGTCAACACAACATTCAAAAGTGTCGACATATTATGTAGA
1 AAGTATCGACACAA-ATCTCAAAAGTGTC--GA-TACATT----A---T-G--------T-T-GA
* * * * ** *
104431 CCTATTTTCACATAAAACCGATATCTTTATACCGATTATATTACAAAATTACCTATTACATTATA
44 CCTATTTTCACATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATA
* * * * * * *
104496 ATTATGGGTTTCGATATTTTTGGGATCGATACTTTTTAAAAAAGTATTGATACTTTATGGGTGTA
109 ATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCA
* *
104561 CCCTTTTTGGGCATTCCTTCTGGACAAA
174 -CCATTTTGGGCATTCATTCTGGACAAA
* * * * * * *
104589 CAA-TATCGACACAAAT-TCCAGAAGTGCCGATACATTATGTAGACATATTCTCTCATTAAACCG
1 -AAGTATCGACACAAATCT-CAAAAGTGTCGATACATTATGTTGACCTATTTTCACATAAAACCG
* * * * * * *
104652 GTTTAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTATAGATTTCGATGTTTC
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
104717 TGGGATCGATGCTTTTTAAAACTGTATCGACACTTTATG
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
104756 GGAAACTTTA
Statistics
Matches: 809, Mismatches: 146, Indels: 72
0.79 0.14 0.07
Matches are distributed among these distances:
199 9 0.01
200 192 0.24
201 315 0.39
202 113 0.14
203 4 0.00
204 5 0.01
208 1 0.00
211 2 0.00
212 1 0.00
215 1 0.00
219 5 0.01
220 1 0.00
221 104 0.13
222 54 0.07
223 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (200 bp):
AAGTATCGACACAAATCTCAAAAGTGTCGATACATTATGTTGACCTATTTTCACATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGG
ACAAA
Found at i:104390 original size:21 final size:21
Alignment explanation
Indices: 104365--104419 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
104355 ATTCGGGACA
*
104365 AAAAGTATCGACACAACATTC
1 AAAAGTGTCGACACAACATTC
*
104386 AAAAGTGTCAACACAACATTC
1 AAAAGTGTCGACACAACATTC
104407 AAAAGTGTCGACA
1 AAAAGTGTCGACA
104420 TATTATGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.18
Consensus pattern (21 bp):
AAAAGTGTCGACACAACATTC
Found at i:104776 original size:15 final size:15
Alignment explanation
Indices: 104756--104794 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
104746 ACACTTTATG
*
104756 GGAAACTTTAAGTTT
1 GGAAACTTTAAGTAT
*
104771 GGAAACTTTATGTAT
1 GGAAACTTTAAGTAT
*
104786 GAAAACTTT
1 GGAAACTTT
104795 GTTGTGGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (15 bp):
GGAAACTTTAAGTAT
Found at i:108142 original size:200 final size:200
Alignment explanation
Indices: 107806--109542 Score: 2028
Period size: 200 Copynumber: 8.7 Consensus size: 200
107796 TTAACAATTA
* * * * *
107806 TCGATACTTTATG-ATGACCTATTTTCTCATAAAATCGGTATATTTATACCGATTACATT-AAAA
1 TCGATACATTATGTA-GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAA
* * * *
107869 ATTTACCTATTACATTATAATTATCGATTTCGATGTTTTTGAGATCGACACTTTTTA-AAATTGT
65 A-TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAA-TGT
* *
107933 ATTGACACTTTATGCGTGCAACCCTTTT-GACATTCATTCTGGACAAAAAGTATCGACACAAATT
128 ATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
*
107997 ACACAAGTG
192 ACAAAAGTG
* * * *
108006 TCGATACATGT-TGTAGACATATTCTCTCATAAAATCGGTATAGTTATACCAGTTACATTGTAAA
1 TCGATACAT-TATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAA
* * * ** *
108070 TTTTCCTATTACATTATATTTATGGGTTTCGATGTTTCTGATATCGACACTTTTTATAAATATAT
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTAT
* * * * * *
108135 CGACACTTTATGCGTTCATCATTTTGGGCATTCATTCTGGATAAAAAGTATCGACACAAAATAAA
130 CGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTACA
108200 AAAGTG
195 AAAGTG
* * * * * **
108206 TTGATACATTATGTAGACTTATTCTCACATAAAACCAGTATATTTATACCGGTTATATTACAAAA
1 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAA
* *
108271 TTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTATC
* * * * * *
108336 GACACTTAATG-GTGCACCCTTTTTGGTCATTCCTTCTTGACCAAAAGTATCGACACAAATTAGA
131 GACACTTTATGCGTGCACCC-TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTACA
*
108400 CAAGTG
195 AAAGTG
* *
108406 TCGATACA-TACTGTAGACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAA
1 TCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAA
* *
