Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006958.1 Hibiscus syriacus cultivar Beakdansim tig00017892_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: 169735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1586 original size:29 final size:29
Alignment explanation
Indices: 1552--1639 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
1542 GTACCAGGAG
* *
1552 TACATAATTTCAGAAGTTTAACCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
1581 TACATAATTTCAGAAGCTTAGCCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
*
1610 TACATAATTTCAGAAGCTTGGCCTTAAGC
1 TACATAATTTCAGAAGCTTAGCCTTAAGC
1639 T
1 T
1640 TGGATATACC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (29 bp):
TACATAATTTCAGAAGCTTAGCCTTAAGC
Found at i:8501 original size:24 final size:24
Alignment explanation
Indices: 8470--8555 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
8460 GATATCAAAA
8470 ATCA-AACAGAATTCAGAACATAT
1 ATCAGAACAGAATTCAGAACATAT
* *
8493 ATCAGAACAGAATCCA-AATCATAA
1 ATCAGAACAGAATTCAGAA-CATAT
**
8517 ATCAGAACAGAATTCAGGTCATAT
1 ATCAGAACAGAATTCAGAACATAT
8541 ATCAGAACA-AATTCA
1 ATCAGAACAGAATTCA
8556 AGTCAGAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.22
24 42 0.78
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGAACATAT
Found at i:8527 original size:48 final size:47
Alignment explanation
Indices: 8463--8569 Score: 144
Period size: 47 Copynumber: 2.3 Consensus size: 47
8453 AAACGGAGAT
8463 ATCAAAAATCA-AACAGAATTCAGAACATATATCAGAACAGAATCCAA
1 ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACA-AATCCAA
* ** *
8510 ATCATAAATCAGAACAGAATTCAGGTCATATATCAGAACAAATTCAA
1 ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACAAATCCAA
* *
8557 GTCAGAAATCAGA
1 ATCAAAAATCAGA
8570 TAAAATATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 27 0.51
48 26 0.49
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.20
Consensus pattern (47 bp):
ATCAAAAATCAGAACAGAATTCAGAACATATATCAGAACAAATCCAA
Found at i:8575 original size:23 final size:23
Alignment explanation
Indices: 8493--8569 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 23
8483 CAGAACATAT
* * *
8493 ATCAGAACAGAATCCAAATCATAA
1 ATCAGAACA-AATTCAAGTCAGAA
* * *
8517 ATCAGAACAGAATTCAGGTCATAT
1 ATCAGAACA-AATTCAAGTCAGAA
8541 ATCAGAACAAATTCAAGTCAGAA
1 ATCAGAACAAATTCAAGTCAGAA
8564 ATCAGA
1 ATCAGA
8570 TAAAATATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.49, C:0.18, G:0.13, T:0.19
Consensus pattern (23 bp):
ATCAGAACAAATTCAAGTCAGAA
Found at i:12724 original size:12 final size:12
Alignment explanation
Indices: 12699--12816 Score: 105
Period size: 12 Copynumber: 9.8 Consensus size: 12
12689 ACGGAGATAT
* *
12699 CAGAAATCAAAA
1 CAGAATTCAGAA
12711 CAGAATTCAGAA
1 CAGAATTCAGAA
12723 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
12735 CAGAATCCAGAT
1 CAGAATTCAGAA
*
12747 CAGAAATCAGAA
1 CAGAATTCAGAA
**
12759 CAGAATTCAGGT
1 CAGAATTCAGAA
*
12771 CA-TATATCAGAA
1 CAGAAT-TCAGAA
* *
12783 CAGAATCCAGAT
1 CAGAATTCAGAA
*
12795 CAGAAATCAGAA
1 CAGAATTCAGAA
12807 CAGAATTCAG
1 CAGAATTCAG
12817 GTCATATATC
Statistics
Matches: 82, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
11 4 0.05
12 74 0.90
13 4 0.05
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:12726 original size:24 final size:24
Alignment explanation
Indices: 12697--12853 Score: 190
Period size: 24 Copynumber: 6.5 Consensus size: 24
12687 AAACGGAGAT
*
12697 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
12721 AACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
12745 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
12769 GTCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
12793 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * * *
12817 GTCATATATCAGAACAAAATTCA-
1 ATCAGAAATCAGAACAGAATTCAG
12840 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
12854 TAAAATATTT
Statistics
Matches: 110, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
24 110 1.00
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:12768 original size:48 final size:48
Alignment explanation
Indices: 12697--12853 Score: 244
Period size: 48 Copynumber: 3.3 Consensus size: 48
12687 AAACGGAGAT
* ** *
12697 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAGAATCCAG
12745 ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAGAATCCAG
* *
12793 ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAAAATTCA-
1 ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAGAATCCAG
12840 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
12854 TAAAATATTT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 1 0.01
48 101 0.99
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGGTCATATATCAGAACAGAATCCAG
Found at i:22546 original size:22 final size:21
Alignment explanation
Indices: 22521--22563 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
22511 AACCTCTTCA
22521 TCTTTCTCTCCTCTCACTTCTT
1 TCTTTCTCTCCTCTC-CTTCTT
* *
22543 TCTTTCTTTCTTCTCCTTCTT
1 TCTTTCTCTCCTCTCCTTCTT
22564 CCTCTACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.60
Consensus pattern (21 bp):
TCTTTCTCTCCTCTCCTTCTT
Found at i:25389 original size:2 final size:2
Alignment explanation
Indices: 25384--25434 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
25374 GATATATATA
25384 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
25426 TG TG TG TG T
1 TG TG TG TG T
25435 TATTGATATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:26322 original size:32 final size:32
Alignment explanation
Indices: 26281--26436 Score: 156
Period size: 32 Copynumber: 4.9 Consensus size: 32
26271 AGTCGAGGGT
*
26281 TTACCTATGTTCTACGGAACATATGGACAAAA
1 TTACCTATGTTCTTCGGAACATATGGACAAAA
* * *
26313 TTACCTATG-TCTTTCGGGACATATGAACAGAA
1 TTACCTATGTTC-TTCGGAACATATGGACAAAA
* * *
26345 TTACCTATGTTTTTCGGGACATATGGACAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAAAA
** *
26377 TTACCTATG-TCTTTTGAGACATATGGACAATA
1 TTACCTATGTTCTTCGGA-ACATATGGACAAAA
* **
26409 -TACCTATGTTATAAGGAACATATGGACA
1 TTACCTATGTTCTTCGGAACATATGGACA
26437 GTTACCTAGG
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
31 25 0.24
32 78 0.75
33 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTTCGGAACATATGGACAAAA
Found at i:26367 original size:64 final size:62
Alignment explanation
Indices: 26281--26462 Score: 206
Period size: 64 Copynumber: 2.9 Consensus size: 62
26271 AGTCGAGGGT
* *
26281 TTACCTATGTTCTACGGAACATATGGACAAAATTACCTATGTCTTTCGGGACATATGAACAGAA
1 TTACCTATGTTATACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGAAC--AA
* * * * * *
26345 TTACCTATGTTTTTCGGGACATATGGACAGAATTACCTATGTCTTTTGAGACATATGGACAA
1 TTACCTATGTTATACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGAACAA
* * * * *
26407 TATACCTATGTTATAAGGAACATATGGAC--AGTTACCTAGGTTTTTCGAGACCTATG
1 T-TACCTATGTTATACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATG
26463 GATAGTTGTC
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
61 22 0.22
62 3 0.03
63 23 0.23
64 53 0.52
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (62 bp):
TTACCTATGTTATACGGAACATATGGACAAAATTACCTATGTCTTTCGAGACATATGAACAA
Found at i:29400 original size:74 final size:74
Alignment explanation
