Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_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: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:2912 original size:40 final size:40
Alignment explanation
Indices: 2862--2950 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
2852 AGTAATTTTG
* * * *
2862 GTATTGATACTCAATT-TGGTATCCATACTGAAGAAGG-CGA
1 GTATCGATACTC-ATTGGGGTATCAATACTG-AGAAGGACAA
2902 GTATCGATACTCATTGGGGTATCAATACTGAGAAGGACAA
1 GTATCGATACTCATTGGGGTATCAATACTGAGAAGGACAA
2942 GTATCGATA
1 GTATCGATA
2951 TTCCCAGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 9 0.21
40 34 0.79
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (40 bp):
GTATCGATACTCATTGGGGTATCAATACTGAGAAGGACAA
Found at i:8228 original size:27 final size:24
Alignment explanation
Indices: 8183--8234 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 24
8173 CCTATTCACA
8183 TAATTCTTTTTCTATAACACATATT
1 TAATTCTTTTTCTATAACA-ATATT
8208 TAATTCCTTTTTGCT-TCAACAATATT
1 TAATT-CTTTTT-CTAT-AACAATATT
8234 T
1 T
8235 TCCTTGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
26 13 0.54
27 6 0.25
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATTCTTTTTCTATAACAATATT
Found at i:9084 original size:22 final size:22
Alignment explanation
Indices: 9045--9087 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9035 TCAATACAAA
*
9045 TAAAAAACATAATTAAAATAAT
1 TAAAAAACATAATAAAAATAAT
9067 TAAAACAACA-AATAAAAATAA
1 TAAAA-AACATAATAAAAATAA
9088 AACAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAAAAACATAATAAAAATAAT
Found at i:10357 original size:22 final size:22
Alignment explanation
Indices: 10323--10366 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10313 GGCTAGTTAC
*
10323 ACCTGGGTTGGGTTTAGTTTGG
1 ACCTGGGTTGGGTCTAGTTTGG
10345 ACCT-GGTTCGGGTCTAGTTTGG
1 ACCTGGGTT-GGGTCTAGTTTGG
10367 GGGTCAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.09, C:0.14, G:0.39, T:0.39
Consensus pattern (22 bp):
ACCTGGGTTGGGTCTAGTTTGG
Found at i:10990 original size:42 final size:41
Alignment explanation
Indices: 10903--10994 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
10893 TATGGATAGT
* * *
10903 CCGAAGGTCTTATCATCTTGCTCAAAAGACTTATAAATGGT
1 CCGAAGGACTTATCATCATGCTCAAAAGACTTATAAATGGC
* * *
10944 CCGAAGGACTTATGCATCATGCTCGAAAGACTTACT-GATTGC
1 CCGAAGGACTTAT-CATCATGCTCAAAAGACTTA-TAAATGGC
10986 CCGAAGGAC
1 CCGAAGGAC
10995 ATACTCATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
41 12 0.28
42 30 0.70
43 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
CCGAAGGACTTATCATCATGCTCAAAAGACTTATAAATGGC
Found at i:11281 original size:42 final size:41
Alignment explanation
Indices: 11168--11281 Score: 106
Period size: 42 Copynumber: 2.7 Consensus size: 41
11158 TTCCGAAGGT
* *
11168 CTTATGGATGGCCCGAATGACTTATCATC-TTGCTCGAAAGA
1 CTTATAGAT-GCCCGAAGGACTTATCATCATTGCTCGAAAGA
* * *
11209 CTTATAGATGACCCGACGGATTTAAGCATCATT-CTCGAAAGA
1 CTTATAGATG-CCCGAAGGACTT-ATCATCATTGCTCGAAAGA
* *
11251 CTTGTTGATGCCCTGAAGGACTTACTCATCA
1 CTTATAGATGCCC-GAAGGACTTA-TCATCA
11282 AGAAACCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.02
41 21 0.36
42 34 0.59
43 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CTTATAGATGCCCGAAGGACTTATCATCATTGCTCGAAAGA
Found at i:13373 original size:9 final size:9
Alignment explanation
Indices: 13361--13454 Score: 54
Period size: 9 Copynumber: 10.7 Consensus size: 9
13351 TTTTTTATTA
13361 TTTTTTCTC
1 TTTTTTCTC
13370 -TTTTTCTC
1 TTTTTTCTC
* *
13378 -TTTTTATG
1 TTTTTTCTC
*
13386 TTTTTTCTT
1 TTTTTTCTC
13395 TCTTTTTC-C
1 T-TTTTTCTC
13404 TTTTTTTCTC
1 -TTTTTTCTC
*
13414 TTTTTT-TA
1 TTTTTTCTC
*
13422 TTTTCTT-TA
1 TTTT-TTCTC
* *
13431 TTTTCTATC
1 TTTTTTCTC
*
13440 TTTTTTCCC
1 TTTTTTCTC
13449 TTTTTT
1 TTTTTT
13455 TGCTATATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
8 20 0.29
9 40 0.59
10 8 0.12
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:13381 original size:7 final size:8
Alignment explanation
Indices: 13362--13418 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
13352 TTTTTATTAT
13362 TTTTTCTC
1 TTTTTCTC
13370 TTTTTCTC
1 TTTTTCTC
* *
13378 TTTTTATGT
1 TTTTTCT-C
13387 TTTTTCTTTC
1 TTTTTC--TC
*
13397 TTTTTCCTT
1 TTTTT-CTC
13406 TTTTTCTC
1 TTTTTCTC
13414 TTTTT
1 TTTTT
13419 TTATTTTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 21 0.54
9 11 0.28
10 5 0.13
11 2 0.05
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTCTC
Found at i:13400 original size:19 final size:19
Alignment explanation
Indices: 13376--13425 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13366 TCTCTTTTTC
13376 TCTTTTTATGTTTTTTCT-T
1 TCTTTTTAT-TTTTTTCTCT
*
13395 TCTTTTTCCTTTTTTTCTCT
1 TCTTTTT-ATTTTTTTCTCT
13415 T-TTTTTATTTT
1 TCTTTTTATTTT
13426 CTTTATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
19 20 0.74
20 3 0.11
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (19 bp):
TCTTTTTATTTTTTTCTCT
Found at i:13409 original size:27 final size:25
Alignment explanation
Indices: 13347--13409 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
13337 ATCGTTTTTC
13347 TTTCTTTTTTATTATTTTTTCTCTT
1 TTTCTTTTTTATTATTTTTTCTCTT
*
13372 TTTCTCTTTTTATGT-TTTTTCTTTCTT
1 TTTCT-TTTTTAT-TATTTTT-TCTCTT
13399 TTTCCTTTTTT
1 TTT-CTTTTTT
13410 TCTCTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.15
26 12 0.36
27 14 0.42
28 2 0.06
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTCTTTTTTATTATTTTTTCTCTT
Found at i:13425 original size:17 final size:17
Alignment explanation
Indices: 13370--13425 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
13360 ATTTTTTCTC
* *
13370 TTTTTCTCTTTTTATGT
1 TTTTTCTCTTTTTTTAT
*
13387 TTTTTCT-TTCTTTTTCCTT
1 TTTTTCTCTT-TTTTT--AT
13406 TTTTTCTCTTTTTTTAT
1 TTTTTCTCTTTTTTTAT
13423 TTT
1 TTT
13426 CTTTATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.06
17 15 0.47
19 13 0.41
20 2 0.06
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTAT
Found at i:13434 original size:24 final size:25
Alignment explanation
Indices: 13398--13445 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
13388 TTTTCTTTCT
*
13398 TTTTCCTTTTTTTCTCT-TTTTTTA
1 TTTTCCTTTTTTTCTATCTTTTTTA
13422 TTTT-CTTTATTTTCTATCTTTTTT
1 TTTTCCTTT-TTTTCTATCTTTTTT
13446 CCCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTCCTTTTTTTCTATCTTTTTTA
Found at i:13445 original size:44 final size:45
Alignment explanation
Indices: 13341--13455 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 45
13331 TATTTGATCG
**
13341 TTTTTCTTTCTTTTTTATTATTTTTTCTCTTTTTCTCTTTTTATGT
1 TTTTTCTTTCTTTTTTCCT-TTTTTTCTCTTTTTCTCTTTTTATGT
*
13387 TTTTTCTTTC-TTTTTCCTTTTTTTCTCTTTTT-T-TATTTTCT-T
1 TTTTTCTTTCTTTTTTCCTTTTTTTCTCTTTTTCTCT-TTTTATGT
*
13429 TATTTTCTATCTTTTTTCCCTTTTTTT
1 T-TTTTCTTTCTTTTTT-CCTTTTTTT
13456 GCTATATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
42 3 0.05
43 14 0.23
44 19 0.31
45 15 0.25
46 10 0.16
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (45 bp):
TTTTTCTTTCTTTTTTCCTTTTTTTCTCTTTTTCTCTTTTTATGT
Found at i:15591 original size:20 final size:23
Alignment explanation
Indices: 15543--15591 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
15533 TCAATACAAC
*
15543 TAAAAAGAACATAATTAAAATAA
1 TAAAAACAACATAATTAAAATAA
*
15566 TTAAAACAACA-AA-TAAAA-AA
1 TAAAAACAACATAATTAAAATAA
15586 TAAAAA
1 TAAAAA
15592 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 5 0.22
22 2 0.09
23 9 0.39
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (23 bp):
TAAAAACAACATAATTAAAATAA
Found at i:15593 original size:8 final size:8
Alignment explanation
Indices: 15576--15653 Score: 85
Period size: 8 Copynumber: 10.0 Consensus size: 8
15566 TTAAAACAAC
15576 AAAT-AAA
1 AAATAAAA
15583 AAATAAAA
1 AAATAAAA
15591 AAATAAAA
1 AAATAAAA
15599 AAATAAAA
1 AAATAAAA
15607 AAATAAAA
1 AAATAAAA
15615 AAAGTAAAA
1 AAA-TAAAA
*
15624 AACA-ACATA
1 AA-ATA-AAA
15633 AAAT--AA
1 AAATAAAA
15639 AAAT-AAA
1 AAATAAAA
15646 AAATAAAA
1 AAATAAAA
15654 CAAGTACAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
6 5 0.08
7 10 0.16
8 35 0.56
9 11 0.18
10 1 0.02
ACGTcount: A:0.83, C:0.03, G:0.01, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:16634 original size:67 final size:63
Alignment explanation
Indices: 16526--16653 Score: 193
Period size: 67 Copynumber: 2.0 Consensus size: 63
16516 GGGGTAGGAG
*
16526 CAGGTGGCTCCTGATTGGGGGGAAGGTGGGTTTTGATTGGGTAATTTGGGGGCTAGTTAGAGC
1 CAGGTGGCTCCTGATTGGGGGGAAGGTGGGTTTAGATTGGGTAATTTGGGGGCTAGTTAGAGC
* *
16589 CAGGTGGCTCCTGCTTGGGGGGGGGAAATGTGGGTTTAGATTGGGTAATTTGGGGGCTAGTTAGA
1 CAGGTGGCTCCTGATT---GGGGGG-AAGGTGGGTTTAGATTGGGTAATTTGGGGGCTAGTTAGA
16654 CCTGGGTCGG
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 15 0.26
66 6 0.10
67 37 0.64
ACGTcount: A:0.16, C:0.09, G:0.45, T:0.30
Consensus pattern (63 bp):
CAGGTGGCTCCTGATTGGGGGGAAGGTGGGTTTAGATTGGGTAATTTGGGGGCTAGTTAGAGC
Found at i:16678 original size:22 final size:22
Alignment explanation
Indices: 16652--16696 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16642 GGGCTAGTTA
*
16652 GACCTGGGTCGGGTTTAGTTTG
1 GACCTAGGTCGGGTTTAGTTTG
* *
16674 GACCTAGTTCGGGTTTGGTTTG
1 GACCTAGGTCGGGTTTAGTTTG
16696 G
1 G
16697 GGTCATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.13, G:0.40, T:0.38
Consensus pattern (22 bp):
GACCTAGGTCGGGTTTAGTTTG
Found at i:19885 original size:20 final size:20
Alignment explanation
Indices: 19860--19913 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
19850 CAAAATGCAA
19860 AAATCAAAATAACAGTAG-CT
1 AAATCAAAATAACA-TAGACT
*
19880 AAATCAGAAACTAACATTGACT
1 AAATCA-AAA-TAACATAGACT
*
19902 AAATTAAAATAA
1 AAATCAAAATAA
19914 AACAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 9 0.31
21 8 0.28
22 12 0.41
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (20 bp):
AAATCAAAATAACATAGACT
Found at i:27532 original size:40 final size:40
Alignment explanation
Indices: 27477--27568 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
27467 AGTAATTTTG
* *
27477 GTATCGATACTCATTGTGGTATTGATACTGAAGA-GAGCGA