108470 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATCTA
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTT-TTTATAAATGTA
* * * *
108535 TTGATACTTGT-TGCGTGCACCCTTTTTGGGCATTCCTTCTGGACAAACAGTATCGACACAAATT
129 TCGACACTT-TATGCGTGCACCC-TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
**
108599 -CTGGAAGTG
192 AC-AAAAGTG
* * * * * * * *
108608 TCGATACATTATGTAGACCAATTCTTTCATAAAACCAGTTTAGTTATACTGGTTATATTGTAAAT
1 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAA
* * * * * * **
108673 TTACCTATTATATTTTATTTATGAGTTTCGATGTTCCTGGGATTGACACTTTCAATAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTATC
* * * * * *
108738 GACACTTTATGTGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAA
131 GACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTACAA
108803 AAGTG
196 AAGTG
* * * * * * * **
108808 ACGATACATTATGTAGACCTATTATCACTTAAAACTGGTATATTTATACCTGTTATATTACAAAA
1 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAA
* * * *
108873 TTACCTATTTCATTATAATTATCGGTTTCGATGTTTTTGGGATTGACACTTTTTATAAATGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTATC
* * *
108938 GACACTTAATG-GTGCACCCTTTCTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACA
131 GACACTTTATGCGTGCACCCTTT-TGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTACA
*
109002 CAAGTG
195 AAAGTG
* * * ** *
109008 TCGATACA-TATTGTAAACCTATTCTCTTATAAAACTGGTATATGCATACCGGTTACATTGAAAA
1 TCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAA
*
109072 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATGTA
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTT-TTTATAAATGTA
* * * * *
109137 TCGACACTTGT-TGTGTGCACCCTTTTTGGGTATTCATTCTGGACAAACAGTATCAAAACAAATT
129 TCGACACTT-TATGCGTGCACCC-TTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
* *
109201 CCAGAAGTG
192 ACAAAAGTG
* * * *
109210 TTGATACATTATGTAGACCTATTCTTTCATAAAACCGGT-TAAGTTATACCCGTTACATTGTAAA
1 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT-ATTTATACCGGTTACATTGTAAA
* * * **
109274 TTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTAT
65 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTAT
* * * * *
109339 CGACACTTTATGCGTTCATCATTTTGGGCATTCATTCTGGAC-AAAAGTATCAACACATAATGA-
130 CGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACA-AATTAC
109402 AAAAGTG
194 AAAAGTG
* * * * *
109409 TCGATACATTATGTAGACCTATTCTCACATAAAATCGGTATATTTATATCGGTTATATTATAAAA
1 TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAA
* * * * *
109474 TTACCTATTACATTATAATTATGAGTTTCGATATTTTTGAGATCGACACTTTTTATAACTGTATC
66 TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTATC
109539 GACA
131 GACA
109543 AATATGCTTA
Statistics
Matches: 1300, Mismatches: 211, Indels: 53
0.83 0.13 0.03
Matches are distributed among these distances:
199 158 0.12
200 743 0.57
201 101 0.08
202 291 0.22
203 7 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
TCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAAA
TTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGTATC
GACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTACAA
AAGTG
Found at i:108737 original size:402 final size:401
Alignment explanation
Indices: 107782--109542 Score: 2065
Period size: 402 Copynumber: 4.4 Consensus size: 401
107772 ATTTAAAATG
* * * * * * * * * *
107782 GTATTGACACAAATTTAACAATTATCGATACTTTATG-ATGACCTATTTTCTCATAAAATCGGTA
1 GTATCGACACAAATTCAAAAAGTGTCGATACATTATGTA-GACCTATTCTCACATAAAACCAGTA
* *
107846 TATTTATACCGATTACATTA-AAAATTTACCTATTACATTATAATTATCGA-TTTCGATGTTTTT
65 TATTTATACCGGTTATATTATAAAA-TTACCTATTACATTATAATTAT-GAGTTTCGATGTTTTT
* * * *
107909 GAGATCGACACTTTTTA-AAATTGTATTGACACTTTATGCGTGCAACCC-TTTT-GACATTCATT
128 GGGATCGACACTTTTTATAAA-TGTATCGACACTTTATGTGTGC-ACCCTTTTTGGTCATTCATT
*
107971 CTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATGT-TGTAGACATATTCTCTCA
191 CTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-TATGTAGACCTATTCTCTCA
* * * * *
108035 TAAAATCGGTATA-GTTATACCAGTTACATTGTAAATTTTCCTATTACATTATATTTATGGGTTT
255 TAAAACCGGTATATGTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
* * * *
108099 CGATGTTTCTGATATCGACACTTTTTATAAATATATCGACACTTTATGCGTTCATCATTTTGGGC
320 CGATGTTTCTGAGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGC
*
108164 ATTCATTCTGGATAAAAA
385 ATTCATTCTGGA-CAAAA
* * * *
108182 GTATCGACACAAAATAAAAAAGTGTTGATACATTATGTAGACTTATTCTCACATAAAACCAGTAT
1 GTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCAGTAT
*
108247 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGG
* * *
108312 ATCGACACTTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTTTGGTCATTCCTTCTTGA
131 ATCGACACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTTGGTCATTCATTCTGGA
* *
108376 CCAAAAGTATCGACACAAATTAGACAAGTGTCGATACA-TACTGTAGACCTATTCTCTCATAAAA
196 CAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAA
*
108440 CCGGTATATG-TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
260 CCGGTATATGTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATG
* * * * * *
108504 TTTCTGGGATCGATACTTGTTTATAAATCTATTGATACTTGT-TGCGTGCACCCTTTTTGGGCAT
325 TTTCTGAGATCGACACTT-TTTATAAATGTATCGACACTT-TATGCGTGCA-CCATTTTGGGCAT
*
108568 TCCTTCTGGACAAACA
387 TCATTCTGGACAAA-A
*** * ** *
108584 GTATCGACACAAATTCTGGAAGTGTCGATACATTATGTAGACCAATTCTTTCATAAAACCAGTTT
1 GTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCAGTAT
* * * * * * * **
108649 AGTTATACTGGTTATATTGTAAATTTACCTATTATATTTTATTTATGAGTTTCGATGTTCCTGGG
66 ATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGG
* ** * * * *
108714 ATTGACACTTTCAATAAATGTATCGACACTTTATGTGTTCA-TCATTTTGGGCATTCATTCTGGA
131 ATCGACACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTTGGTCATTCATTCTGGA
* * * * * * *
108778 CAAAAAGTATCGACACAAAATAAAAAAGTGACGATACATTATGTAGACCTATTATCACTTAAAAC
196 CAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * * *
108843 TGGTATAT-TTATACCTGTTATATT-ACAAAATTACCTATTTCATTATAATTATCGGTTTCGATG
261 CGGTATATGTTATACCAGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATG
* * * * *
108906 TTTTTGGGATTGACACTTTTTATAAATGTATCGACACTTAATG-GTGCACCCTTTCTGGGCATTC
325 TTTCTGAGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTT-TGGGCATTC
*
108970 CTTCTGGACCAAAA
389 ATTCTGGA-CAAAA
* * ** **
108984 GTATCGACACAAATT-ACACAAGTGTCGATACA-TATTGTAAACCTATTCTCTTATAAAACTGGT
1 GTATCGACACAAATTCA-AAAAGTGTCGATACATTA-TGTAGACCTATTCTCACATAAAACCAGT
** * * *
109047 ATATGCATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCT
64 ATATTTATACCGGTTATATT-ATAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTT
*
109111 GGGATCGATACTTGTTTATAAATGTATCGACACTTGT-TGTGTGCACCCTTTTTGGGT-ATTCAT
128 GGGATCGACACTT-TTTATAAATGTATCGACACTT-TATGTGTGCACCCTTTTT-GGTCATTCAT
* * * * * * *
109174 TCTGGACAAACAGTATCAAAACAAATTCCAGAAGTGTTGATACATTATGTAGACCTATTCTTTCA
190 TCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCA
* * * * *
109239 TAAAACCGGT-TAAGTTATACCCGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTT
255 TAAAACCGGTATATGTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
** * *
109303 CGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGACACTTTATGCGTTCATCATTTTGGGC
320 CGATGTTTCTGAGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGC
109368 ATTCATTCTGGACAAAA
385 ATTCATTCTGGACAAAA
* * * *
109385 GTATCAACACATAA-TGAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTA
1 GTATCGACACA-AATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCAGTA
* * *
109449 TATTTATATCGGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCGATATTTTTGA
65 TATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGG
*
109514 GATCGACACTTTTTATAACTGTATCGACA
130 GATCGACACTTTTTATAAATGTATCGACA
109543 AATATGCTTA
Statistics
Matches: 1155, Mismatches: 172, Indels: 68
0.83 0.12 0.05
Matches are distributed among these distances:
398 5 0.00
399 17 0.01
400 426 0.37
401 209 0.18
402 482 0.42
403 16 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (401 bp):
GTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCAGTAT
ATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGG
ATCGACACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTTGGTCATTCATTCTGGA
CAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
CGGTATATGTTATACCAGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
TTCTGAGATCGACACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCAT
TCTGGACAAAA
Found at i:108929 original size:602 final size:601
Alignment explanation
Indices: 107821--109542 Score: 2620
Period size: 602 Copynumber: 2.9 Consensus size: 601
107811 ACTTTATGAT
* * * *
107821 GACCTATTTTCTCATAAAATCGGTATATTTATACCGATTACATT-AAAAATTTACCTATTACATT
1 GACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAA-TTACCTATTACATT
* * * * *
107885 ATAATTATCGATTTCGATGTTTTTGAGATCGACACTT-TTTA-AAATTGTATTGACACTT-TATG
65 ATAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAA-TGTATTGACACTTGT-TG
* * *
107947 CGTGCAACCC-TTTT-GACATTCATTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGA
128 CGTGC-ACCCTTTTTGGGCATTCATTCTGGACAAACAGTATCGACACAAATT-CAGAAGTGTCGA
* * *
108010 TACATGT-TGTAGA-CATATTCTCTCATAAAATCGGTATAGTTATACCAGTTACATTGTAAATTT
191 TACAT-TATGTAGACCA-ATTCTTTCATAAAACCGGTTTAGTTATACCAGTTACATTGTAAATTT
* * ** *
108073 TCCTATTACATTATATTTATGGGTTTCGATGTTTCTGATATCGACACTTTTTATAAATATATCGA
254 ACCTATTACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGA
*
108138 CACTTTATGCGTTCATCATTTTGGGCATTCATTCTGGATAAAAAGTATCGACACAAAATAAAAAA
319 CACTTTATGCGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAA
* * **
108203 GTGTTGATACATTATGTAGACTTATTCTCACATAAAACCAGTATATTTATACCGGTTATATTACA
384 GTGTCGATACATTATGTAGACCTATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACA
108268 AAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGT
449 AAATTACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGT
* * *
108333 ATCGACACTTAATGGTGCACCCTTTTTGGTCATTCCTTCTTGACCAAAAGTATCGACACAAATTA
514 ATCGACACTTAATGGTGCACCCTTTCTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTA
*
108398 GACAAGTGTCGATACATACTGTA
579 CACAAGTGTCGATACATACTGTA
108421 GACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTA
1 GACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTA
* *
108486 TAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATCTATTGATACTTGTTGCGT
66 TAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATGTATTGACACTTGTTGCGT
* *
108551 GCACCCTTTTTGGGCATTCCTTCTGGACAAACAGTATCGACACAAATTCTGGAAGTGTCGATACA
131 GCACCCTTTTTGGGCATTCATTCTGGACAAACAGTATCGACACAAATTC-AGAAGTGTCGATACA
* ** *
108616 TTATGTAGACCAATTCTTTCATAAAACCAGTTTAGTTATACTGGTTATATTGTAAATTTACCTAT
195 TTATGTAGACCAATTCTTTCATAAAACCGGTTTAGTTATACCAGTTACATTGTAAATTTACCTAT
* * * * * *
108681 TATATTTTATTTATGAGTTTCGATGTTCCTGGGATTGACACTTTCAATAAATGTATCGACACTTT
260 TACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGACACTTT
* *
108746 ATGTGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGACG
325 ATGCGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCG
* * *
108811 ATACATTATGTAGACCTATTATCACTTAAAACTGGTATATTTATACCTGTTATATTACAAAATTA
390 ATACATTATGTAGACCTATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAATTA
* *
108876 CCTATTTCATTATAATTATCG-GTTTCGATGTTTTTGGGATTGACACTTTTTATAAATGTATCGA
455 CCTATTACATTATAATTAT-GAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGA
108940 CACTTAATGGTGCACCCTTTCTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAA
519 CACTTAATGGTGCACCCTTTCTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAA
*
109005 GTGTCGATACATATTGTA
584 GTGTCGATACATACTGTA
* * * *
109023 AACCTATTCTCTTATAAAACTGGTATATGCATACCGGTTACATTGAAAAATTACCTATTACATTA
1 GACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTA
* *
109088 TAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATGTATCGACACTTGTTGTGT
66 TAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATGTATTGACACTTGTTGCGT
* * * *
109153 GCACCCTTTTTGGGTATTCATTCTGGACAAACAGTATCAAAACAAATTCCAGAAGTGTTGATACA
131 GCACCCTTTTTGGGCATTCATTCTGGACAAACAGTATCGACACAAATT-CAGAAGTGTCGATACA
* * *
109218 TTATGTAGACCTATTCTTTCATAAAACCGGTTAAGTTATACCCGTTACATTGTAAATTTACCTAT