Indices: 29248--29645 Score: 634
Period size: 74 Copynumber: 5.5 Consensus size: 74
29238 CTTCTGGAAA
* * *
29248 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAA-TTTTCTCAAGCGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
29312 G------TT
66 GAAACAATT
* *
29315 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
29380 GAAACAATT
66 GAAACAATT
** *
29389 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAATTTTTTCTCAAGTGG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
29454 GAAACAATT
66 GAAACAATT
*
29463 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAC-TTTCTCAAGCGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
29527 GAAA-AAGTT
66 GAAACAA-TT
29536 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
29601 GAAACAATT
66 GAAACAATT
*
29610 TGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
29646 TTTAAAAACA
Statistics
Matches: 305, Mismatches: 16, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
67 47 0.15
68 13 0.04
72 2 0.01
73 68 0.22
74 173 0.57
75 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (74 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
GAAACAATT
Found at i:29568 original size:147 final size:147
Alignment explanation
Indices: 29248--29645 Score: 632
Period size: 147 Copynumber: 2.7 Consensus size: 147
29238 CTTCTGGAAA
* * *
29248 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAATTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGTGAG
*
29313 ------TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTTC
66 AAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTC
*
29372 TCAAGTGAGAAACAATT
131 TCAAGCGAGAAACAATT
* *
29389 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAATTTTTTCTCAAGTGG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAA-ATTTTCTCAAGTGA
*
29454 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAAC-TTT
65 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTT
29518 CTCAAGCGAGAAA-AAGTT
130 CTCAAGCGAGAAACAA-TT
29536 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTCTCAAGTGA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAA-TTTTCTCAAGTGA
*
29601 GAAACAATTTGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
65 GAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
29646 TTTAAAAACA
Statistics
Matches: 237, Mismatches: 11, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
141 48 0.20
142 12 0.05
146 2 0.01
147 123 0.52
148 52 0.22
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (147 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAATTTTCTCAAGTGAG
AAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTC
TCAAGCGAGAAACAATT
Found at i:29630 original size:221 final size:215
Alignment explanation
Indices: 29248--29645 Score: 688
Period size: 221 Copynumber: 1.8 Consensus size: 215
29238 CTTCTGGAAA
* *
29248 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTACTTCGAGTGAAATTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGCGAG
*
29313 TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTTCTCAAGT
66 TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGT
29378 GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAATTTT
131 GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAATTTT
29443 TTCTCAAGTGGGAAACAATT
196 TTCTCAAGTGGGAAACAATT
*
29463 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGC--G
*
29528 AAAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTTC
64 ----AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTC
*
29593 TCAAGTGAGAAACAATTTGTTTTAAGAAAATCAATCTCAAGTGAGATAAATTG
125 TCAAGTGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
29646 TTTAAAAACA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
215 59 0.35
217 1 0.01
221 111 0.65
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (215 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTACTTCGAGTGAAACTTTCTCAAGCGAG
TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTTCTCAAGT
GAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAATTTT
TTCTCAAGTGGGAAACAATT
Found at i:32397 original size:9 final size:9
Alignment explanation
Indices: 32383--32464 Score: 78
Period size: 9 Copynumber: 8.9 Consensus size: 9
32373 ATTCAATTTC
32383 TTTTTTCTT
1 TTTTTTCTT
32392 TTTTTTC--
1 TTTTTTCTT
*
32399 TTTTCTCTT
1 TTTTTTCTT
* *
32408 TCTTTTCTC
1 TTTTTTCTT
*
32417 TTTTCTCTT
1 TTTTTTCTT
32426 TTTTTTCTTT
1 TTTTTTC-TT
32436 TTTTTCATCTGT
1 TTTTT--TCT-T
32448 TTTTTTCTT
1 TTTTTTCTT
32457 TTTTTTCT
1 TTTTTTCT
32465 GATGAATGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.10
9 34 0.58
10 10 0.17
11 1 0.02
12 8 0.14
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:32408 original size:23 final size:23
Alignment explanation
Indices: 32381--32464 Score: 79
Period size: 22 Copynumber: 3.8 Consensus size: 23
32371 TGATTCAATT
32381 TCTTTTTTCTTTTTTTTCTT-T-
1 TCTTTTTTCTTTTTTTTCTTCTC
* *
32402 TC-TCTTTCTTTTCTCTT-TTCTC
1 TCTTTTTTCTTTT-TTTTCTTCTC
* * *
32424 TTTTTTTTCTTTTTTTTCATCTG
1 TCTTTTTTCTTTTTTTTCTTCTC
32447 T-TTTTTTCTTTTTTTTCT
1 TCTTTTTTCTTTTTTTTCT
32465 GATGAATGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 11 0.22
21 6 0.12
22 20 0.40
23 13 0.26
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (23 bp):
TCTTTTTTCTTTTTTTTCTTCTC
Found at i:32409 original size:27 final size:26
Alignment explanation
Indices: 32379--32464 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
32369 CTTGATTCAA
32379 TTTCTTTTTTCTTTTTTTTCTTTTCTC
1 TTTCTTTTTTCTTTTTTTTCTTTT-TC
*
32406 TTTCTTTTCTCTTTTCTCTTT-TTTTTC
1 TTTCTTTTTTCTTTT-T-TTTCTTTTTC
32433 TTT-TTTTTCATCTGTTTTTTTCTTTTT-
1 TTTCTTTTT--TCT-TTTTTTTCTTTTTC
32460 TTTCT
1 TTTCT
32465 GATGAATGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
26 4 0.08
27 25 0.50
28 15 0.30
29 6 0.12
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (26 bp):
TTTCTTTTTTCTTTTTTTTCTTTTTC
Found at i:32460 original size:7 final size:7
Alignment explanation
Indices: 32379--32429 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
32369 CTTGATTCAA
32379 TTTCTTT
1 TTTCTTT
32386 TTTCTTT
1 TTTCTTT
32393 TTT-TTCT
1 TTTCTT-T
*
32400 TTTC-TC
1 TTTCTTT
32406 TTTCTTT
1 TTTCTTT
*
32413 TCTCTTT
1 TTTCTTT
*
32420 TCTCTTT
1 TTTCTTT
32427 TTT
1 TTT
32430 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 6 0.16
7 31 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:35048 original size:12 final size:13
Alignment explanation
Indices: 34960--35051 Score: 55
Period size: 14 Copynumber: 6.8 Consensus size: 13
34950 TTATGAAAAG
34960 ATGCAAATG-AAA
1 ATGCAAATGCAAA
* *
34972 ATGTAAATAC-AA
1 ATGCAAATGCAAA
*
34984 ATGTAAAAGTGCAAA
1 ATG-CAAA-TGCAAA
34999 GATGCAAATGCAAA
1 -ATGCAAATGCAAA
** *
35013 TATAAAAATGTAGAA
1 -ATGCAAATGCA-AA
35028 ATGCAAAATG-AAA
1 ATGC-AAATGCAAA
35041 ATGCAAATGCA
1 ATGCAAATGCA
35052 TGTATGAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
12 17 0.28
13 10 0.16
14 19 0.31
15 12 0.20
16 3 0.05
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (13 bp):
ATGCAAATGCAAA
Found at i:38855 original size:134 final size:134
Alignment explanation
Indices: 38599--39177 Score: 745
Period size: 134 Copynumber: 4.3 Consensus size: 134
38589 CAACTCTATA
* * *