1 GTATCGATACTCATTGGGGTATCGATACTGAAGAGGA-CGA
*
27517 GTATCGATACTCATTGGGGTATCGATACTGACGAGGACGA
1 GTATCGATACTCATTGGGGTATCGATACTGAAGAGGACGA
*
27557 GTATCAATACTC
1 GTATCGATACTC
27569 CCATATTAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (40 bp):
GTATCGATACTCATTGGGGTATCGATACTGAAGAGGACGA
Found at i:27540 original size:18 final size:18
Alignment explanation
Indices: 27476--27545 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
27466 AAGTAATTTT
*
27476 GGTATCGATACTCATTGT
1 GGTATCGATACTCATTGG
* * **
27494 GGTATTGATACTGAAGAGAG
1 GGTATCGATACT-CATTG-G
27514 CGAGTATCGATACTCATTGG
1 -G-GTATCGATACTCATTGG
27534 GGTATCGATACT
1 GGTATCGATACT
27546 GACGAGGACG
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
18 22 0.56
19 3 0.08
20 1 0.03
21 3 0.08
22 10 0.26
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (18 bp):
GGTATCGATACTCATTGG
Found at i:27687 original size:20 final size:23
Alignment explanation
Indices: 27639--27694 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 23
27629 ACTCAGAAAG
*
27639 GTATCGATACCACAAGGAAGGGAA
1 GTATTGATACCACAAGG-AGGGAA
27663 GTATTGATACC-CAAGG-GGG-A
1 GTATTGATACCACAAGGAGGGAA
*
27683 GTATTGGTACCA
1 GTATTGATACCA
27695 TCATGATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 11 0.38
21 3 0.10
23 5 0.17
24 10 0.34
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (23 bp):
GTATTGATACCACAAGGAGGGAA
Found at i:32461 original size:18 final size:18
Alignment explanation
Indices: 32429--32470 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32419 TTTAAGTAGT
*
32429 AATAAAACGATTAAA-TA
1 AATAAAACAATTAAAGTA
32446 AATAAAAGCAATTAAAGTA
1 AATAAAA-CAATTAAAGTA
32465 AA-AAAA
1 AATAAAA
32471 TAAGAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.19
Consensus pattern (18 bp):
AATAAAACAATTAAAGTA
Found at i:34270 original size:50 final size:50
Alignment explanation
Indices: 34152--34390 Score: 291
Period size: 51 Copynumber: 4.7 Consensus size: 50
34142 TACTTAAATC
* *
34152 GGTGTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTTACTTAGACT
1 GGTGTAAGTATGTGTTAAGTGCTACA--TTTTTTATTTTATTCACTTACACT
* * * *
34204 GTTGTAAGTATGTGTTAAATGCTACATTTTTGTGTTTTATTCACTTACACC
1 GGTGTAAGTATGTGTTAAGTGCTACATTTTT-TATTTTATTCACTTACACT
* *
34255 GGTGT-AGTATCTGTTAAGTGCTACAATTTTTTGTTTTATTCACTTACACT
1 GGTGTAAGTATGTGTTAAGTGCTAC-ATTTTTTATTTTATTCACTTACACT
* * * *
34305 GATGTAAGTATGTGTTAAATACTACACTTGTTTATTTTATTCACTTACACT
1 GGTGTAAGTATGTGTTAAGTGCTACA-TTTTTTATTTTATTCACTTACACT
* *
34356 GGTATAAGTATGTGTTAAGTGGTACATTATTTTAT
1 GGTGTAAGTATGTGTTAAGTGCTACATT-TTTTAT
34391 AGTTTGATTA
Statistics
Matches: 160, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
50 47 0.29
51 89 0.56
52 24 0.15
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (50 bp):
GGTGTAAGTATGTGTTAAGTGCTACATTTTTTATTTTATTCACTTACACT
Found at i:34320 original size:101 final size:103
Alignment explanation
Indices: 34151--34381 Score: 324
Period size: 101 Copynumber: 2.3 Consensus size: 103
34141 ATACTTAAAT
* * * *
34151 CGGTGTAAGTATGTGTTAAGTGCTACACTTTTTTTATTTTATTTACTTAGACTGTTGTAAGTATG
1 CGGTGTAAGTATGTGTTAAGTGCTACACATTTTTTATTTTATTCACTTACACTGATGTAAGTATG
* * *
34216 TGTTAAATGCTACA-TTTTTGTGTTTTATTCACTTACAC
66 TGTTAAATACTACACTTGTT-TATTTTATTCACTTACAC
* *
34254 CGGTGT-AGTATCTGTTAAGTGCTACA-ATTTTTTGTTTTATTCACTTACACTGATGTAAGTATG
1 CGGTGTAAGTATGTGTTAAGTGCTACACATTTTTTATTTTATTCACTTACACTGATGTAAGTATG
34317 TGTTAAATACTACACTTGTTTATTTTATTCACTTACAC
66 TGTTAAATACTACACTTGTTTATTTTATTCACTTACAC
* * *
34355 TGGTATAAGTATGTGTTAAGTGGTACA
1 CGGTGTAAGTATGTGTTAAGTGCTACA
34382 TTATTTTATA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
101 66 0.58
102 41 0.36
103 6 0.05
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (103 bp):
CGGTGTAAGTATGTGTTAAGTGCTACACATTTTTTATTTTATTCACTTACACTGATGTAAGTATG
TGTTAAATACTACACTTGTTTATTTTATTCACTTACAC
Found at i:41966 original size:299 final size:300
Alignment explanation
Indices: 41380--41972 Score: 1035
Period size: 300 Copynumber: 2.0 Consensus size: 300
41370 CTAAGATGAT
* *
41380 CATTAGGTGGGCTTCAAGGTCCAATGGGCCTAGTGGTAAGACCTTATGGACCCTAAGGTACTCCC
1 CATTAGGTGAGCTTCAAGGTCCAATGGGCCCAGTGGTAAGACCTTATGGACCCTAAGGTACTCCC
* * *
41445 TTAGGGTGGTACATATGCTATGTGCTTTGGGTAAGTCCTTATGAACTTGAGGGCATACCCCTCAG
66 TTAGGGAGGCACATATGCTATGTGCTTTGGGTAAGTCCTTATGAACTTGAGGGCACACCCCTCAG
*
41510 GTGGGCACCTATGCTTTGGCTAGGGTAAGACCTTATGGACCCAAGGTGTTCCCTTAGATTGGCAC
131 GTGGGCACCTAAGCTTTGGCTAGGGTAAGACCTTATGGACCCAAGGTGTTCCCTTAGATTGGCAC
41575 ATATGTCCAATGGGCCTAGGGTAAGTCCTTATGGATGTAGTTATGAGGAACTATATATTGGTGTT
196 ATATGTCCAATGGGCCTAGGGTAAGTCCTTATGGATGTAGTTATGAGGAACTATATATTGGTGTT
**
41640 TGTTTGAGGGTTTTACTATGGTTTTAGGGTTTAAAGTGAC
261 CATTTGAGGGTTTTACTATGGTTTTAGGGTTTAAAGTGAC
* *
41680 CATTGGGTGAGCTTTAAGGTCCAATGGGCCCAGTGGTAAGACCTTATGGACCCTAAGGTACTCCC
1 CATTAGGTGAGCTTCAAGGTCCAATGGGCCCAGTGGTAAGACCTTATGGACCCTAAGGTACTCCC
* *
41745 TTAGGGAGGCACCTCTGCTATGTGCTTTGGGTAAGTCCTTATGAACTTGAGGGCACACCCCTCAG
66 TTAGGGAGGCACATATGCTATGTGCTTTGGGTAAGTCCTTATGAACTTGAGGGCACACCCCTCAG
*
41810 GTGGGCACCTAAGCTTTGGCTA-GGTAAGACCTTATGGACCCAAGGTGTTCCCTTAGATTGGTAC
131 GTGGGCACCTAAGCTTTGGCTAGGGTAAGACCTTATGGACCCAAGGTGTTCCCTTAGATTGGCAC
* *
41874 ATATGTCCAATGGGCCTAGGGTAAGTCCTTATGGATGTAGTTCTGGGGAACTATATATTGGTGTT
196 ATATGTCCAATGGGCCTAGGGTAAGTCCTTATGGATGTAGTTATGAGGAACTATATATTGGTGTT
*
41939 CATTTGAGGGTTTTATTATGGTTTTAGGGTTTAA
261 CATTTGAGGGTTTTACTATGGTTTTAGGGTTTAA
41973 GGTTTAGGCC
Statistics
Matches: 277, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
299 135 0.49
300 142 0.51
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (300 bp):
CATTAGGTGAGCTTCAAGGTCCAATGGGCCCAGTGGTAAGACCTTATGGACCCTAAGGTACTCCC
TTAGGGAGGCACATATGCTATGTGCTTTGGGTAAGTCCTTATGAACTTGAGGGCACACCCCTCAG
GTGGGCACCTAAGCTTTGGCTAGGGTAAGACCTTATGGACCCAAGGTGTTCCCTTAGATTGGCAC
ATATGTCCAATGGGCCTAGGGTAAGTCCTTATGGATGTAGTTATGAGGAACTATATATTGGTGTT
CATTTGAGGGTTTTACTATGGTTTTAGGGTTTAAAGTGAC
Found at i:45931 original size:35 final size:35
Alignment explanation
Indices: 45835--46026 Score: 173
Period size: 35 Copynumber: 5.6 Consensus size: 35
45825 ACCTTACGAG
* *
45835 GCACCTCTT-GAGGTGGAAAGACATGTA-TTTTGGAA
1 GCACCTCTTGGA-GTGAAAAGACATG-ACTTTTAGAA
* * * *
45870 GAACCTTTTGGAGTGAAAA-ATTATGACTTTTAGAG
1 GCACCTCTTGGAGTGAAAAGA-CATGACTTTTAGAA
* *
45905 GAACCTTTTGGAGTGAAAAGACATGAC-TTTAGAA
1 GCACCTCTTGGAGTGAAAAGACATGACTTTTAGAA
* * * * *
45939 GCACCTCTAGGA-TCTAAAAGACACGATTTTTGGAA
1 GCACCTCTTGGAGT-GAAAAGACATGACTTTTAGAA
*
45974 GCACCTCTTGGAGTGAAAAGACACGACTTTTAGAA
1 GCACCTCTTGGAGTGAAAAGACATGACTTTTAGAA
46009 GCA-C-CTTGGAGTGAAAAG
1 GCACCTCTTGGAGTGAAAAG
46027 TTATTACTTT
Statistics
Matches: 131, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
33 15 0.11
34 28 0.21
35 84 0.64
36 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (35 bp):
GCACCTCTTGGAGTGAAAAGACATGACTTTTAGAA
Found at i:46439 original size:2 final size:2
Alignment explanation
Indices: 46432--46457 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46422 AAATGCAGCA
46432 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
46458 GAAATGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52093 original size:40 final size:40
Alignment explanation
Indices: 52045--52149 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 40
52035 AAATTAACTC
* *
52045 AACAATTTAATTCCTTTTTATAAAA-AAGAAAAATAAATTT
1 AACAATTTATTTCCTTTTTACAAAATAA-AAAAATAAATTT
* * * *
52085 AACGATTTATTTTC-TTTGACAAAATAAAAAAATTAATTT
1 AACAATTTATTTCCTTTTTACAAAATAAAAAAATAAATTT
52124 AACAATTTATTTCCTTTTT-CAAAATA
1 AACAATTTATTTCCTTTTTACAAAATA
52150 TGATCATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
39 38 0.70
40 16 0.30
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.41
Consensus pattern (40 bp):
AACAATTTATTTCCTTTTTACAAAATAAAAAAATAAATTT
Found at i:55025 original size:21 final size:21
Alignment explanation
Indices: 54987--55026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54977 AGTACAGGGA
*
54987 GTATCGGTACTCCTTTTATGG
1 GTATCGGTACTCCATTTATGG
*
55008 GTATCGGTACTTCATTTAT
1 GTATCGGTACTCCATTTAT
55027 TATTTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (21 bp):
GTATCGGTACTCCATTTATGG
Found at i:57945 original size:46 final size:45
Alignment explanation
Indices: 57893--57990 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
57883 TACCAAGCAC
* * *
57893 CGATGCACTGAGGAT-TTTATGAAAACATCGATTGCATTTGATGCAT
1 CGATGCACTCAGGATATTT-TG-AAACATCGAATGCACTTGATGCAT
* *
57939 CGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCAT
1 CGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCAT
57984 CGATGCA
1 CGATGCA
57991 ATCTTAGTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 29 0.63
46 14 0.30
47 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (45 bp):
CGATGCACTCAGGATATTTTGAAACATCGAATGCACTTGATGCAT
Found at i:66463 original size:19 final size:19
Alignment explanation
Indices: 66439--66491 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
66429 GAATGCATTT
*
66439 CATGCATCGATGCACATAC
1 CATGCACCGATGCACATAC
66458 CATGCACCGATGCACATAC
1 CATGCACCGATGCACATAC
66477 CATGCACCGATGCAC
1 CATGCACCGATGCAC
66492 TGAGGATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (19 bp):
CATGCACCGATGCACATAC
Found at i:69581 original size:2 final size:2
Alignment explanation
Indices: 69574--69631 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
69564 TATTAAAATA
69574 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
69616 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
69632 TAACAATGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70083 original size:42 final size:42
Alignment explanation
Indices: 70006--70086 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
69996 CAATAGAAAC
* *
70006 ATTCACAACTTCTAAGAAAATAAATTCAATAATTTATTTTTG
1 ATTCACAAATTCTAAGAAAATAAATTCAACAATTTATTTTTG
* *
70048 ATTCA-AAATTCTCAAGAAAATAAATTTAACGATTTATTT
1 ATTCACAAATTCT-AAGAAAATAAATTCAACAATTTATTT
70087 CCTTTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 6 0.18
42 28 0.82