195 TTATGTAGACCAATTCTTTCATAAAACCGGTTTAGTTATACCAGTTACATTGTAAATTTACCTAT
109283 TACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGACACTTT
260 TACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGACACTTT
* * *
109348 ATGCGTTCATCATTTTGGGCATTCATTCTGGAC-AAAAGTATCAACACATAATGAAAAAGTGTCG
325 ATGCGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCG
* *
109412 ATACATTATGTAGACCTATTCTCACATAAAA-TCGGTATATTTATATCGGTTATATTATAAAATT
390 ATACATTATGTAGACCTATTCTCACATAAAACT-GGTATATTTATACCGGTTATATTACAAAATT
* * *
109476 ACCTATTACATTATAATTATGAGTTTCGATATTTTTGAGATCGACACTTTTTATAACTGTATCGA
454 ACCTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGA
109541 CA
519 CA
109543 AATATGCTTA
Statistics
Matches: 1017, Mismatches: 92, Indels: 25
0.90 0.08 0.02
Matches are distributed among these distances:
600 92 0.09
601 177 0.17
602 744 0.73
603 4 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (601 bp):
GACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTGAAAAATTACCTATTACATTA
TAATTATGGGTTTCGATGTTTCTGGGATCGATACTTGTTTATAAATGTATTGACACTTGTTGCGT
GCACCCTTTTTGGGCATTCATTCTGGACAAACAGTATCGACACAAATTCAGAAGTGTCGATACAT
TATGTAGACCAATTCTTTCATAAAACCGGTTTAGTTATACCAGTTACATTGTAAATTTACCTATT
ACATTATATTTATGGGTTTCGATGTTTCTGAGATCGACACTTTCAATAAATGTATCGACACTTTA
TGCGTTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGA
TACATTATGTAGACCTATTCTCACATAAAACTGGTATATTTATACCGGTTATATTACAAAATTAC
CTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTATCGACA
CTTAATGGTGCACCCTTTCTGGGCATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGT
GTCGATACATACTGTA
Found at i:111474 original size:18 final size:18
Alignment explanation
Indices: 111451--111561 Score: 177
Period size: 18 Copynumber: 6.2 Consensus size: 18
111441 TCCTCCTCAT
*
111451 TTCCTCCATCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
111469 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
111487 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
111505 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
* *
111523 TTCATCTCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
* *
111541 TTCATCTCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
111559 TTC
1 TTC
111562 ATATTTTTTC
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 90 1.00
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:111772 original size:33 final size:33
Alignment explanation
Indices: 111731--111830 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
111721 CCATCTTAAG
*
111731 TTCACCCCTCTACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
* *
111764 TTCACCCCTCAACACCTCAACTTCTTTTATCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
111797 TTCACCCTTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
111830 T
1 T
111831 CCATCTATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:111888 original size:21 final size:21
Alignment explanation
Indices: 111863--111907 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
111853 CCCCCTTATG
111863 TCTCTCAAGTGTCTCTTCAAC
1 TCTCTCAAGTGTCTCTTCAAC
* *
111884 TCTCTCAAGTTTCTCTTCGAC
1 TCTCTCAAGTGTCTCTTCAAC
111905 TCT
1 TCT
111908 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTGTCTCTTCAAC
Found at i:112313 original size:22 final size:23
Alignment explanation
Indices: 112285--112340 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
112275 AACCTGCATT
112285 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
112307 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
112331 TATAAAAAAA
1 TATAATAAAA
112341 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:115800 original size:20 final size:20
Alignment explanation
Indices: 115775--115821 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
115765 GAGAGAAAAT
*
115775 CACAACTCTCAAGTGAAGAG
1 CACAACACTCAAGTGAAGAG
115795 CACAACACTCAAGTGAAGAG
1 CACAACACTCAAGTGAAGAG
115815 CACAACA
1 CACAACA
115822 AGTAAGAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (20 bp):
CACAACACTCAAGTGAAGAG
Done.