38599 TGTGAT-GAATCGAGC-AAGAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
1 TGTGATAGAATCGAGCTAA-AAGTTAACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAA
* * * *
38662 ATAAAAATGTCGATCCACTTCCTTCTGTGATGGAAATCGAATGATATGTCAATGTTGATCTACCT
65 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCT
38727 CATTC
130 CATTC
* *
38732 TGTGATAGAATCGATCTAAAAGTTAACGCTGATCCAACTCCTTCTGTGATGAATTTGAGCGAAAA
1 TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAAA
* * * *
38797 TAAAAATGTCAATCCACCTCATTCTGTGATGGAAATCGAACGATATGTTGATGCTGATCTCCCTC
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
*
38862 CTTC
131 ATTC
* * * *
38866 TGTGATATAATCGAGCTAAAAGTTAACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAA
1 TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAAA
* * * * *
38931 TAAAAATGTCGATCCACCTCCTTATGTGATGGAAATCGAACGATATATCGACGCTAATCTACCTT
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
38996 ATTC
131 ATTC
* * *
39000 TGTGATAGAATCGAGTTAAAAGTTAACACTGATCCAACTCCTTCTGCGAT-AGATTTGAGTGAAA
1 TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGA-ATTTGAGCGAAA
* * * * * *
39064 AT-AAAATGACGATCCCACCTCCTTCTGTGATGG-AATCGAACAAGATGTTGGTGTTGATCTACC
65 ATAAAAATGTCGAT-CCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACC
*
39127 TCCTTC
129 TCATTC
* * * * * *
39133 TGTGATAGAAACGAGCAAAAAGTTGATGTTAATCCAACTCCTTCT
1 TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCT
39178 CATTTTGTGA
Statistics
Matches: 385, Mismatches: 57, Indels: 8
0.86 0.13 0.02
Matches are distributed among these distances:
133 79 0.21
134 304 0.79
135 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (134 bp):
TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGAATTTGAGCGAAAA
TAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
ATTC
Found at i:39084 original size:268 final size:266
Alignment explanation
Indices: 38599--39177 Score: 824
Period size: 268 Copynumber: 2.2 Consensus size: 266
38589 CAACTCTATA
* *
38599 TGTGAT-GAATCGAGCAAGAAGTTGACGCTAATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCAA-AAGTTGACGTTAATCCAACTCCTTCTGCGATGGATTTGAGCAAAAA
* * * * * * *
38663 TAAAAATGTCGATCCACTTCCTTCTGTGATGGAAATCGAATGATATGTCAATGTTGATCTACCTC
65 TAAAAATGTCGATCCACCTCCTTATGTGATGGAAATCGAACGATATATCAACGCTAATCTACCTC
* *
38728 ATTCTGTGATAGAATCGATCTAAAAGTTAACGCTGATCCAACTCCTTCTGTGATGAATTTGAGCG
130 ATTCTGTGATAGAATCGATCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATGAATTTGAGCG
* * * *
38793 AAAATAAAAATGTCAATCCACCTCATTCTGTGATGGAAATCGAACGATATGTTGATGCTGATCTC
195 AAAATAAAAATGACAATCCACCTCATTCTGTGATGG-AATCGAACAAGATGTTGATGCTGATCTA
38858 CCTCCTTC
259 CCTCCTTC
* * *
38866 TGTGATATAATCGAGCTAAAAGTTAACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAA
1 TGTGATAGAATCGAGC-AAAAGTTGACGTTAATCCAACTCCTTCTGCGATGGATTTGAGCAAAAA
* *
38931 TAAAAATGTCGATCCACCTCCTTATGTGATGGAAATCGAACGATATATCGACGCTAATCTACCTT
65 TAAAAATGTCGATCCACCTCCTTATGTGATGGAAATCGAACGATATATCAACGCTAATCTACCTC
38996 ATTCTGTGATAGAATCGAGT-TAAAAGTTAACACTGATCCAACTCCTTCTGCGAT-AGATTTGAG
130 ATTCTGTGATAGAATCGA-TCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATGA-ATTTGAG
* * * * *
39059 TGAAAAT-AAAATGACGATCCCACCTCCTTCTGTGATGGAATCGAACAAGATGTTGGTGTTGATC
193 CGAAAATAAAAATGACAAT-CCACCTCATTCTGTGATGGAATCGAACAAGATGTTGATGCTGATC
39123 TACCTCCTTC
257 TACCTCCTTC
* *
39133 TGTGATAGAAACGAGCAAAAAGTTGATGTTAATCCAACTCCTTCT
1 TGTGATAGAATCGAGC-AAAAGTTGACGTTAATCCAACTCCTTCT
39178 CATTTTGTGA
Statistics
Matches: 276, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
267 86 0.31
268 187 0.68
269 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (266 bp):
TGTGATAGAATCGAGCAAAAGTTGACGTTAATCCAACTCCTTCTGCGATGGATTTGAGCAAAAAT
AAAAATGTCGATCCACCTCCTTATGTGATGGAAATCGAACGATATATCAACGCTAATCTACCTCA
TTCTGTGATAGAATCGATCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATGAATTTGAGCGA
AAATAAAAATGACAATCCACCTCATTCTGTGATGGAATCGAACAAGATGTTGATGCTGATCTACC
TCCTTC
Found at i:39174 original size:44 final size:44
Alignment explanation
Indices: 39082--39177 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
39072 ACGATCCCAC
* * * * * * * *
39082 CTCCTTCTGTGATGGAATCGAACAAGATGTTGGTGTTGATCTAC
1 CTCCTTCTGTGATAGAAACGAACAAAAAGTTGATGTTAATCCAA
*
39126 CTCCTTCTGTGATAGAAACGAGCAAAAAGTTGATGTTAATCCAA
1 CTCCTTCTGTGATAGAAACGAACAAAAAGTTGATGTTAATCCAA
39170 CTCCTTCT
1 CTCCTTCT
39178 CATTTTGTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CTCCTTCTGTGATAGAAACGAACAAAAAGTTGATGTTAATCCAA
Found at i:39217 original size:183 final size:179
Alignment explanation
Indices: 39000--39337 Score: 471
Period size: 179 Copynumber: 1.9 Consensus size: 179
38990 TACCTTATTC
* *
39000 TGTGATAGAATCGAGTTAAAAGTTAACACTGATCCAACTCCTTCTGCGATAGATTTGAGTGAAAA
1 TGTGATAGAATCGAGCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATAGATTTGAGCG--AA
*
39065 TAAAATGACGATCCCACCTCCTTCTGTGATGGAATCGAAC-AAGATGTTGGTGTTGATCTACCTC
64 -AAAATGACGAT-CCACCTCCTTCTGTGATGGAATCGAACGAA-ATGTTGGTGCTGATCTACCTC
*
39129 CTTCTGTGATAGAAACGAGCAAAAAGTTGATGTTAATCCAACTCCTTCTCATTT
126 CTTCTGTGATAGAAACAAGCAAAAAGTTGATGTTAATCCAACTCCTTCTCATTT
* * * * *
39183 TGTGATAGAATCGAGCTAAAAGTTTACGCTGATCCAACTTCTTCTGCGATTGATTTGAGCGAACA
1 TGTGATAGAATCGAGCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATAGATTTGAGCGAAAA
* * * * * *
39248 AATGTCGATCCACCTCTTTCTGTGATGGAATCGAGCGAAATGTTGGTGCTGATTTACCTCTTTTT
66 AATGACGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTTGGTGCTGATCTACCTCCTTCT
* *
39313 GTGATAGAATCAAGCAAATAGTTGA
131 GTGATAGAAACAAGCAAAAAGTTGA
39338 AAAATCTCTT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
179 69 0.50
180 11 0.08
181 2 0.01
183 55 0.40
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (179 bp):
TGTGATAGAATCGAGCTAAAAGTTAACACTGATCCAACTCCTTCTGCGATAGATTTGAGCGAAAA
AATGACGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGTTGGTGCTGATCTACCTCCTTCT
GTGATAGAAACAAGCAAAAAGTTGATGTTAATCCAACTCCTTCTCATTT
Found at i:39218 original size:50 final size:50
Alignment explanation
Indices: 39133--39227 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
39123 TACCTCCTTC
* *
39133 TGTGATAGAAACGAGCAAAAAGTTGATGTTAATCCAACTCCTTCTCATTT
1 TGTGATAGAAACGAGCAAAAAGTTGACGCTAATCCAACTCCTTCTCATTT
* * * * *
39183 TGTGATAGAATCGAGCTAAAAGTTTACGCTGATCCAACTTCTTCT
1 TGTGATAGAAACGAGCAAAAAGTTGACGCTAATCCAACTCCTTCT
39228 GCGATTGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (50 bp):
TGTGATAGAAACGAGCAAAAAGTTGACGCTAATCCAACTCCTTCTCATTT
Found at i:39797 original size:65 final size:67
Alignment explanation
Indices: 39683--39909 Score: 207
Period size: 65 Copynumber: 3.4 Consensus size: 67
39673 TTTCAGGGCA
* ** * * *
39683 AAACTGTCTCAAGCGAGATGAAATTTGTTCCAAGGGAAACAATCTCAAAG-GTTGGTGCTTCAAG
1 AAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCGCAAAGAGTTGGTGCTTCAAG
39747 AG
66 AG
* * * *
39749 -AACTGTCTCAAGAGAGACAAAACATGTTTCAAGGGAAATC-ATCGCAAAGATTTTGTGTTTCAA
1 AAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAA-CAATCGCAAAGAGTTGGTGCTTCAA
39812 GAG
65 GAG
* * * * * * **
39815 AAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGA-CTC--AGACTT-TTGTTTTG
1 AAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGGGAAACA-ATCGCAAAGAGTTGGTGCTTCA
39876 AGAG
64 AGAG
*
39880 AAACTGTCTCAAAAGAGACAAAACTTGTTT