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (42 bp):
ATTCACAAATTCTAAGAAAATAAATTCAACAATTTATTTTTG
Found at i:70137 original size:100 final size:100
Alignment explanation
Indices: 69963--70144 Score: 244
Period size: 100 Copynumber: 1.8 Consensus size: 100
69953 AGATTCACAT
* *
69963 GAAAATAAATTCAACGACTTATTTTCTTTTACACAATAGAAACATTCACAACTTCTAAGAAAATA
1 GAAAATAAATTCAACGACTTATTTCCTTTTACAAAATAGAAACATTCACAACTTCTAAGAAAATA
70028 AATTCAATAATTTATTTTTGATTCAAAATTCTCAA
66 AATTCAATAATTTATTTTTGATTCAAAATTCTCAA
* * * * *
70063 GAAAATAAATTTAACGATTTATTTCCTTTTATAAAATA-AAATCATTTA-ATA-TTATCAAGAAA
1 GAAAATAAATTCAACGACTTATTTCCTTTTACAAAATAGAAA-CATTCACA-ACTTCT-AAGAAA
*
70125 ATAAATTTAATAATTTATTT
63 ATAAATTCAATAATTTATTT
70145 CTTTTAAAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 7 0.10
100 64 0.90
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (100 bp):
GAAAATAAATTCAACGACTTATTTCCTTTTACAAAATAGAAACATTCACAACTTCTAAGAAAATA
AATTCAATAATTTATTTTTGATTCAAAATTCTCAA
Found at i:70184 original size:58 final size:57
Alignment explanation
Indices: 70055--70363 Score: 277
Period size: 58 Copynumber: 5.3 Consensus size: 57
70045 TTGATTCAAA
* * * *
70055 ATTCTCAAGAAAATAAATTTAACGATTTATTTCCTTTTATAAA-ATAAAATCATTTAAT
1 ATTCTCAAGAAAATAAATTTAATGATTTATTT--TTTTATAAAGTTAGAATCATTTAAG
* * *
70113 ATTATCAAGAAAATAAATTTAATAATTTATTTCTTTTA-AAAGATAGAATCATTTAAG
1 ATTCTCAAGAAAATAAATTTAATGATTTATTT-TTTTATAAAGTTAGAATCATTTAAG
* * * *
70170 ATTCTTAAGAAAAATAAATTTAACGATTTATTTTTCTTATAAATTTAGAATCATTCAAG
1 ATTCTCAAG-AAAATAAATTTAATGATTTATTTTT-TTATAAAGTTAGAATCATTTAAG
* * * * * * * * *
70229 ATACTTAAGGAAATAAATTCAATGATTTAGTTTTCTTACAAGGTTAGAATCGTTCAAG
1 ATTCTCAAGAAAATAAATTTAATGATTTA-TTTTTTTATAAAGTTAGAATCATTTAAG
* * *
70287 ATTCTCAA-AGAAAT-AATTTCAATTATTTATTTTTCTT-TCAAAGTTAAAATCATTTAAT
1 ATTCTCAAGA-AAATAAATTT-AATGATTTATTTTT-TTAT-AAAGTTAGAATCATTTAAG
*
70345 ATTGTCAAGAAAATAAATT
1 ATTCTCAAGAAAATAAATT
70364 CAGCAAATTA
Statistics
Matches: 206, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
56 3 0.01
57 36 0.17
58 134 0.65
59 33 0.16
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (57 bp):
ATTCTCAAGAAAATAAATTTAATGATTTATTTTTTTATAAAGTTAGAATCATTTAAG
Found at i:70301 original size:116 final size:114
Alignment explanation
Indices: 70048--70365 Score: 306
Period size: 116 Copynumber: 2.7 Consensus size: 114
70038 TTTATTTTTG
* * *
70048 ATTCAAAATTCTC-AAGAAAATAAATTTAACGATTTATTTCCTT-TTATAAAATAAAATCATTTA
1 ATTCAAGATTCTCAAAG-AAATAAATTTAACGATTTATTT--TTCTTATAAATTAAAATCATTCA
* * *
70111 ATATTATCAAGAAAATAAATTTAATAATTTATTTCTTTTAAAAGATAGAATC
63 AGATTATCAAGAAAATAAATTCAATAATTTATTTCTCTTAAAAGATAGAATC
* * * *
70163 ATTTAAGATTCTTAAGAAAAATAAATTTAACGATTTATTTTTCTTATAAATTTAGAATCATTCAA
1 ATTCAAGATTCTCAA-AGAAATAAATTTAACGATTTATTTTTCTTATAAA-TTAAAATCATTCAA
* * * * *
70228 GA-TACTTAAGGAAATAAATTCAATGATTTAGTTT-TCTTACAAGGTTAGAATC
64 GATTA-TCAAGAAAATAAATTCAATAATTTA-TTTCTCTTA-AAAGATAGAATC
* ** *
70280 GTTCAAGATTCTCAAAGAAAT-AATTTCAATTATTTATTTTTCTT-TCAAAGTTAAAATCATTTA
1 ATTCAAGATTCTCAAAGAAATAAATTT-AACGATTTATTTTTCTTAT-AAA-TTAAAATCATTCA
* *
70343 ATATTGTCAAGAAAATAAATTCA
63 AGATTATCAAGAAAATAAATTCA
70366 GCAAATTATT
Statistics
Matches: 165, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
114 2 0.01
115 25 0.15
116 111 0.67
117 27 0.16
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (114 bp):
ATTCAAGATTCTCAAAGAAATAAATTTAACGATTTATTTTTCTTATAAATTAAAATCATTCAAGA
TTATCAAGAAAATAAATTCAATAATTTATTTCTCTTAAAAGATAGAATC
Found at i:70605 original size:89 final size:89
Alignment explanation
Indices: 70496--70659 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
70486 AGCAACTCAA
* * *** *
70496 TAATCGAAAGGAACCCATCATTTGATTTTAATGTTTG-CAATTTAATAATAAAAAAGAACTAATC
1 TAATCAAAAGGAACCAATCATTTGATTTTAAT-TTTGCCAACACAATAATAAAAAAGAACTAATA
70560 CTTTGATTTTAATTTCCACAAACAG
65 CTTTGATTTTAATTTCCACAAACAG
* * * **
70585 TAATCAAAAGGAACTAATCATTTGATTTTACTTTTGCCAACACAATAATCAAATGGAACTAATAC
1 TAATCAAAAGGAACCAATCATTTGATTTTAATTTTGCCAACACAATAATAAAAAAGAACTAATAC
70650 TTTGATTTTA
66 TTTGATTTTA
70660 CTTCTTGGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
88 4 0.06
89 59 0.94
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (89 bp):
TAATCAAAAGGAACCAATCATTTGATTTTAATTTTGCCAACACAATAATAAAAAAGAACTAATAC
TTTGATTTTAATTTCCACAAACAG
Found at i:70660 original size:45 final size:44
Alignment explanation
Indices: 70488--70685 Score: 159
Period size: 45 Copynumber: 4.4 Consensus size: 44
70478 TTAATTTTAG
* * ** *
70488 CAACTCAATAATCGAAAGGAACCCATCATTTGATTTTAATGTTTG-
1 CAACACAATAATCAAAAGGAACTAATC-TTTGATTTTACT-TTTGC
*** * * *
70533 CAATTTAATAATAAAAAAGAACTAATCCTTTGATTTTA-ATTT-C
1 CAACACAATAATCAAAAGGAACTAAT-CTTTGATTTTACTTTTGC
* *
70576 CACAAACAGTAATCAAAAGGAACTAATCATTTGATTTTACTTTTGC
1 CA-ACACAATAATCAAAAGGAACTAATC-TTTGATTTTACTTTTGC
* *
70622 CAACACAATAATCAAATGGAACTAATACTTTGATTTTACTTCTTGG
1 CAACACAATAATCAAAAGGAACTAAT-CTTTGATTTTACTT-TTGC
* *
70668 AAACACAATAATTAAAAG
1 CAACACAATAATCAAAAG
70686 TCTTGGATTA
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.05
44 28 0.23
45 66 0.54
46 23 0.19
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (44 bp):
CAACACAATAATCAAAAGGAACTAATCTTTGATTTTACTTTTGC
Found at i:73138 original size:12 final size:12
Alignment explanation
Indices: 73121--73147 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
73111 TATAACAAAT
73121 GAATCTGGAAAA
1 GAATCTGGAAAA
73133 GAATCTGGAAAA
1 GAATCTGGAAAA
73145 GAA
1 GAA
73148 AGCTTTGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.15
Consensus pattern (12 bp):
GAATCTGGAAAA
Found at i:73585 original size:23 final size:25
Alignment explanation
Indices: 73550--73595 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
73540 ATTTGATTTT
73550 GTGGTTTCTGGAG-TGGTTTTTATG
1 GTGGTTTCTGGAGTTGGTTTTTATG
73574 GTGG-TTCTGGAGTTGGTTTTTA
1 GTGGTTTCTGGAGTTGGTTTTTA
73596 GGGGTCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.09, C:0.04, G:0.37, T:0.50
Consensus pattern (25 bp):
GTGGTTTCTGGAGTTGGTTTTTATG
Found at i:79699 original size:13 final size:13
Alignment explanation
Indices: 79681--79710 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
79671 GTCGGTCAAC
*
79681 GGTCAATGGGTCG
1 GGTCAACGGGTCG
79694 GGTCAACGGGTCG
1 GGTCAACGGGTCG
79707 GGTC
1 GGTC
79711 GGGTCGGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:79708 original size:5 final size:5
Alignment explanation
Indices: 79700--79725 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
79690 GTCGGGTCAA
79700 CGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT C
79726 ATGATCGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:83311 original size:18 final size:18
Alignment explanation
Indices: 83284--83318 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83274 ATTTTCCCTT
* *
83284 TTCAATCTTATTATTTAA
1 TTCAAACTTATCATTTAA
83302 TTCAAACTTATCATTTA
1 TTCAAACTTATCATTTA
83319 TGTCAGTCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
TTCAAACTTATCATTTAA
Found at i:84670 original size:13 final size:13
Alignment explanation
Indices: 84654--84690 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
84644 GTCAACGGGT
84654 CAGGTCGGGTCAA
1 CAGGTCGGGTCAA
*
84667 CAGGTCGGGTAAA
1 CAGGTCGGGTCAA
*
84680 CAGGTCTGGTC
1 CAGGTCGGGTC
84691 GGGTCGGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.38, T:0.19
Consensus pattern (13 bp):
CAGGTCGGGTCAA
Found at i:84674 original size:31 final size:31
Alignment explanation
Indices: 84630--84695 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
84620 GCCGGTCAAC
* *
84630 GGTCAACGAGTCGGGTCAACGGGTCAGGTCG
1 GGTCAACGAGTCGGGTAAACAGGTCAGGTCG
*
84661 GGTCAAC-AGGTCGGGTAAACAGGTCTGGTCG
1 GGTCAACGA-GTCGGGTAAACAGGTCAGGTCG
84692 GGTC
1 GGTC
84696 GGGTTATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.20, C:0.21, G:0.41, T:0.18
Consensus pattern (31 bp):
GGTCAACGAGTCGGGTAAACAGGTCAGGTCG
Found at i:86659 original size:29 final size:28
Alignment explanation
Indices: 86617--86677 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
86607 TAAAACATTG
86617 AATATTTAGATACCTATTTTGACTAAAA
1 AATATTTAGATACCTATTTTGACTAAAA
* * *
86645 AATAGTTTAGGTACCTATTTTGATTGAAA
1 AATA-TTTAGATACCTATTTTGACTAAAA
86674 AATA
1 AATA
86678 CTATATTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (28 bp):
AATATTTAGATACCTATTTTGACTAAAA
Found at i:92247 original size:16 final size:16
Alignment explanation
Indices: 92226--92280 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
92216 GGTATTACCC
*
92226 GACCTGTTTTCAACCT
1 GACCTGTTTTTAACCT
*
92242 GACCTGTTTTTAAACT
1 GACCTGTTTTTAACCT
* *
92258 GACATATTTTTAACCT
1 GACCTGTTTTTAACCT
92274 GACCTGT
1 GACCTGT
92281 AAATGATCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.40
Consensus pattern (16 bp):
GACCTGTTTTTAACCT
Found at i:92572 original size:14 final size:14
Alignment explanation
Indices: 92550--92596 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
92540 TGAAAAGGAA
*
92550 AATTAATATAGTTT
1 AATTTATATAGTTT
92564 AATTTATATA----
1 AATTTATATAGTTT
92574 AA-TTATATAGTTT
1 AATTTATATAGTTT
92587 AATTTATATA
1 AATTTATATA
92597 AAGAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:92583 original size:23 final size:24
Alignment explanation
Indices: 92549--92598 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
92539 ATGAAAAGGA
92549 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
92573 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
92596 AAA
1 AAA
92599 GAAAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:92968 original size:14 final size:14
Alignment explanation
Indices: 92942--92988 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
92932 TTAGTGTTAT
92942 GGTTTAA-AGTTTAG
1 GGTTTAAGA-TTTAG
*
92956 GGTTTAAGATTTAT
1 GGTTTAAGATTTAG
* *
92970 GATGTAAGATTTAG
1 GGTTTAAGATTTAG
92984 GGTTT
1 GGTTT
92989 CTATAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
GGTTTAAGATTTAG
Found at i:93115 original size:13 final size:13
Alignment explanation