1 AAACTGTCTCAAGAGAGACAAAACTTGTTT
39910 TGAGTAAAAA
Statistics
Matches: 135, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
64 6 0.04
65 71 0.53
66 19 0.14
67 23 0.17
68 15 0.11
69 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (67 bp):
AAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGGGAAACAATCGCAAAGAGTTGGTGCTTCAAG
AG
Found at i:39870 original size:67 final size:65
Alignment explanation
Indices: 39741--39909 Score: 202
Period size: 67 Copynumber: 2.6 Consensus size: 65
39731 AGGTTGGTGC
* *
39741 TTCAAGAG-AACTGTCTCAAGAGAGACAAAACATGTTTCAAGGGAAATCATCGCAAAGATTTTGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAATCA-CGCAAAGATTTTGT
39805 GT
65 -T
* **
39807 TTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAA-CA-GACTCAGACTTTT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTCAAGAGAAATCACG-CAAAGA-TTTT
39870 GTT
63 GTT
* *
39873 TT-GAGAGAAACTGTCTCAAAAGAGACAAAACTTGTTT
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTT
39910 TGAGTAAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
64 6 0.07
65 27 0.30
66 15 0.16
67 30 0.33
68 13 0.14
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (65 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAGAAATCACGCAAAGATTTTGTT
Found at i:40139 original size:90 final size:90
Alignment explanation
Indices: 39986--40244 Score: 412
Period size: 90 Copynumber: 2.9 Consensus size: 90
39976 AACCATGCTT
* * *
39986 AGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGTTCTTATAGATGGCCCGAAGGACTTA
1 AGTTTCTAAAATCTCATTTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
40051 CAAATCAAGAAACCACCGAAGGCTC
66 CAAATCAAGAAACCACCGAAGGCTC
* *
40076 AGTTTCTAAAATCTCATTTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCTGAATGACTTA
1 AGTTTCTAAAATCTCATTTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
* *
40141 CAAATCAAGAAACCCCCGAAGGCTT
66 CAAATCAAGAAACCACCGAAGGCTC
* *
40166 AATTTCTAAAATCTCATTTGAAAACAT-CATGCACTGAAGGTCTTATGGATTGCCCGAAGGACTT
1 AGTTTCTAAAATCTCATTTGAAAACATCCA-GCACTGAAGGTCTTATGGATGGCCCGAAGGACTT
*
40230 AAAAATCAAGAAACC
65 ACAAATCAAGAAACC
40245 TTCAAAGACT
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
89 2 0.01
90 154 0.99
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (90 bp):
AGTTTCTAAAATCTCATTTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCCGAAGGACTTA
CAAATCAAGAAACCACCGAAGGCTC
Found at i:40298 original size:16 final size:16
Alignment explanation
Indices: 40279--40311 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
40269 AACATCATGC
40279 ACTGAAGGCCTTATGG
1 ACTGAAGGCCTTATGG
40295 ACTGAAGGCCTTATGG
1 ACTGAAGGCCTTATGG
40311 A
1 A
40312 TGGCCCGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (16 bp):
ACTGAAGGCCTTATGG
Found at i:42338 original size:10 final size:10
Alignment explanation
Indices: 42323--42381 Score: 59
Period size: 10 Copynumber: 5.7 Consensus size: 10
42313 TCATCTCTCT
42323 TTTTTTTTTC
1 TTTTTTTTTC
42333 TTTTTTTTTC
1 TTTTTTTTTC
42343 TTTTTTCTATT-
1 TTTTTT-T-TTC
42354 TTTTTTTATT-
1 TTTTTTT-TTC
*
42364 TTCCTTTTTTC
1 TT-TTTTTTTC
42375 TTTTTTT
1 TTTTTTT
42382 CTCTGTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 28 0.65
11 13 0.30
12 2 0.05
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:42348 original size:17 final size:16
Alignment explanation
Indices: 42322--42383 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
42312 TTCATCTCTC
42322 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
42338 TTTTCTTTTTTCTATTTT
1 TTTT-TTTTTTCT-TTTT
* *
42356 TTTTTATTTTCCTTTT
1 TTTTTTTTTTCTTTTT
*
42372 TTCTTTTTTTCT
1 TTTTTTTTTTCT
42384 CTGTGTTATC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 17 0.44
17 14 0.36
18 8 0.21
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTT
Found at i:42358 original size:32 final size:32
Alignment explanation
Indices: 42295--42380 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
42285 ATCGGGTCTA
* ** *
42295 TTTTCTTTCTTCTTTCTTTCATCTCTCTTTTTT
1 TTTTCTTT-TTTTTTCTTTTTTCTATCTTTTTT
42328 TTTTCTTTTTTTTTCTTTTTTCTAT-TTTTTT
1 TTTTCTTTTTTTTTCTTTTTTCTATCTTTTTT
*
42359 TTATT-TTCCTTTTTTCTTTTTT
1 TT-TTCTT-TTTTTTTCTTTTTT
42381 TCTCTGTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.22
32 28 0.61
33 8 0.17
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTCTTTTTTTTTCTTTTTTCTATCTTTTTT
Found at i:49394 original size:20 final size:20
Alignment explanation
Indices: 49369--49413 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
49359 GGAAAAATAT
49369 ATTAAAATAATTTTTATAAA
1 ATTAAAATAATTTTTATAAA
49389 ATTAAAATAATTTTTATAAA
1 ATTAAAATAATTTTTATAAA
49409 ATTAA
1 ATTAA
49414 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTAAAATAATTTTTATAAA
Found at i:49996 original size:30 final size:29
Alignment explanation
Indices: 49917--49997 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
49907 TATTAATAGT
* *
49917 AAATTAATAATAATTAATTATAAGGGATTA
1 AAATTAA-AATAATAAATTATAAGGGATAA
* * *
49947 AAATAAAAATTATTAAAATTATAGGGGATAAA
1 AAATTAAAA-TAAT-AAATTATAAGGGAT-AA
*
49979 AAATTAAAATACTAAATTA
1 AAATTAAAATAATAAATTA
49998 AAAATATTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 2 0.05
30 15 0.37
31 15 0.37
32 9 0.22
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (29 bp):
AAATTAAAATAATAAATTATAAGGGATAA
Found at i:50281 original size:18 final size:19
Alignment explanation
Indices: 50250--50287 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50240 GGCAGGGACT
* *
50250 ATAAGAATATAAAA-TAAA
1 ATAAGAAGAGAAAATTAAA
50268 ATAAGAAGAGAAAATTAAA
1 ATAAGAAGAGAAAATTAAA
50287 A
1 A
50288 GACATAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
ATAAGAAGAGAAAATTAAA
Found at i:50534 original size:26 final size:24
Alignment explanation
Indices: 50478--50534 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 24
50468 TTCCCTTATT
*
50478 TCTCTAAAAGAGAGATGGAAATTC
1 TCTCTAAAAGAGAGATGGAAATTA
50502 TCCCTCTAAAAGAGAGAGATGGAAATTA
1 T--CTCT-AAA-AGAGAGATGGAAATTA
50530 TCTCT
1 TCTCT
50535 GAACTCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 1 0.04
26 8 0.29
27 3 0.11
28 16 0.57
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (24 bp):
TCTCTAAAAGAGAGATGGAAATTA
Found at i:53468 original size:24 final size:24
Alignment explanation
Indices: 53429--53501 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
53419 AAACATAATT
* *
53429 CAGGTCAAGTAGCATATCAGAATC
1 CAGGTCAAGTATCATATCAAAATC
* * *
53453 CATGTCATGTATCATATAAAAATC
1 CAGGTCAAGTATCATATCAAAATC
53477 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
53501 C
1 C
53502 CGTCAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:53513 original size:23 final size:24
Alignment explanation
Indices: 53463--53519 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
53453 CATGTCATGT
* **
53463 ATCATATAAAAATCCAGGTCAAGT
1 ATCATATAAAAATCCACGTCAAAA
*
53487 ATCATATCAAAATCC-CGTCAAAA
1 ATCATATAAAAATCCACGTCAAAA
*
53510 ATCAGATAAA
1 ATCATATAAA
53520 CTATTCATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (24 bp):
ATCATATAAAAATCCACGTCAAAA
Found at i:54201 original size:29 final size:30
Alignment explanation
Indices: 54168--54240 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 30
54158 ATCAACAATT
54168 TTACGAAAATAAT-ACCCTTTTAAAAATAA
1 TTACGAAAATAATAACCCTTTTAAAAATAA
*
54197 TTACGAACGAA-AATAGCACCCTTTTAGAAATAA
1 TTACGAA--AATAATA--ACCCTTTTAAAAATAA
*
54230 TTACTAAAATA
1 TTACGAAAATA
54241 GCACCCGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
29 7 0.19
30 3 0.08
31 4 0.11
32 1 0.03
33 21 0.58
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
TTACGAAAATAATAACCCTTTTAAAAATAA
Found at i:54209 original size:33 final size:33
Alignment explanation
Indices: 54170--54233 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
54160 CAACAATTTT
*
54170 ACGAAAATAATACCCTTTTAAAAATAATTACGA
1 ACGAAAATAACACCCTTTTAAAAATAATTACGA
* *
54203 ACGAAAATAGCACCCTTTTAGAAATAATTAC
1 ACGAAAATAACACCCTTTTAAAAATAATTAC
54234 TAAAATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (33 bp):
ACGAAAATAACACCCTTTTAAAAATAATTACGA
Found at i:54278 original size:11 final size:12
Alignment explanation
Indices: 54253--54291 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
54243 ACCCGGTCAA
54253 CGGTCAATGGGT
1 CGGTCAATGGGT
54265 CGGTCAAT-GGT
1 CGGTCAATGGGT
*
54276 CGGGTCAACGGGT
1 C-GGTCAATGGGT
54289 CGG
1 CGG
54292 ATCGGGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.15, C:0.21, G:0.44, T:0.21
Consensus pattern (12 bp):
CGGTCAATGGGT
Found at i:54298 original size:18 final size:18
Alignment explanation
Indices: 54275--54319 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
54265 CGGTCAATGG
54275 TCGGGTCAACGGGTCGGA
1 TCGGGTCAACGGGTCGGA
* *
54293 TCGGGTCAATGGGTCGGG
1 TCGGGTCAACGGGTCGGA
*
54311 TCAGGTCAA
1 TCGGGTCAA
54320 ATCGGTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.42, T:0.20
Consensus pattern (18 bp):
TCGGGTCAACGGGTCGGA
Found at i:61329 original size:17 final size:17
Alignment explanation
Indices: 61307--61358 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
61297 CCATTTTACG
61307 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
**
61324 AAAATA--A---TTACA
1 AAAATAGCACCCTTTTA
61336 AAAATAGCACCCTTTTA
1 AAAATAGCACCCTTTTA
61353 AAAATA
1 AAAATA
61359 ATTACGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 9 0.35
14 1 0.04
15 1 0.04
17 15 0.58
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (17 bp):
AAAATAGCACCCTTTTA
Found at i:61344 original size:29 final size:29
Alignment explanation
Indices: 61302--61405 Score: 181
Period size: 29 Copynumber: 3.6 Consensus size: 29
61292 ATCAACCATT
61302 TTACGAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
61331 TTACAAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
61360 TTACGAAAATAGCACCCTTTTAGAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
61389 TTACTAAAATAGCACCC
1 TTACGAAAATAGCACCC
61406 GATCAACGGG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:68397 original size:15 final size:16
Alignment explanation
Indices: 68372--68402 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
68362 TGAGAAAATT
68372 TTAATTTTAATTTTAA
1 TTAATTTTAATTTTAA
68388 TTAA-TTTAATTTTAA
1 TTAATTTTAATTTTAA
68403 AATAACGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTTTAATTTTAA
Found at i:73117 original size:25 final size:24
Alignment explanation
Indices: 73068--73136 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
73058 TTAAATTCAT
*
73068 AATATTTTATATATATTAATT-TTA
1 AATATTTTTTA-ATATTAATTATTA
73092 AGA-ATTTTTTAATATTAACTTATTA
1 A-ATATTTTTTAATATTAA-TTATTA
* *
73117 AATATATTTTATTATTAATT
1 AATATTTTTTAATATTAATT
73137 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.18
24 13 0.34
25 18 0.47
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (24 bp):
AATATTTTTTAATATTAATTATTA
Found at i:73553 original size:18 final size:18
Alignment explanation
Indices: 73530--73564 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
73520 TACTAAGGCC
73530 ACTTAAT-ATATATATTAA
1 ACTTAATAAT-TATATTAA
73548 ACTTAATAATTATATTA
1 ACTTAATAATTATATTA
73565 TATAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
ACTTAATAATTATATTAA
Found at i:81284 original size:14 final size:14
Alignment explanation
Indices: 81265--81297 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
81255 CCTCCTTTGT
81265 TCTCTCTCTCTCGC
1 TCTCTCTCTCTCGC
81279 TCTCTCTCTCTCGC
1 TCTCTCTCTCTCGC
81293 TCTCT
1 TCTCT
81298 TATGACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.06, T:0.45
Consensus pattern (14 bp):
TCTCTCTCTCTCGC
Found at i:84159 original size:2 final size:2
Alignment explanation
Indices: 84154--84180 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84144 TTTTTAATTA
84154 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
84181 ATTTTCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87770 original size:16 final size:16
Alignment explanation
Indices: 87749--87782 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
87739 TTACTATTCA
*
87749 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
87765 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
87781 CG
1 CG
87783 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:95512 original size:20 final size:20
Alignment explanation
Indices: 95487--95528 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
95477 TGATCATTTA
*
95487 ACCAACGTTTTTCGTCATTG
1 ACCAACGTTTTCCGTCATTG
95507 ACCAACGTTTTCCGTCATTG
1 ACCAACGTTTTCCGTCATTG
95527 AC
1 AC
95529 GAGCAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (20 bp):
ACCAACGTTTTCCGTCATTG
Found at i:96847 original size:85 final size:85
Alignment explanation
Indices: 96758--96928 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
96748 TTGGGTTTAT
* * * *
96758 AAAAAGACCGATGATTAGTACTTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTA
1 AAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATATAGTTTACCCTTA
96823 AAATAAAATAGGTTAACTAC
66 AAATAAAATAGGTTAACTAC
96843 AAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATATAGTTTACCCTTA
1 AAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATATAGTTTACCCTTA
96908 AAATAAAATAGGTTAACTAC
66 AAATAAAATAGGTTAACTAC
96928 A
1 A
96929 GCCCTAGTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (85 bp):
AAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATATAGTTTACCCTTA
AAATAAAATAGGTTAACTAC
Found at i:96953 original size:233 final size:233
Alignment explanation
Indices: 96546--97308 Score: 1244
Period size: 233 Copynumber: 3.3 Consensus size: 233
96536 AAATTGATAT
* * *
96546 TTTATCCCTAAAACAAGAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
*
96611 AAAAAACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTAA
66 AAAAGACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTAA
* * *
96676 AATAAAATAGATTAACTACATCCTTAGTCTCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAAA
131 AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAAA
*
96741 TGATAATTTGGGTTTATAAAAAGACCGATGATTAGTAC
196 TGATATTTTGGGTTTATAAAAAGACCGATGATTAGTAC
*
96779 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATAGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
* *
96844 AAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTATATAGTTTACCCTTAA
66 AAAAGACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTAA
* * * * **
96909 AATAAAATAGGTTAACTACAGCCCTAGTCCCTAAAGTCTCTAAAGTTTTTGGAATTGAAATAAAA