Indices: 93105--93131 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93095 TACATATTAT
93105 ATAAAATTATTTA
1 ATAAAATTATTTA
93118 ATAAAATTATTTA
1 ATAAAATTATTTA
93131 A
1 A
93132 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:93141 original size:15 final size:14
Alignment explanation
Indices: 93105--93147 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
93095 TACATATTAT
93105 ATAAAATTATTT-A
1 ATAAAATTATTTAA
93118 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
93132 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
93147 A
1 A
93148 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:93468 original size:21 final size:21
Alignment explanation
Indices: 93444--93502 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
93434 TCCATTTATA
*
93444 TTAGGGTTTAAGGTTTAGAGT
1 TTAGGATTTAAGGTTTAGAGT
* * *
93465 TTAGTATTTATGGTTTATAGT
1 TTAGGATTTAAGGTTTAGAGT
* *
93486 TTAGCATTTAGGGTTTA
1 TTAGGATTTAAGGTTTA
93503 TGATTTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (21 bp):
TTAGGATTTAAGGTTTAGAGT
Found at i:93479 original size:28 final size:27
Alignment explanation
Indices: 93448--93522 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
93438 TTTATATTAG
*
93448 GGTTTAAGGTTTAGAGTTTAGTATTTAT
1 GGTTTAA-GTTTAGAGTTTAGGATTTAT
*
93476 GGTTTATAGTTTAGCA-TTTAGGGTTTAT
1 GGTTTA-AGTTTAG-AGTTTAGGATTTAT
*
93504 GATTTAAAGTTTAGAGTTT
1 GGTTT-AAGTTTAGAGTTT
93523 TTATAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.03
28 36 0.90
29 3 0.08
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.49
Consensus pattern (27 bp):
GGTTTAAGTTTAGAGTTTAGGATTTAT
Found at i:93509 original size:21 final size:22
Alignment explanation
Indices: 93450--93509 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
93440 TATATTAGGG
*
93450 TTTAAGGTTTA-GAGTTTAGTA
1 TTTAAGGTTTATGAGTTTAGCA
*
93471 TTTATGGTTTAT-AGTTTAGCA
1 TTTAAGGTTTATGAGTTTAGCA
*
93492 TTTAGGGTTTATGA-TTTA
1 TTTAAGGTTTATGAGTTTA
93510 AAGTTTAGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.52
Consensus pattern (22 bp):
TTTAAGGTTTATGAGTTTAGCA
Found at i:93644 original size:7 final size:7
Alignment explanation
Indices: 93622--93681 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
93612 TACATATATA
93622 GTTTAGG
1 GTTTAGG
*
93629 GGTTAGG
1 GTTTAGG
93636 GTTTAGG
1 GTTTAGG
* *
93643 GTTAAAG
1 GTTTAGG
93650 GTTTAGG
1 GTTTAGG
* * *
93657 GCTCATG
1 GTTTAGG
*
93664 ATTTAGG
1 GTTTAGG
93671 GTTTAGG
1 GTTTAGG
93678 GTTT
1 GTTT
93682 TTTATAAACT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:93743 original size:2 final size:2
Alignment explanation
Indices: 93732--93828 Score: 96
Period size: 2 Copynumber: 49.5 Consensus size: 2
93722 ATAGTGTTTC
93732 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
93773 TA TT TA TA GA T- TA GT- TA TA T- TA GT- TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
93813 TA TA TA TA TA CTA TA T
1 TA TA TA TA TA -TA TA T
93829 TAATATAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
1 5 0.06
2 70 0.89
3 4 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:93887 original size:8 final size:8
Alignment explanation
Indices: 93872--94194 Score: 322
Period size: 8 Copynumber: 40.4 Consensus size: 8
93862 TATATAGTTT
93872 ATACATAC
1 ATACATAC
*
93880 AAACATAC
1 ATACATAC
93888 ATACATAC
1 ATACATAC
93896 ATACATAC
1 ATACATAC
*
93904 ATACATGC
1 ATACATAC
*
93912 ATACATGC
1 ATACATAC
*
93920 ATACATGC
1 ATACATAC
**
93928 ATACATGG
1 ATACATAC
*
93936 ATACATGC
1 ATACATAC
*
93944 ATACATGC
1 ATACATAC
*
93952 ATACATGC
1 ATACATAC
*
93960 ATACATGC
1 ATACATAC
* *
93968 AGACATGC
1 ATACATAC
*
93976 ATACATGC
1 ATACATAC
* *
93984 AGACATGC
1 ATACATAC
* *
93992 AGACATGC
1 ATACATAC
*
94000 ATACATGC
1 ATACATAC
*
94008 ATACATGC
1 ATACATAC
*
94016 ATACATCC
1 ATACATAC
*
94024 ATACATGC
1 ATACATAC
*
94032 ATACATGC
1 ATACATAC
94040 ATACATAC
1 ATACATAC
*
94048 ATACATCC
1 ATACATAC
*
94056 ATGCATAC
1 ATACATAC
* *
94064 ATCCATGC
1 ATACATAC
94072 ATACATAC
1 ATACATAC
* *
94080 ATCCATGC
1 ATACATAC
94088 ATACATAC
1 ATACATAC
*
94096 ATATATAC
1 ATACATAC
*
94104 ATGCATAC
1 ATACATAC
*
94112 ATACATGC
1 ATACATAC
94120 ATACATAC
1 ATACATAC
94128 ATACATAC
1 ATACATAC
*
94136 ATGCATAC
1 ATACATAC
*
94144 ATACATGC
1 ATACATAC
94152 ATACATAC
1 ATACATAC
*
94160 ATGCATAC
1 ATACATAC
*
94168 ATACATGC
1 ATACATAC
*
94176 ATGCATAC
1 ATACATAC
94184 ATACATAC
1 ATACATAC
94192 ATA
1 ATA
94195 AAATTAAAAG
Statistics
Matches: 276, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 276 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.24
Consensus pattern (8 bp):
ATACATAC
Found at i:93891 original size:16 final size:16
Alignment explanation
Indices: 93872--94193 Score: 382
Period size: 16 Copynumber: 20.4 Consensus size: 16
93862 TATATAGTTT
* *
93872 ATACATACAAACATAC
1 ATACATGCATACATAC
*
93888 ATACATACATACATAC
1 ATACATGCATACATAC
*
93904 ATACATGCATACATGC
1 ATACATGCATACATAC
**
93920 ATACATGCATACATGG
1 ATACATGCATACATAC
*
93936 ATACATGCATACATGC
1 ATACATGCATACATAC
*
93952 ATACATGCATACATGC
1 ATACATGCATACATAC
* *
93968 AGACATGCATACATGC
1 ATACATGCATACATAC
* * *
93984 AGACATGCAGACATGC
1 ATACATGCATACATAC
*
94000 ATACATGCATACATGC
1 ATACATGCATACATAC
* *
94016 ATACATCCATACATGC
1 ATACATGCATACATAC
94032 ATACATGCATACATAC
1 ATACATGCATACATAC
* *
94048 ATACATCCATGCATAC
1 ATACATGCATACATAC
*
94064 ATCCATGCATACATAC
1 ATACATGCATACATAC
*
94080 ATCCATGCATACATAC
1 ATACATGCATACATAC
* * *
94096 ATATATACATGCATAC
1 ATACATGCATACATAC
94112 ATACATGCATACATAC
1 ATACATGCATACATAC
* *
94128 ATACATACATGCATAC
1 ATACATGCATACATAC
94144 ATACATG----CATAC
1 ATACATGCATACATAC
94156 ATACATGCATACATAC
1 ATACATGCATACATAC
*
94172 ATGCATGCATACATAC
1 ATACATGCATACATAC
94188 ATACAT
1 ATACAT
94194 AAAATTAAAA
Statistics
Matches: 273, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
12 12 0.04
16 261 0.96
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.24
Consensus pattern (16 bp):
ATACATGCATACATAC
Found at i:93904 original size:24 final size:24
Alignment explanation
Indices: 93873--94194 Score: 383
Period size: 24 Copynumber: 13.2 Consensus size: 24
93863 ATATAGTTTA
* * *
93873 TACATACAAACATACATACATACA
1 TACATACATACATGCATACATGCA
93897 TACATACATACATGCATACATGCA
1 TACATACATACATGCATACATGCA
* *
93921 TACATGCATACATGGATACATGCA
1 TACATACATACATGCATACATGCA
*
93945 TACATGCATACATGCATACATGCA
1 TACATACATACATGCATACATGCA
* * *
93969 GACATGCATACATGCAGACATGCA
1 TACATACATACATGCATACATGCA
* *
93993 GACATGCATACATGCATACATGCA
1 TACATACATACATGCATACATGCA
*
94017 TACATCCATACATGCATACATGCA
1 TACATACATACATGCATACATGCA
*
94041 TACATACATACATCCATGCATACATCCA
1 TACATACAT--A--CATGCATACATGCA
* * * *
94069 TGCATACATACATCCATGCATACA
1 TACATACATACATGCATACATGCA
* *
94093 TACATATATACATGCATACATACA
1 TACATACATACATGCATACATGCA
* *
94117 TGCATACATACATACATACATGCA
1 TACATACATACATGCATACATGCA
* *
94141 TACATACATGCATACATACATGCA
1 TACATACATACATGCATACATGCA
* *
94165 TACATACATGCATGCATACATACA
1 TACATACATACATGCATACATGCA
94189 TACATA
1 TACATA
94195 AAATTAAAAG
Statistics
Matches: 265, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
24 242 0.91
26 2 0.01
28 21 0.08
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.24
Consensus pattern (24 bp):
TACATACATACATGCATACATGCA
Found at i:94427 original size:39 final size:39
Alignment explanation
Indices: 94384--94459 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
94374 ATCTCAATTC
* *
94384 TCAATTTCCCTCCAAATTTTTCTA-TTCTCTCTAAATTTT
1 TCAATTTCCCTCCAAA-TTTTCAATTTCCCTCTAAATTTT
*
94423 TCAATTTCCCTCTAAATTTTCAATTTCCCTCTAAATT
1 TCAATTTCCCTCCAAATTTTCAATTTCCCTCTAAATT
94460 CCCAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 6 0.18
39 27 0.82
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (39 bp):
TCAATTTCCCTCCAAATTTTCAATTTCCCTCTAAATTTT
Found at i:94435 original size:20 final size:20
Alignment explanation
Indices: 94384--94459 Score: 111
Period size: 19 Copynumber: 3.9 Consensus size: 20
94374 ATCTCAATTC
*
94384 TCAATTTCCCTCCAAATTTT
1 TCAATTTCCCTCTAAATTTT
* *
94404 TCTA-TTCTCTCTAAATTTT
1 TCAATTTCCCTCTAAATTTT
94423 TCAATTTCCCTCTAAA-TTT
1 TCAATTTCCCTCTAAATTTT
94442 TCAATTTCCCTCTAAATT
1 TCAATTTCCCTCTAAATT
94460 CCCAAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 35 0.71
20 14 0.29
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAATTTCCCTCTAAATTTT
Found at i:94620 original size:11 final size:11
Alignment explanation
Indices: 94585--94623 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
94575 TATATACTTT
94585 TATAGTTTATA
1 TATAGTTTATA
*
94596 CATAGTTTACATA
1 TATAGTTT--ATA
94609 TATAGTTTATA
1 TATAGTTTATA
94620 TATA
1 TATA
94624 TAGTTCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 14 0.58
13 10 0.42
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:94633 original size:13 final size:13
Alignment explanation
Indices: 94592--94653 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
94582 TTTTATAGTT
*
94592 TATACATAGTTTA
1 TATATATAGTTTA
*
94605 CATATATAGTTTA
1 TATATATAGTTTA
94618 TATATATAGTTCATA
1 TATATATAGTT--TA
* * *
94633 TAAACATAATTTA
1 TATATATAGTTTA
94646 TATATATA
1 TATATATA
94654 ACTTATAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 29 0.74
15 10 0.26
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (13 bp):
TATATATAGTTTA
Found at i:94634 original size:11 final size:13
Alignment explanation
Indices: 94585--94628 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
94575 TATATACTTT
94585 TATAGTTT--ATA
1 TATAGTTTACATA
*
94596 CATAGTTTACATA
1 TATAGTTTACATA
*
94609 TATAGTTTATATA
1 TATAGTTTACATA
94622 TATAGTT
1 TATAGTT
94629 CATATAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 7 0.25
13 21 0.75
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (13 bp):
TATAGTTTACATA
Found at i:99301 original size:31 final size:30
Alignment explanation
Indices: 99263--99340 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
99253 CGTCCCCAAC
*
99263 AGGTCGCCATGCATTCCCCAAC-ACCCCTACA
1 AGGTCGCCATGCACTCCCCAACGA--CCTACA