131 AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAAA
* **
96974 TGATATTTTGGGTTT-TCTAAAAGACTAATGATTAGTAC
196 TGATATTTTGGGTTTAT-AAAAAGACCGATGATTAGTAC
*
97012 TTTATCCCTT-AAGCAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTAC
1 TTTAT-CCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTAC
* *
97076 AAAAAGACCGATGATTAGTATTTTATCCCTAAAATAAAAGTGATCATTTGTGTAGTTTACCCTTA
65 AAAAAGACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTA
* *
97141 AAATAAAATAGATTAACTACAAACCTAGTCCCTGAAG-GTCTAAAGTTTCTAAAATTGAAATAAA
130 AAATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAA
*
97205 ATGATATTTTGGGTTTACAAAAAGACCGATGATTAGTAC
195 ATGATATTTTGGGTTTATAAAAAGACCGATGATTAGTAC
*
97244 TTTATCCTTGAAACAAAATTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
1 TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
97309 TCCCTAGTCC
Statistics
Matches: 487, Mismatches: 39, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
231 4 0.01
232 116 0.24
233 363 0.75
234 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (233 bp):
TTTATCCTTGAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAAAATAAAATGGGTTAACTACA
AAAAGACCGATGATTAGTACTTTATCCCTAAAATAAAAGTGATCATTTGTATAGTTTACCCTTAA
AATAAAATAGATTAACTACAACCCTAGTCCCTGAAGTCTCTAAAGTTTCTAAAATTGAAATAAAA
TGATATTTTGGGTTTATAAAAAGACCGATGATTAGTAC
Found at i:97115 original size:85 final size:85
Alignment explanation
Indices: 96992--97163 Score: 272
Period size: 85 Copynumber: 2.0 Consensus size: 85
96982 TGGGTTTTCT
* * *
96992 AAAAGACTAATGATTAGTACTTTATCCCTTAAGCAAAAGTGATCATTTGTGTAGTTTACCCTTAA
1 AAAAGACCAATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
* *
97057 AATAAAATGGGTTAACTACA
66 AATAAAATAGATTAACTACA
* * *
97077 AAAAGACCGATGATTAGTATTTTATCCCTAAAATAAAAGTGATCATTTGTGTAGTTTACCCTTAA
1 AAAAGACCAATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
97142 AATAAAATAGATTAACTACA
66 AATAAAATAGATTAACTACA
97162 AA
1 AA
97164 CCTAGTCCCT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (85 bp):
AAAAGACCAATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCCTTAA
AATAAAATAGATTAACTACA
Found at i:97321 original size:147 final size:148
Alignment explanation
Indices: 97073--97348 Score: 446
Period size: 147 Copynumber: 1.9 Consensus size: 148
97063 ATGGGTTAAC
* *
97073 TACAAAAAGACCGATGATTAGTATTTTATCCCTAAAATAAAAGTGATCATTTGTGTAGTTTACCC
1 TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
* *
97138 TTAAAATAAAATAGATTAACTACAAACCTAGTCCCTGAAG-GTCTAAAGTTTCTAAAATTGAAAT
66 TTAAAATAAAATAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAATTTCTAAAATTGAAAT
97202 AAAATGATATTTTGGGTT
131 AAAATGATATTTTGGGTT
* * *
97220 TACAAAAAGACCGATGATTAGTACTTTATCCTTGAAACAAAATTGATCATTTGTGTAGTTTACCC
1 TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
* * **
97285 TTAAAATAAAATGGGTTAACTACATCCCTAGTCCCTGAAGTCTCTAAAATTTCTAAAATTGAAA
66 TTAAAATAAAATAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAATTTCTAAAATTGAAA
97349 ACTTTTGGAG
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
147 96 0.82
148 21 0.18
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (148 bp):
TACAAAAAGACCGATGATTAGTACTTTATCCCTAAAACAAAAGTGATCATTTGTGTAGTTTACCC
TTAAAATAAAATAGATTAACTACAAACCTAGTCCCTGAAGTCTCTAAAATTTCTAAAATTGAAAT
AAAATGATATTTTGGGTT
Found at i:115999 original size:19 final size:18
Alignment explanation
Indices: 115957--115999 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
115947 CAGTAATCCT
**
115957 ATTCCCTGGTAATCTTTT
1 ATTCCCTGGTAATCTTAC
115975 ATTTCCACTGGTAATCTTAC
1 A-TTCC-CTGGTAATCTTAC
115995 ATTCC
1 ATTCC
116000 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 8 0.38
20 12 0.57
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
ATTCCCTGGTAATCTTAC
Found at i:116392 original size:18 final size:18
Alignment explanation
Indices: 116369--116404 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
116359 CGTTGAATGG
*
116369 TTCAAAGGCTTTGTATGA
1 TTCAAAGGCTCTGTATGA
116387 TTCAAAGGCTCTGTATGA
1 TTCAAAGGCTCTGTATGA
116405 ATTGACTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (18 bp):
TTCAAAGGCTCTGTATGA
Found at i:119476 original size:39 final size:39
Alignment explanation
Indices: 119422--119500 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
119412 ATTATATTAA
*
119422 TACTCCACTCTCTTTCAATGATAATCCAATGTGACTAGT
1 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
119461 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
1 TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
119500 T
1 T
119501 TTGAGGTATG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (39 bp):
TACTCCAATCTCTTTCAATGATAATCCAATGTGACTAGT
Found at i:120260 original size:44 final size:43
Alignment explanation
Indices: 120145--120264 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
120135 GTTGAGTCAA
* * *
120145 TTTCTACCTTTATAATTGAGGTCCCTAA-TTTTTTAATCCCACT
1 TTTCTAACATTATAATTGATG-CCCTAAGTTTTTTAATCCCACT
* * * * *
120188 TTTTTAACTTTATAATCGATGCCTTAAGTTTTTATAATCTCAC-
1 TTTCTAACATTATAATTGATGCCCTAAGTTTTT-TAATCCCACT
*
120231 TTTCTAACATTCTAATTGATGCCCCTAAGTTTTT
1 TTTCTAACATTATAATTGATG-CCCTAAGTTTTT
120265 GCATCTCAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 5 0.08
43 39 0.62
44 19 0.30
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (43 bp):
TTTCTAACATTATAATTGATGCCCTAAGTTTTTTAATCCCACT
Found at i:120349 original size:42 final size:41
Alignment explanation
Indices: 120144--120349 Score: 171
Period size: 42 Copynumber: 4.9 Consensus size: 41
120134 TGTTGAGTCA
* *
120144 ATTTCTACCTTTATAATTGAGGTCCCTAATTTTTTAATCCC
1 ATTTCTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTC
* * * * *
120185 ACTTTTTTAACTTTATAATCGATG-CCTTAAGTTTTTATAATCTC
1 A--TTTCTACCTTTATAATTGAGGCCCCTAA-TTTTT-TAATCTC
* * * * **
120229 ACTTTCTAACATTCTAATTGATGCCCCTAAGTTTTTGCATCTC
1 A-TTTCTACCTTTATAATTGAGGCCCCTAA-TTTTTTAATCTC
* * * *
120272 AATTATACATTTATAATTGAGGCCCCTATTTTTTTAATCTC
1 ATTTCTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTC
* *
120313 TATTTCTACCTTTATAATTAAGGCCTCTAATTTTTTA
1 -ATTTCTACCTTTATAATTGAGGCCCCTAATTTTTTA
120350 CAATTTCATA
Statistics
Matches: 129, Mismatches: 30, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
41 11 0.09
42 55 0.43
43 45 0.35
44 18 0.14
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (41 bp):
ATTTCTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTC
Found at i:120775 original size:216 final size:218
Alignment explanation
Indices: 120401--120832 Score: 721
Period size: 216 Copynumber: 2.0 Consensus size: 218
120391 TCTCTCGTTA
* *
120401 TTGAGTTAATCGATCGAAGGAATCGGCCAAGAGGGGGTGAATTGGCAATAAAAATTTCAGTGGAA
1 TTGAGTTAATCGATCGAAGGAATCGACCAAGAGGGGGTGAATTGGCAATAAAAAATTCAGTGGAA
* *
120466 GCTTTTCTAGAAAATTGAAAATATTTGCACAACGATTTAGAGTGGTTCGAGTTTCTCAACCAAAG
66 GCTTTTCTAGAAAATTGAAAATAGTTGCACAACGATTTAGAGTGGTTCGACTTTCTCAACCAAAG
120531 TCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCC-ACAAATTCACTAATTT-TTCTTT
131 TCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTTCTTT
120594 CTTTTGAGGACAAAGAGTAACTG
196 CTTTTGAGGACAAAGAGTAACTG
* *
120617 TTGAGTTAATCGATCGACGGAATCGACCAAGAGGGGGTGAATTGGCAATTAAAAAATT-GGTGGA
1 TTGAGTTAATCGATCGAAGGAATCGACCAAGAGGGGGTGAATTGGCAA-TAAAAAATTCAGTGGA