** *
99294 AGGTCGCCAAACACT-CCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCCAACGACCTACA
99323 AGGTCGCCATGCACTCCC
1 AGGTCGCCATGCACTCCC
99341 AGTGACCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 19 0.49
30 7 0.18
31 13 0.33
ACGTcount: A:0.26, C:0.44, G:0.17, T:0.14
Consensus pattern (30 bp):
AGGTCGCCATGCACTCCCCAACGACCTACA
Found at i:99355 original size:29 final size:29
Alignment explanation
Indices: 99288--99369 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
99278 CCCCAACACC
*
99288 CCTACAAGGTCGCCAAACACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
* *
99317 CCTACAAGGTCGCCATGCACTCCCAGTGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*** *
99346 CCTTGTAGGTCGCCAAGCAGTCCC
1 CCTACAAGGTCGCCAAGCACTCCC
99370 GGCGGCGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.16
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCAGCGA
Found at i:99411 original size:18 final size:19
Alignment explanation
Indices: 99388--99426 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
99378 CCAAGCTTCA
*
99388 CGTGCTCCCCT-TTGCTCC
1 CGTGCTCCCCTCCTGCTCC
99406 CGTGCTCCCCTCCTGCTCC
1 CGTGCTCCCCTCCTGCTCC
99425 CG
1 CG
99427 CTGCATGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.00, C:0.54, G:0.18, T:0.28
Consensus pattern (19 bp):
CGTGCTCCCCTCCTGCTCC
Found at i:99583 original size:33 final size:33
Alignment explanation
Indices: 99546--99612 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
99536 CAATTGCACA
*
99546 ATTATTGGTGAAATAATTGAGGCAGCCGGTGAC
1 ATTATTGGTGAAATAATTAAGGCAGCCGGTGAC
99579 ATTATTGGTGAAATAATTAAGGCAGCCGGTGAC
1 ATTATTGGTGAAATAATTAAGGCAGCCGGTGAC
99612 A
1 A
99613 CCTAAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (33 bp):
ATTATTGGTGAAATAATTAAGGCAGCCGGTGAC
Found at i:99695 original size:26 final size:26
Alignment explanation
Indices: 99658--99715 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
99648 ACATAAAAGA
* *
99658 AAGAAAGTGAGAAGAGATTGCAGCAG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
*
99684 AAGAAAGGGAGAAGAAATTGCAGCCG
1 AAGAAAGGGAGAAGAAATTGCAGCAG
99710 -AGAAAG
1 AAGAAAG
99716 AAAGAAAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.48, C:0.09, G:0.34, T:0.09
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAAATTGCAGCAG
Found at i:99737 original size:13 final size:13
Alignment explanation
Indices: 99714--99760 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
99704 CAGCCGAGAA
99714 AGAAA-GAAAGGG
1 AGAAAGGAAAGGG
*
99726 AGAAAGGAAAGGA
1 AGAAAGGAAAGGG
*
99739 AGAAGAAGAAAGGG
1 AGAA-AGGAAAGGG
99753 AGATAAGG
1 AGA-AAGG
99761 CTCTTGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 5 0.18
13 10 0.36
14 12 0.43
15 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.02
Consensus pattern (13 bp):
AGAAAGGAAAGGG
Found at i:99885 original size:22 final size:21
Alignment explanation
Indices: 99860--99900 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
99850 GTTAATTAGT
*
99860 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
99882 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
99901 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:100231 original size:16 final size:16
Alignment explanation
Indices: 100199--100245 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
100189 TTTAAAAAGT
*
100199 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
100215 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
100231 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
100246 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:100240 original size:15 final size:14
Alignment explanation
Indices: 100220--100250 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
100210 GTTTATTAGT
100220 TTATTATATTATAAG
1 TTATTATATTA-AAG
100235 TTATTATATTAAAG
1 TTATTATATTAAAG
100249 TT
1 TT
100251 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:102449 original size:46 final size:46
Alignment explanation
Indices: 102397--102511 Score: 194
Period size: 49 Copynumber: 2.4 Consensus size: 46
102387 ATTACTATCA
*
102397 AATCATTACTAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAAAAATTAATAATAATTTCATTATTACT
102443 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTAC--T-AAATCATTAAAAATTAATAATAATTTCATTATTACT
102492 AATCATTACTAAATCATTAA
1 AATCATTACTAAATCATTAA
102512 TATCAAATCA
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
46 19 0.29
47 1 0.02
48 1 0.02
49 44 0.68
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (46 bp):
AATCATTACTAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:102507 original size:60 final size:60
Alignment explanation
Indices: 102437--102622 Score: 338
Period size: 60 Copynumber: 3.1 Consensus size: 60
102427 TAATTTCATT
*
102437 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
102496 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
102556 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAAAAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
102616 ATTACTA
1 ATTACTA
102623 TCAAATCATT
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 6 0.05
60 116 0.95
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:102510 original size:21 final size:21
Alignment explanation
Indices: 102486--102573 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
102476 TAATTTCATT
102486 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
102507 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
102528 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
102546 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
102567 ATTACTA
1 ATTACTA
102574 TCAAATCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
20 6 0.12
21 20 0.40
22 10 0.20
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:102585 original size:169 final size:169
Alignment explanation
Indices: 102382--102912 Score: 863
Period size: 169 Copynumber: 3.2 Consensus size: 169
102372 TTCAAGTCGT
102382 TAATCATTACTATCAAATCATTAC--T-AAATCATTAAATATTAATAATAATTTCATTATTACTA
1 TAATCATTAC--T-AAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTA
102444 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCAT
63 ATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCAT
102509 TAATATCAAATCATTAAATATTAATAATAATTTCATTATTAC
128 TAATATCAAATCATTAAATATTAATAATAATTTCATTATTAC
*
102551 TAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAAAAATTTCATTATTACTAATC
1 TAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * * *
102616 ATTACTATCAAATCATTAAATATTAATAACAATTTTATTATTACTAATCATTACTAAATCATTAC
66 ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAA
* * *
102681 GATCAAATCATTAAATACTAATAACAATTTCATTATTAC
131 TATCAAATCATTAAATATTAATAATAATTTCATTATTAC
*
102720 TAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 TAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
102785 ATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-ATTACTAAATCATTAA
66 ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAA
102840 TATCAAATCATTAAATATTAATAATAATTTCATTATTAC
131 TATCAAATCATTAAATATTAATAATAATTTCATTATTAC
102879 TAATCATTACTAAATCATTACTATCAAATCATTA
1 TAATCATTACTAAATCATTACTATCAAATCATTA
102913 TTATTAAATC
Statistics
Matches: 341, Mismatches: 18, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
159 84 0.25
160 1 0.00
162 1 0.00
163 1 0.00
166 10 0.03
167 1 0.00
168 1 0.00
169 242 0.71
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (169 bp):
TAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAA
TATCAAATCATTAAATATTAATAATAATTTCATTATTAC
Found at i:102675 original size:46 final size:48
Alignment explanation
Indices: 102556--102679 Score: 189
Period size: 49 Copynumber: 2.6 Consensus size: 48
102546 ATTACTAATC
102556 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAAAAATTTCATT
1 ATTACT-AATCATTAC-ATCAAATCATTAAATATTAATAAAAATTTCATT
* *
102606 ATTACTAATCATTACTATCAAATCATTAAATATTAATAACAATTTTATT
1 ATTACTAATCATTAC-ATCAAATCATTAAATATTAATAAAAATTTCATT
102655 ATTACTAATCATTAC-T-AAATCATTA
1 ATTACTAATCATTACATCAAATCATTA
102680 CGATCAAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 9 0.12
47 1 0.01
49 56 0.78
50 6 0.08
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (48 bp):
ATTACTAATCATTACATCAAATCATTAAATATTAATAAAAATTTCATT
Found at i:102676 original size:60 final size:60
Alignment explanation
Indices: 102606--102791 Score: 320
Period size: 60 Copynumber: 3.1 Consensus size: 60
102596 AAATTTCATT
*
102606 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAACAATTTTATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
* *
102665 ATTACTAAATCATTACGATCAAATCATTAAATACTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
* *
102725 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
102785 ATTACTA
1 ATTACTA
102792 TCAAATCATT
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
59 6 0.05
60 113 0.95
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
Found at i:102822 original size:22 final size:22
Alignment explanation
Indices: 102797--102874 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
102787 TACTATCAAA
102797 TCATTAAAAATTAATAATAATT
1 TCATTAAAAATTAATAATAATT
* * **
102819 TCATTATTACTAAATCATTAATATCAAA
1 TCATTA--A--AAATTAATAATA--ATT
*
102847 TCATTAAATATTAATAATAATT
1 TCATTAAAAATTAATAATAATT
102869 TCATTA
1 TCATTA
102875 TTACTAATCA
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
22 13 0.32
24 10 0.24
26 11 0.27
28 7 0.17
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TCATTAAAAATTAATAATAATT
Found at i:102838 original size:50 final size:49
Alignment explanation
Indices: 102725--102887 Score: 290
Period size: 49 Copynumber: 3.3 Consensus size: 49
102715 ATTACTAATC
102725 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
* *
102775 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
102824 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
102874 ATTACTAATCATTA
1 ATTACTAATCATTA
102888 CTAAATCATT
Statistics
Matches: 108, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 55 0.51
50 53 0.49
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:102891 original size:109 final size:109
Alignment explanation
Indices: 102407--102912 Score: 604
Period size: 109 Copynumber: 4.6 Consensus size: 109
102397 AATCATTACT
102407 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCATTA--A--AA
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC--T-AAATCATTACTATCAA
* * * * * * *
102468 ATTAATAATAATT--TCATTATTACTAATCATTACTAAATCATTAATATC
63 ATCATTAAAAATTAATAATAATT--TCATTATTACT-AATCATTAATATC
102516 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
* * *
102581 ATTAAATATTAATAAAAATTTCATTATTACTAATCATTACTATC
66 ATTAAAAATTAATAATAATTTCATTATTACTAATCATTAATATC
* * *
102625 AAATCATTAAATATTAATAACAATTTTATTATTACTAATCATTACTAAATCATTACGATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
* * * *
102690 ATTAAATACTAATAACAATTTCATTATTACTAATCATT-A-CT-
66 ATTAAAAATTAATAATAATTTCATTATTACTAATCATTAATATC
* * * * * *
102731 AAATCATT-AATATCAAATCATTAA-AT-ATTAATAATAATTTCATTATTACTAATCATTACTAT
1 AAATCATTAAATAT-TAAT-AATAATTTCATTATTACTAA--TCATTACTA--AATCATTACTAT
102793 CAAATCATTAAAAATTAATAATAATTTCATTATTACTAAATCATTAATATC
60 CAAATCATTAAAAATTAATAATAATTTCATTATTACT-AATCATTAATATC
102844 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
1 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
102909 ATTA
66 ATTA
102913 TTATTAAATC
Statistics
Matches: 343, Mismatches: 35, Indels: 37
0.83 0.08 0.09
Matches are distributed among these distances:
105 14 0.04
106 21 0.06
107 13 0.04
108 1 0.00
109 200 0.58
110 49 0.14
111 1 0.00
112 18 0.05
113 12 0.03
114 14 0.04
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (109 bp):
AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
ATTAAAAATTAATAATAATTTCATTATTACTAATCATTAATATC
Found at i:102964 original size:26 final size:26
Alignment explanation
Indices: 102871--103191 Score: 221
Period size: 26 Copynumber: 12.8 Consensus size: 26
102861 TAATAATTTC
* * *
102871 ATTATTACT-AATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
102895 ATTACTATCAAATCATTATTATTAA--
1 ATTATTATTAAATCATTATTA-TAATG
* *
102920 ATCATTATTATAATGATTATTATAATG
1 ATTATTATTA-AATCATTATTATAATG
*
102947 ATTATTATTAAATCATTATCATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
102973 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
102998 ATCAAATCATT-AA--A-TATT-TAA--
1 AT--TATTATTAAATCATTATTATAATG
*
103019 ATCATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
103045 ATTATTACTAAATTATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
103071 ATTATTATCAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * * *
103097 ATTATTATCATATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
103122 ATCAAATATTAAATTCATTATTA-AAT-
1 AT-TATTATTAAA-TCATTATTATAATG
103148 -TTATTATTAAATC---ATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
103170 ATTATTATCAAATAATTTTTAT
1 ATTATTATTAAATCATTATTAT
103192 GGTTAATTGA
Statistics
Matches: 233, Mismatches: 40, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
19 5 0.02
20 6 0.03
21 5 0.02
22 1 0.00
23 22 0.09
24 18 0.08
25 31 0.13
26 119 0.51
27 26 0.11
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:103032 original size:124 final size:127
Alignment explanation
Indices: 102882--103165 Score: 400
Period size: 124 Copynumber: 2.2 Consensus size: 127
102872 TTATTACTAA
*
102882 TCATTACTAAATCATTACTATCAAATCATTATTATTAAATCATTATTA-T-AATGATTATTATAA
1 TCATTATTAAATCATTA-T-T-AAATCATTATTA-T-AATCATTATTACTAAATGATTATTATAA
*
102945 TGATTATTATTAAATCATTATCATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTA
61 TGATTATTATCAAATCATTATCATAATGATTATTATCAAATCATTACTAAATCATCAAAT-ATTA
103010 AA-
125 AAT
* *
103012 T-A-T-TTAAATCATTATTAAATCATTATTATAATGATTATTACTAAATTATTATTATAATGATT
1 TCATTATTAAATCATTATTAAATCATTATTATAATCATTATTACTAAATGATTATTATAATGATT
* *
103074 ATTATCAAATCATTATTATAATGATTATTATCATATCATTACTAAATCATCAAATATTAAAT
66 ATTATCAAATCATTATCATAATGATTATTATCAAATCATTACTAAATCATCAAATATTAAAT
*
103136 TCATTATTAAATTTATTATTAAATCATTAT
1 TCATTATTAAA-TCATTATTAAATCATTAT
103166 AATGATTATT
Statistics
Matches: 140, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
122 10 0.07
123 8 0.06
124 83 0.59
125 2 0.01
126 2 0.01
127 15 0.11
128 18 0.13
129 1 0.01
130 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (127 bp):
TCATTATTAAATCATTATTAAATCATTATTATAATCATTATTACTAAATGATTATTATAATGATT
ATTATCAAATCATTATCATAATGATTATTATCAAATCATTACTAAATCATCAAATATTAAAT
Found at i:103381 original size:17 final size:18
Alignment explanation
Indices: 103361--103395 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
103351 TATTAGTAAA
103361 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
103378 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
103396 ACTAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:106450 original size:26 final size:27
Alignment explanation
Indices: 106413--106503 Score: 103
Period size: 26 Copynumber: 3.3 Consensus size: 27
106403 TGATTACTAA
*
106413 TATTACTAATAATGATTTAATAATTAT
1 TATTAATAATAATGATTTAATAATTAT
* *
106440 TATTAAT-ATAATGATTTGATATTTAAT
1 TATTAATAATAATGATTTAATAATT-AT
*
106467 GATTTAATAATAATATGATTTAATAATTAT
1 TA-TTAATAAT-A-ATGATTTAATAATTAT
106497 TATTAAT
1 TATTAAT
106504 CTCCCCCCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
26 15 0.29
27 9 0.17
28 5 0.10
29 7 0.13
30 4 0.08
31 12 0.23
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (27 bp):
TATTAATAATAATGATTTAATAATTAT
Found at i:106573 original size:41 final size:42
Alignment explanation
Indices: 106511--106595 Score: 154
Period size: 41 Copynumber: 2.0 Consensus size: 42
106501 AATCTCCCCC
*
106511 CCATGCGTGCATGCCCGATCTCCCCCCCATGCACACACAGCT
1 CCATGCGTGCATGCCCAATCTCCCCCCCATGCACACACAGCT
106553 CCAT-CGTGCATGCCCAATCTCCCCCCCATGCACACACAGCT
1 CCATGCGTGCATGCCCAATCTCCCCCCCATGCACACACAGCT
106594 CC
1 CC
106596 CGTTCCTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.20, C:0.49, G:0.14, T:0.16
Consensus pattern (42 bp):
CCATGCGTGCATGCCCAATCTCCCCCCCATGCACACACAGCT
Found at i:106641 original size:29 final size:29
Alignment explanation
Indices: 106599--106694 Score: 165
Period size: 29 Copynumber: 3.3 Consensus size: 29
106589 CAGCTCCCGT
106599 TCCTTGGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGTTGGGCGTGCATGGCGACC
106628 TCCTTGGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGTTGGGCGTGCATGGCGACC
* *
106657 TCTTTCGTCGTTGGGCGTGCATGGCGACC
1 TCCTTGGTCGTTGGGCGTGCATGGCGACC
*
106686 TCTTTGGTC
1 TCCTTGGTC
106695 ACTGTAGAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.06, C:0.27, G:0.35, T:0.31
Consensus pattern (29 bp):
TCCTTGGTCGTTGGGCGTGCATGGCGACC
Found at i:120781 original size:17 final size:16
Alignment explanation
Indices: 120750--120783 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
120740 CACGTGAGGA
120750 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
120766 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
120783 T
1 T
120784 ACTGTTTTTG
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:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:121511 original size:95 final size:94
Alignment explanation
Indices: 121339--121534 Score: 268
Period size: 95 Copynumber: 2.1 Consensus size: 94
121329 TATAATATTA
* * ** * * *
121339 TATATATATAATAAAGCTTTAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGACTTTATGGA
1 TATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATAGA
* *
121404 TAATATTCAGCTAACCTGATAAAGGTGAT
66 TAAGATTCAGCTAACCTGATAAAGGTCAT
*
121433 TATACTATACAATAAAGCTTGAACTGTCCCTCTA-AGGCAATTGGTTAAACACCCCGGCTTTATA
1 TATA-TATACAATAAAGCTTGAACTGTCCCTCTAGA-GCAATTGGTTAAACACCCCGACTTTATA
121497 GATAAGATTCAGCTAACCTGATAAAGGTCAT
64 GATAAGATTCAGCTAACCTGATAAAGGTCAT
*
121528 TACATAT
1 TATATAT
121535 TGATCTGTCC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
94 8 0.09
95 81 0.91
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATAGA
TAAGATTCAGCTAACCTGATAAAGGTCAT
Found at i:122902 original size:12 final size:12
Alignment explanation
Indices: 122885--122929 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
122875 AAGGGGCTTC
122885 CCAATTTCAGAG
1 CCAATTTCAGAG
122897 CCAATTTCAGAG
1 CCAATTTCAGAG
*
122909 CTAATTTCAGAG
1 CCAATTTCAGAG
122921 CCAATTTCA
1 CCAATTTCA
122930 ACTTCACAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (12 bp):
CCAATTTCAGAG
Found at i:123115 original size:110 final size:111
Alignment explanation
Indices: 122912--123116 Score: 313
Period size: 110 Copynumber: 1.9 Consensus size: 111
122902 TTCAGAGCTA
* *
122912 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGATAACACAAGCTCAACTT
1 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTT
*
122977 CACAACGAAGGGGCGGATGATTATCAACAAACAACTTTTTAGTTTC
66 CACAACGAAGGGGCGGATGACTATCAACAAACAACTTTTTAGTTTC
* *
123023 ATTT-AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAGCACAAGCTCAACTT
1 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTT
* * * * *
123087 CAGAGCGAAGGGGTGGCTGACTGTCAACAA
66 CACAACGAAGGGGCGGATGACTATCAACAA
123117 GCAATTTCCC
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
110 80 0.95
111 4 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (111 bp):
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTT
CACAACGAAGGGGCGGATGACTATCAACAAACAACTTTTTAGTTTC
Found at i:123697 original size:36 final size:36
Alignment explanation
Indices: 123645--123759 Score: 158
Period size: 36 Copynumber: 3.2 Consensus size: 36
123635 TAATTTACAG
123645 AAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTT
1 AAAACAAA-TTTTGTCTCTCTTGAGATAGTTTCTCTT
* * *
123682 AAAACAAATTTTGTCTCTCTTGAGACATTTTCTCGT
1 AAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTT
* * *
123718 AAAACAAATTTTGTCTCTCTTGAAATGGTTTCCCTT
1 AAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTT
*
123754 GAAACA
1 AAAACA
123760 TAAACTTTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 60 0.88
37 8 0.12
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTT
Found at i:123839 original size:37 final size:36
Alignment explanation
Indices: 123784--123915 Score: 201
Period size: 36 Copynumber: 3.6 Consensus size: 36
123774 GTTTTCCTTG
* **
123784 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTA
1 AAAC-AAATTTTGTCTCTCTTGAGACATTTTCTCGTA
*
123821 GAACTAAATTTTGTCTCTCTTGAGACATTTTCTCGTA
1 AAAC-AAATTTTGTCTCTCTTGAGACATTTTCTCGTA
*
123858 AAACAAATTTTGTCTCTCTTGAGACATTTTCCCGTA
1 AAACAAATTTTGTCTCTCTTGAGACATTTTCTCGTA
123894 AAACAAATTTTGTCTCTCTTGA
1 AAACAAATTTTGTCTCTCTTGA
123916 AACAAAATCT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 53 0.60
37 35 0.40
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACATTTTCTCGTA
Found at i:124087 original size:102 final size:102
Alignment explanation
Indices: 123911--124125 Score: 331
Period size: 102 Copynumber: 2.1 Consensus size: 102
123901 TTTTGTCTCT
*
123911 CTTGAAACAAAATCTCTGAATCTGTTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCT
1 CTTGAAACAAAATCTCTGAATATGTTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCT
*
123976 TTTGGAACTAAATTTGGTCTCTCTTGAGATAGTTTCC
66 TTTGGAACTAAATTTGGTCTCTCTTGAGACAGTTTCC
* * * * *
124013 CTTGAAACAAAATCTTTGAATATGTTTTTCTTTAAACAAATTTCGTCTCTCTTGAGACAGTTTCT
1 CTTGAAACAAAATCTCTGAATATGTTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCT
* * *
124078 TTTGGAACTAAGTTTTGTCTCTCTTGAGACATTTTCC
66 TTTGGAACTAAATTTGGTCTCTCTTGAGACAGTTTCC
*
124115 CTTAAAACAAA
1 CTTGAAACAAA
124126 GTTTTGTCTC
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (102 bp):
CTTGAAACAAAATCTCTGAATATGTTTTCCTTGAAACAAATTGCGTCTCCCTTGAGACAGTTTCT
TTTGGAACTAAATTTGGTCTCTCTTGAGACAGTTTCC
Found at i:124100 original size:37 final size:37
Alignment explanation
Indices: 124036--124157 Score: 147
Period size: 37 Copynumber: 3.3 Consensus size: 37
124026 CTTTGAATAT
* * *
124036 GTTTTTCTTTAAACAAA-TTTCGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACA
* ** *
124072 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACA
* * *
124109 TTTTCCCTTAAAACAAAGTTTTGTCTCTCTTAAGACA
1 GTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACA
124146 GTTTCTCTTAAA
1 GTTTCTCTTAAA
124158 GCACCAATCT
Statistics
Matches: 70, Mismatches: 15, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (37 bp):
GTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGACA
Found at i:124180 original size:30 final size:31
Alignment explanation
Indices: 124146--124226 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
124136 TCTTAAGACA
* * * *
124146 GTTTCTCTTAAAGCACCAATC-TTTGAAATT
1 GTTTCTCTTAAAACACAAAACATTTGAAAAT
124176 GTTTCTCTTAAAACACAAAACATTTGAAAAT
1 GTTTCTCTTAAAACACAAAACATTTGAAAAT
*
124207 GTTTCTCTTGAAACATCAAA
1 GTTTCTCTTAAAACA-CAAA
124227 CCTTCGAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 18 0.41
31 22 0.50
32 4 0.09
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.36
Consensus pattern (31 bp):
GTTTCTCTTAAAACACAAAACATTTGAAAAT
Found at i:125806 original size:3 final size:3
Alignment explanation
Indices: 125788--125835 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
125778 TCCCTTATAT
125788 TTA TGTA TTAA TTA TTA TTA TTA TTA TT- TT- TTA TTA TTA TATA TTA
1 TTA T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
125834 TT
1 TT
125836 TTGTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 28 0.68
4 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:125821 original size:19 final size:20
Alignment explanation
Indices: 125799--125849 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
125789 TATGTATTAA
125799 TTATTATTAT-TATTATTTT
1 TTATTATTATATATTATTTT
125818 TTATTATTATATATTATTTT
1 TTATTATTATATATTATTTT
125838 GTT-TTA-TATATA
1 -TTATTATTATATA
125850 CACATCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 16 0.53
20 12 0.40
21 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTATTATATATTATTTT
Found at i:125834 original size:13 final size:12
Alignment explanation
Indices: 125788--125835 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
125778 TCCCTTATAT
125788 TTATGTATTAATTA
1 TTAT-TATT-ATTA
125802 TTATTATTATTA
1 TTATTATTATTA
125814 TT-TT-TTATTA
1 TTATTATTATTA
125824 TTATATATTATT
1 TTAT-TATTATT
125836 TTGTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.26
11 3 0.10
12 7 0.23
13 9 0.29
14 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:126054 original size:2 final size:2
Alignment explanation
Indices: 126047--126086 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
126037 TATTACCATC
126047 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
126087 TCTATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127369 original size:57 final size:57
Alignment explanation
Indices: 127306--128022 Score: 1002
Period size: 57 Copynumber: 12.7 Consensus size: 57
127296 GTGCAAAATA
* ** * *
127306 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACTCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
127363 TAAGAAATCATACTAAGTGTATGAATTTTAGATAGGGCGTTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
*
127420 TAAGAAATCATACTAAGTGTATGAATTTTAGATAGGGCATTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
127477 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGCGTTTCGTAAGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * * * *
127534 TAAGAAATCATACTAAGTATATGAATTTCAGATAGAGCATTTTGTATGCTATAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
127591 TAAGAAATCATACTAAATGTATGAATTTCAGATAGGGCA---C--A--ATAAAAT-A
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
127640 TAAGAAACCATACTAAGTGTATGAATTTCATATAGGGC-TTTACGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTT-CGTACGCTAAAATGT
* *
127697 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * *
127754 TAAGAAATCATACTAAGTGTATGAATTTTAGATAGGGCATTTTGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * * *
127811 TAAGAAATAATACTAAGTGTATGAATTTTAAATAGGGCTTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* *
127868 TAAGAAATCATACTAAGTGTATGAATTTCATATAGGGCATTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
* * * * *
127925 AAAGAAATCATACTAAGTGTATGAATTTCATATAGGGCGTTTCGTAAGCTAAAATGA
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
127982 TAAGGAAATCATACTAAGTGTATGAATTTACAGATAGGGCA
1 TAA-GAAATCATACTAAGTGTATGAATTT-CAGATAGGGCA
128023 CTATTAGAGT
Statistics
Matches: 590, Mismatches: 58, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
49 35 0.06
50 5 0.01
52 2 0.00
54 1 0.00
56 6 0.01
57 504 0.85
58 28 0.05
59 9 0.02
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCGTACGCTAAAATGT
Found at i:129147 original size:90 final size:90
Alignment explanation
Indices: 129026--129203 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
129016 TAATCCCAAA
* * * *
129026 TATTTAATTTTAATTAATTAAATACATATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCTAATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
129091 TAGGGTAACCTGGATATAAAAGGAT
66 TAGGGTAACCTGGATATAAAAGGAT
*
129116 TATTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCTAATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
* *
129181 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACCTGGATATAAAAGG
129204 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTCTAATTAATTAAATACAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGGTAACCTGGATATAAAAGGAT
Found at i:130147 original size:68 final size:68
Alignment explanation
Indices: 130012--130147 Score: 155
Period size: 68 Copynumber: 2.0 Consensus size: 68
130002 AGATCAAGAA
* * * ** *
130012 GCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAATTATATGAAAGACTAAGTGTCTTT
1 GCCTAACTGGGCATATGACAGAAATGTGTCAATTATGCCAATTAGATGAAAGACTAAGTACCGTT
130077 GAG
66 GAG
* * * * * **
130080 GCCTAGCTGGGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCGTT
1 GCCTAACTGGGCATATGACAGAAATGTGTCAATTATGCCAATTAGATGAAAGACTAAGTACCGTT
130145 GAG
66 GAG
130148 AAAAAGAATA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
GCCTAACTGGGCATATGACAGAAATGTGTCAATTATGCCAATTAGATGAAAGACTAAGTACCGTT
GAG
Found at i:130413 original size:45 final size:45
Alignment explanation
Indices: 130319--130419 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
130309 GAAAATATGT
* * * ** * *
130319 CATAAATGAAATGTATAATAGTGTATCAAAGGTATGAAATGATGC
1 CATAAATGAAAGGTATAATAGTGAATAAAAGACATGAAAGGATGA
*
130364 CATAAATGAAAGGTATAATAGTGAATAAAAGACATGTAAGGATGA
1 CATAAATGAAAGGTATAATAGTGAATAAAAGACATGAAAGGATGA
*
130409 CATAATTGAAA
1 CATAAATGAAA
130420 TGCATGTAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (45 bp):
CATAAATGAAAGGTATAATAGTGAATAAAAGACATGAAAGGATGA
Found at i:131662 original size:13 final size:13
Alignment explanation
Indices: 131641--131676 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
131631 TCGTACGGTC
*
131641 TATTCTTTATTAT
1 TATTATTTATTAT
*
131654 TATTTTTTATTAT
1 TATTATTTATTAT
131667 TATTATTTAT
1 TATTATTTAT
131677 GCATTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:144344 original size:42 final size:42
Alignment explanation
Indices: 144297--144380 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
144287 TTTCAAAGTC
* *
144297 TAAAATCCAAGGTAACAATCCACAAATATATTAAAATAATAA
1 TAAAATCCAAGATAACAATCCACAAATACATTAAAATAATAA
144339 TAAAATCCAAGATAACAATCCACAAATACATTAAAATAATAA
1 TAAAATCCAAGATAACAATCCACAAATACATTAAAATAATAA
144381 ATAGGGTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (42 bp):
TAAAATCCAAGATAACAATCCACAAATACATTAAAATAATAA
Found at i:145442 original size:24 final size:24
Alignment explanation
Indices: 145410--145458 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
145400 AAAAATTCAA
145410 GTTAATTGATAGTCGGCCTATCAT
1 GTTAATTGATAGTCGGCCTATCAT
145434 GTTAATTGATAGTCGGCCTATCAT
1 GTTAATTGATAGTCGGCCTATCAT
145458 G
1 G
145459 ATATCTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (24 bp):
GTTAATTGATAGTCGGCCTATCAT
Found at i:146692 original size:18 final size:18
Alignment explanation
Indices: 146669--146705 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
146659 CTTCCTTGCA
*
146669 GTGTATATGTATGAATAT
1 GTGTATATGCATGAATAT
*
146687 GTGTATATGCATTAATAT
1 GTGTATATGCATGAATAT
146705 G
1 G
146706 AAGGATTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (18 bp):
GTGTATATGCATGAATAT
Found at i:147781 original size:16 final size:16
Alignment explanation
Indices: 147761--147795 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
147751 TTCATAAATT
*
147761 TAAAAATT-TATAAAA
1 TAAAAATTATAAAAAA
147776 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
147792 TAAA
1 TAAA
147796 GTGACATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATTATAAAAAA
Found at i:149229 original size:30 final size:29
Alignment explanation
Indices: 149195--149285 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 29
149185 AAATTTTAGA
149195 TAGTGACCAAAATGCAAAATTTTGAAAGTT
1 TAGTGACCAAAATG-AAAATTTTGAAAGTT
149225 TAGTGACCAAAGTAT-AAAA-TTTGAAAAGGTT
1 TAGTGACCAAA--ATGAAAATTTTG-AAA-GTT
* * *
149256 TAGGGACCAAAATGGAAATTTTAAAAGTT
1 TAGTGACCAAAATGAAAATTTTGAAAGTT
149285 T
1 T
149286 CAATTTGGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
29 10 0.19
30 24 0.46
31 16 0.31
32 2 0.04
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.30
Consensus pattern (29 bp):
TAGTGACCAAAATGAAAATTTTGAAAGTT
Found at i:151787 original size:20 final size:21
Alignment explanation
Indices: 151750--151789 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
151740 TATGATATAT
151750 ATATATATATATATGTTTTAA
1 ATATATATATATATGTTTTAA
151771 ATATCATATA-ATA-GTTTTA
1 ATAT-ATATATATATGTTTTA
151790 CTTGATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
ATATATATATATATGTTTTAA
Found at i:156969 original size:42 final size:42
Alignment explanation
Indices: 156878--157373 Score: 433
Period size: 42 Copynumber: 11.6 Consensus size: 42
156868 TCGCTAAAGT
* * * * * *
156878 TAGCGGCGTTTGTGAAAAAAAAGGCCGCAATAGGTCGAAATCTA
1 TAGCGGCGTTTTTG-GAACAAACGCCGCAAAAGGTC-AGATCTA
* ** *
156922 TAGCGGCGTTTTTGGAGA-AAATGCCATAAAAGGTCGGATCTA
1 TAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAGATCTA
* *
156964 TAGCGGTGTTTTTCGGAACAAACGCCGCAATAGGTC-GATCTCTA
1 TAGCGGCGTTTTT-GGAACAAACGCCGCAAAAGGTCAGA--TCTA
* * *
157008 TAGCGGGGTTTTTGGAACAAACGTCGCAATAGGTCGAGATCTA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTA
* * * *
157051 TAGCGGTGTTTTTAGAGA-AAACGCCGTAAAATGTCAGATCTA
1 TAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAGATCTA
* * *
157093 TAGTGGCGTTTTTGGAGCAAACGCCGTAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTA
* ** * * *
157135 TAGCGG-GGTTTTGGAACAAACGTTGTAGAAGGTCGAGATATA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTA
*
157177 TAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTA
** * *
157219 TAGCGATGCTTTTGGAACAAACGCCGCAAAAGATCAGATCTA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTA
* * * * *
157261 TAGCGGCGTTTTTTGAACAAACACTGCAGAAGGTCGAGATATA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTA
* ** * * * ** *
157304 TAGCGACGTTTAAGGAATAAATGCCGTAAAATTTTAGATCTA
1 TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTA
*
157346 TAGCGGCGTTTTTGGATGCAAACGCCGC
1 TAGCGGCGTTTTTGGA-ACAAACGCCGC
157374 TAATTACCGT
Statistics
Matches: 364, Mismatches: 75, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
41 23 0.06
42 169 0.46
43 139 0.38
44 31 0.09
45 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTA
Found at i:157185 original size:84 final size:85
Alignment explanation
Indices: 156901--157373 Score: 454
Period size: 85 Copynumber: 5.6 Consensus size: 85
156891 GAAAAAAAAG
* * * ** *
156901 GCCGCAATAGGTCGAAATCTATAGCGGCGTTTTTGGAGA-AAATGCCATAAAAGGTCGGATCTAT
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAGATCTAT
156965 AGCGGTGTTTTTCGGAACAAAC
65 AGCGGTGTTTTT-GGAACAAAC
* ** * * *
156987 GCCGCAATAGGTCGATCTCTATAGCGGGGTTTTTGGAACAAACGTCGCAATAGGTCGAGATCTAT
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTAT
*
157052 AGCGGTGTTTTTAGAGA-AAAC
65 AGCGGTGTTTTTGGA-ACAAAC
* * * * *
157073 GCCGTAAAATGTC-AGATCTATAGTGGCGTTTTTGGAGCAAACGCCGTAAAAGGTCAGATCTATA
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATA
*
157137 GCGG-GGTTTTGGAACAAAC
66 GCGGTGTTTTTGGAACAAAC
** * * * *
157156 GTTGTAGAAGGTCGAGATATATAGCGGCGTTTTTTGAACAAACGCCGCAAAAGGTCAGATCTATA
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATA
* *
157221 GCGATGCTTTTGGAACAAAC
66 GCGGTGTTTTTGGAACAAAC
* * * * * *
157241 GCCGCAAAAGATC-AGATCTATAGCGGCGTTTTTTGAACAAACACTGCAGAAGGTCGAGATATAT
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AGATCTAT
** ** * *
157305 AGCGACGTTTAAGGAATAAAT
65 AGCGGTGTTTTTGGAACAAAC
* * ** *
157326 GCCGTAAAA-TTTTAGATCTATAGCGGCGTTTTTGGATGCAAACGCCGC
1 GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
157374 TAATTACCGT
Statistics
Matches: 321, Mismatches: 57, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
82 1 0.00
83 20 0.06
84 101 0.31
85 109 0.34
86 70 0.22
87 20 0.06
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (85 bp):
GCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAGATCTATA
GCGGTGTTTTTGGAACAAAC
Found at i:161149 original size:41 final size:41
Alignment explanation
Indices: 161096--161317 Score: 284
Period size: 41 Copynumber: 5.4 Consensus size: 41
161086 TTTTAAACAC
*
161096 AAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAATGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * * * * * *
161137 AAATTCCGCTAAAGAACGTATTTATAACGGCGTTTGAATAA
1 AAATGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
*
161178 AAATGCCATTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
1 AAATGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
* * *
161219 AAACT-CCACTAAAGTACGTGTCTTTAGTGGCATTTGTATAA
1 AAA-TGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
*
161260 AAATGCCTCTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
1 AAATGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
** *
161301 AAACACCGCTAAAGTAC
1 AAATGCCACTAAAGTAC
161318 TACTCTTTTC
Statistics
Matches: 152, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 150 0.99
42 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (41 bp):
AAATGCCACTAAAGTACGTGTCTATAGCGGCGTTTGTATAA
Found at i:161336 original size:82 final size:82
Alignment explanation
Indices: 161096--161385 Score: 320
Period size: 82 Copynumber: 3.5 Consensus size: 82
161086 TTTTAAACAC
* * * *
161096 AAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATTCCGCTAAAGAACGTAT-TT
1 AAATGCCTCTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACTCCGCTAAAGTACGTATCTT
* *
161160 ATAACGGCGTTTGAATAA
66 -TAACGGCATTTGTATAA
* *
161178 AAATGCCAT-TAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACTCCACTAAAGTACGTGTCT
1 AAATGCC-TCTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACTCCGCTAAAGTACGTATCT
**
161242 TTAGTGGCATTTGTATAA
65 TTAACGGCATTTGTATAA
*
161260 AAATGCCTCTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACACCGCTAAAGTAC-TACTCT
1 AAATGCCTCTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACTCCGCTAAAGTACGTA-TCT
** **
161324 TTTCCGATATTTGTATAAA
65 TTAACGGCATTTGTAT-AA
* * * * *
161343 AAACGCCGCTAAAGTAC-TACTCTGTTGCGGCGTTTGT-TAAAAA
1 AAATGCCTCTAAAGTACGT-GTCTATAGCGGCGTTTGTATAAAAA
161386 TGCCATAATA
Statistics
Matches: 179, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
81 2 0.01
82 143 0.80
83 34 0.19
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (82 bp):
AAATGCCTCTAAAGTACGTGTCTATAGCGGCGTTTGTATAAAAACTCCGCTAAAGTACGTATCTT
TAACGGCATTTGTATAA
Found at i:161337 original size:123 final size:124
Alignment explanation
Indices: 161100--161389 Score: 289
Period size: 123 Copynumber: 2.4 Consensus size: 124
161090 AAACACAAAT
* * *
161100 GCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATTCCGCTAAAGAACGTATTTATAAC
1 GCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAATGCCGCTAAAGAACGTATCTATAAC
** * * * * *
161165 GGCGTTTGAATAAAAATGCCATTAAAGTACGTGTCTATAGCGGCGTTTGTAT-AAAAAC
66 GGCGTTTGAATAAAAACACCACTAAAGTACGTCTCTATACCGACATTTGTATAAAAAAC
* * * * * * * *
161223 TCCACTAAAGTACGTGTCTTTAGTGGCATTTGTATAAAAATGCCTCTAAAGTACGTGTCTATAGC
1 GCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAATGCCGCTAAAGAACGTATCTATAAC
* * * * *
161288 GGCGTTTGTATAAAAACACCGCTAAAGTAC-TACTCTTTTCCGATATTTGTATAAAAAAC
66 GGCGTTTGAATAAAAACACCACTAAAGTACGT-CTCTATACCGACATTTGTATAAAAAAC
* * * * * *
161347 GCCGCTAAAGTACTACTCTGTTGCGGCGTTTGT-TAAAAATGCC
1 GCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAATGCC
161390 ATAATATATG
Statistics
Matches: 133, Mismatches: 32, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
122 1 0.01
123 102 0.77
124 30 0.23
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (124 bp):
GCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAATGCCGCTAAAGAACGTATCTATAAC
GGCGTTTGAATAAAAACACCACTAAAGTACGTCTCTATACCGACATTTGTATAAAAAAC
Found at i:161384 original size:41 final size:41
Alignment explanation
Indices: 161286--161385 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
161276 CGTGTCTATA
*
161286 GCGGCGTTTG-TATAAAAACACCGCTAAAGTACTACTCTTTT
1 GCGGCGTTTGTTA-AAAAACACCGCTAAAGTACTACTCTGTT
* *** *
161327 CCGATATTTGTATAAAAAACGCCGCTAAAGTACTACTCTGTT
1 GCGGCGTTTGT-TAAAAAACACCGCTAAAGTACTACTCTGTT
161369 GCGGCGTTTGTTAAAAA
1 GCGGCGTTTGTTAAAAA
161386 TGCCATAATA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
41 12 0.26
42 33 0.70
43 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (41 bp):
GCGGCGTTTGTTAAAAAACACCGCTAAAGTACTACTCTGTT
Found at i:161519 original size:40 final size:40
Alignment explanation
Indices: 161451--161553 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
161441 TACTATGTTA
* *
161451 CGGCGTTTGTTTAAAAAATGCCATTATGGATGAACATATTG
1 CGGCGTTTGTAT-AAAAACGCCATTATGGATGAACATATTG
*
161492 CGGCGTTTGTATAAAAACGCCATTATGGATGAACCTATTG
1 CGGCGTTTGTATAAAAACGCCATTATGGATGAACATATTG
161532 CGGCGTTTGTATAAAAACGCCA
1 CGGCGTTTGTATAAAAACGCCA
161554 CTAAAGTACT
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
40 48 0.81
41 11 0.19
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (40 bp):
CGGCGTTTGTATAAAAACGCCATTATGGATGAACATATTG
Done.