**
120681 AGCTTTTGC-AGAAAATTGAAAGA-AGTTGCACAGTGATTTAGAGTGGTTCGACTTTCTCAACCA
65 AGCTTTT-CTAGAAAATTGAAA-ATAGTTGCACAACGATTTAGAGTGGTTCGACTTTCTCAACCA
*
120744 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTTC
128 AAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTTC
120809 TTTCTTTTGAGGACAAAGAGTAAC
193 TTTCTTTTGAGGACAAAGAGTAAC
120833 CTTACAACTC
Statistics
Matches: 202, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
216 149 0.74
217 26 0.13
218 27 0.13
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (218 bp):
TTGAGTTAATCGATCGAAGGAATCGACCAAGAGGGGGTGAATTGGCAATAAAAAATTCAGTGGAA
GCTTTTCTAGAAAATTGAAAATAGTTGCACAACGATTTAGAGTGGTTCGACTTTCTCAACCAAAG
TCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTTCTTT
CTTTTGAGGACAAAGAGTAACTG
Found at i:121459 original size:64 final size:64
Alignment explanation
Indices: 121331--121516 Score: 182
Period size: 64 Copynumber: 2.9 Consensus size: 64
121321 CTAAGTGTGT
* * ***
121331 ATCGATGCATAATATGCATTCGATGTTT--TGAATAAGCCTAAGTGCATCGATGCATGGTGTGTG
1 ATCGATGCATAAAATGCATTCGATGTTTCATTAA-AA-CCTAAGTGCATCGATGCATGGAAAGTG
121394 C
64 C
*
121395 A-CTGATGCATAAAATGCATTCGATGTTTCATTAAAACCTGAGTGCATCGATGCATGGAAAGTGC
1 ATC-GATGCATAAAATGCATTCGATGTTTCATTAAAACCTAAGTGCATCGATGCATGGAAAGTGC
* * * * ** * *
121459 ATCGATGCATAAACTGTATTTGATG-TTCAATTTATTCATTAGTGCATCGATGCATGGA
1 ATCGATGCATAAAATGCATTCGATGTTTC-ATTAAAACCTAAGTGCATCGATGCATGGA
121517 TTGGTGCATC
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
63 4 0.04
64 93 0.90
65 3 0.03
66 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (64 bp):
ATCGATGCATAAAATGCATTCGATGTTTCATTAAAACCTAAGTGCATCGATGCATGGAAAGTGC
Found at i:123043 original size:16 final size:16
Alignment explanation
Indices: 123003--123048 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
122993 TATAAATAAG
123003 TTCAAACATCCAAAAAAA
1 TTCAAACATCC--AAAAA
* *
123021 TTTAAACATCCACAAA
1 TTCAAACATCCAAAAA
123037 TTCAAACATCCA
1 TTCAAACATCCA
123049 TAAGCATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.60
18 10 0.40
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (16 bp):
TTCAAACATCCAAAAA
Found at i:125135 original size:2 final size:2
Alignment explanation
Indices: 125119--125156 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
125109 ATAAAAAGGA
*
125119 AT AT AG AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125157 AGAACCGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:126040 original size:11 final size:11
Alignment explanation
Indices: 126016--126060 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
126006 TTAGTGCTGG
126016 AAACAAGATAA
1 AAACAAGATAA
* *
126027 AAATAAGATTA
1 AAACAAGATAA
126038 AAACAAGATAA
1 AAACAAGATAA
126049 AGAA-AAGATAA
1 A-AACAAGATAA
126060 A
1 A
126061 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:126044 original size:22 final size:22
Alignment explanation
Indices: 126016--126057 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
126006 TTAGTGCTGG
126016 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
126038 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
126058 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:130723 original size:11 final size:11
Alignment explanation
Indices: 130699--130743 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
130689 TTGGTGCTGG
130699 AAACAAGATAA
1 AAACAAGATAA
* *
130710 AAATAAGATTA
1 AAACAAGATAA
130721 AAACAAGATAA
1 AAACAAGATAA
130732 AGAA-AAGATAA
1 A-AACAAGATAA
130743 A
1 A
130744 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:130727 original size:22 final size:22
Alignment explanation
Indices: 130699--130740 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
130689 TTGGTGCTGG
130699 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
130721 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
130741 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:131769 original size:3 final size:3
Alignment explanation
Indices: 131743--131783 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
131733 ATCCTACAAA
*
131743 AAT AAT AA- AAT AA- AA- AAT ATT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
131784 ACAAACAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:131797 original size:4 final size:4
Alignment explanation
Indices: 131779--131820 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
131769 TAATAATAAT
* *
131779 AATA AACA AACA AATA AATA AATA AATA AAT- AATA TAATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA AA
131821 ATGTTTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:132432 original size:84 final size:84
Alignment explanation
Indices: 132182--132475 Score: 308
Period size: 84 Copynumber: 3.5 Consensus size: 84
132172 TTGAAGGTCT
* * ** * * *
132182 TTGGCAGATAACCCTTCTTACCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGCTGAGTGGAG
1 TTGGCAAATAACCCTTCTTGCCTTGAGCTATATTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAG
132247 TCGAACTCGAAGGTC-TTTG
65 TCGAACTCGAAGGTCTTTTG
* * * * * * * * *
132266 TTGACAGATAAACCTTCTAGCCTTGAGTTATGCTT-TAAATGATATGCCTTGGAGCTGAGCATAG
1 TTGGCAAATAACCCTTCTTGCCTTGAGCTAT-ATTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* *
132330 TTGAACTTGAAGGTCTTTTG
65 TCGAACTCGAAGGTCTTTTG
* * *
132350 TTGGCAAACAACCCTTCTTTCCTTGAGCTATATTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAAATAACCCTTCTTGCCTTGAGCTATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
132415 CGAACTCGAAGGTCTTTT-
66 CGAACTCGAAGGTCTTTTG
* * *
132433 TCTAGAAAATAGA-ACTTCTTGCCTTGAGCTATATTGCAAATGA
1 T-TGGCAAATA-ACCCTTCTTGCCTTGAGCTATATTGCAAATGA
132476 ACATGATATC
Statistics
Matches: 171, Mismatches: 34, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
83 32 0.19
84 137 0.80
85 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
TTGGCAAATAACCCTTCTTGCCTTGAGCTATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTG
Found at i:132698 original size:124 final size:124
Alignment explanation
Indices: 132530--132769 Score: 367
Period size: 124 Copynumber: 1.9 Consensus size: 124
132520 CTGCTTGTGG
* ** *
132530 GCACGATATCCTTTGTCGTGAAGTTGAAATTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTG
* *
132595 AATTGGATATCCTTCT-TCGTGAAGTTGAAATCCAGTCTAAAGATGAATGTTACTGGTGA
66 AATTAGATATCCTT-TGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGA
* *
132654 GCACGAT-TCCCTTCGTCGTGAAGTTGAAACAGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTT
1 GCACGATAT-CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTT
*
132718 GAATTAGATATCCTTTGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 GAATTAGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
132770 GCTTCTAGTC
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
123 2 0.02
124 103 0.98
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (124 bp):
GCACGATATCCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTG
AATTAGATATCCTTTGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGA
Found at i:133104 original size:240 final size:246
Alignment explanation
Indices: 132654--133181 Score: 685
Period size: 240 Copynumber: 2.2 Consensus size: 246
132644 TTACTGGTGA
** *
132654 GCACGAT-TCCCTTCGTCGTGAAGTTGAAACAGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTT
1 GCACGATAT-CCTTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTT
** * * * * *
132718 GAATTAGATATCCTTTGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCTAGTCCAA
65 GAATTAGATATCCTTCATCGTAAAGTTGAAATCCAACCT----AT-AATGTTACTTCGAGTCCAA
* *
132783 TATCTTTCGCCGTGAAGTTGAAACTGGCTCTGAATGAAACTGGAAAGCCCCTTCACCATGAAGTT
125 TATCCTTCACCGTGAAGTTGAAACTGGCTCTGAATGAAACTGGAAAGCCCCTTCACCATGAAGTT
* * *
132848 GAGCTTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-T-AG-AG-TTG
190 GAGCTTTGAATTGGATATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGG
*
132901 GCACGATATCCTTCGTCGTGAAGTTGAGATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTG
1 GCACGATATCCTTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTG
* * *
132966 ACTTTA-ATATCCTTCATCGTAAAGTTGAAATCCAACCT-T-TTGTTATTTCGAGTCCAATATCC
66 A-ATTAGATATCCTTCATCGTAAAGTTGAAATCCAACCTATAATGTTACTTCGAGTCCAATATCC
* * * * *
133028 TTCACCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGGGTT
130 TTCACCGTGAAGTTGAAACTGGCTCTGAATGAAACTGGAAAGCCCCTTCACCATGAAGTTGAGCT
* *
133093 TTGAATTGGATATCATTCGTCATGAAGTTGAAATCCAATCTTGTGTAGATGG
195 TTGAATTGGATATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGG
* *
133145 GCACAATATCCTTCGTCGTGAAGTTGAAATTATGGAT
1 GCACGATATCCTTCGTCGTGAAGTTGAAATTGTGGAT
133182 TTGTGGGCAC
Statistics
Matches: 246, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
240 114 0.46
241 1 0.00
242 2 0.01
243 2 0.01
244 36 0.15
247 87 0.35
248 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (246 bp):
GCACGATATCCTTCGTCGTGAAGTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTG
AATTAGATATCCTTCATCGTAAAGTTGAAATCCAACCTATAATGTTACTTCGAGTCCAATATCCT
TCACCGTGAAGTTGAAACTGGCTCTGAATGAAACTGGAAAGCCCCTTCACCATGAAGTTGAGCTT
TGAATTGGATATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGG
Found at i:133224 original size:43 final size:43
Alignment explanation
Indices: 133142--133224 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
133132 CTTGTGTAGA
* *
133142 TGGGCACAATATCCTTCGTCGTGAAGTTGAAATTATGGATTTG
1 TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
* * *
133185 TGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCATGGAT
133225 GGCCCCTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
TGGGCACAATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
Found at i:135890 original size:9 final size:9
Alignment explanation
Indices: 135876--135935 Score: 61
Period size: 9 Copynumber: 6.7 Consensus size: 9
135866 TGTGGGACCT
135876 ATAAAAATA
1 ATAAAAATA
135885 AT-AAAATA
1 ATAAAAATA
*
135893 ATAATAATA
1 ATAAAAATA
*
135902 ATAATAATA
1 ATAAAAATA
135911 ATAATAAATA
1 ATAA-AAATA
*
135921 A-ATAAATGA
1 ATAAAAAT-A
135930 ATAAAA
1 ATAAAA
135936 TGTTTTGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.28
9 23 0.53
10 8 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
ATAAAAATA
Found at i:135895 original size:3 final size:3
Alignment explanation
Indices: 135876--135917 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
135866 TGTGGGACCT
*
135876 ATA AAA ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
135918 ATAAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:136550 original size:84 final size:84
Alignment explanation
Indices: 136295--136588 Score: 324
Period size: 84 Copynumber: 3.5 Consensus size: 84
136285 TCGAAGGTCT
* * * * * * *
136295 TTGGCAGATAGCCCTTCTTGCCTTAAGCTATGCTGCAAATGATGGTGTCTTTGAGCTGAGTGGAG
1 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAG
* *
136360 TCGAACTCAAAGGTC-TTTG
65 TCGAATTCGAAGGTCTTTTG
* * ** * * * * *
136379 TTGACAGATAAACCTTATAGCCTTGAGTTATGCTT-TAAATGATGTACCTTGGAGCTGAGCGTAG
1 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATG-TTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
136443 TCGAACTT-GAAGGTCTTTTG
65 TCGAA-TTCGAAGGTCTTTTG
136463 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
136528 CGAATTCGAAGGTCTTTTG
66 CGAATTCGAAGGTCTTTTG
* * * ** *
136547 TTGGAAAATATCACTTCTTTTCTTGAGCTATTTTGCAAATGA
1 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGA
136589 ACACAATATC
Statistics
Matches: 174, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
83 31 0.18
84 142 0.82
85 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (84 bp):
TTGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAATTCGAAGGTCTTTTG
Found at i:137209 original size:240 final size:246
Alignment explanation
Indices: 136776--137294 Score: 708
Period size: 240 Copynumber: 2.1 Consensus size: 246
136766 AGCATGATTC
* * * * *
136776 CCTTCGTCATGAAGTTGAAACCATGAATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCCTTGAATTGAATA
* * *
136841 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCAC
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCT----AT-AATATTGCTTCGAGTCCAATATCCTTCAC
* *
136906 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGTGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
126 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGCTGAGCTTTGAA
* * *
136971 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-T-AG-AG-TTAGCACGATAT
191 TTGGATATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGAGCACGATAT
* * * *
137023 CCTTCGTCGTGAAGTTGAGATCGTGGATGGCCCCTTCATTGTGAAGTTGAGCCTTGACTTGAATA
1 CCTTCGTCGTGAAGTTGAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCCTTGAATTGAATA
* * *
137088 TCCTTCGTCCTGAAGTTGAAATCCAAGCT-T-TTATTGTTTCGAGTCCAATATCCTTCGCCGTGA
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCGAGTCCAATATCCTTCACCGTGA
* * *
137151 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGCTGGGCTTTGAATTTGA
131 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGCTGAGCTTTGAATTGGA
* * *
137216 TATCATTCGTCATGAAGTTGAAATCCAATCTTGTGTAGATGGGCACGATAT
196 TATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGAGCACGATAT
*
137267 CTTTCGTCGTGAAGTTGAAATCATGGAT
1 CCTTCGTCGTGAAGTTGAAATCATGGAT
137295 TTGTGGGAAC
Statistics
Matches: 239, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
240 116 0.49
241 1 0.00
242 2 0.01
243 2 0.01
244 35 0.15
247 83 0.35
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (246 bp):
CCTTCGTCGTGAAGTTGAAATCATGGATGACCCCTTCATTGTGAAGTTGAGCCTTGAATTGAATA
TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCGAGTCCAATATCCTTCACCGTGA
AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGCTGAGCTTTGAATTGGA
TATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGAGCACGATAT
Found at i:137326 original size:43 final size:43
Alignment explanation
Indices: 137255--137337 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
137245 CTTGTGTAGA
* * * *
137255 TGGGCACGATATCTTTCGTCGTGAAGTTGAAATCATGGATTTG
1 TGGGAACGATATCCTCCATCGTGAAGTTGAAATCATGGATTTG
* *
137298 TGGGAACGATATCCTCCATCGTGGAGTTGAAATCGTGGAT
1 TGGGAACGATATCCTCCATCGTGAAGTTGAAATCATGGAT
137338 GGCCCCTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
TGGGAACGATATCCTCCATCGTGAAGTTGAAATCATGGATTTG
Found at i:138079 original size:44 final size:44
Alignment explanation
Indices: 138016--138106 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
138006 AAAGATATAA
*
138016 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
1 AATGCAAGAAATCTGTAAAACATTGCCACTTAATTCAGGCTCGC
* *
138060 AATGCAAGAAATCTGTAAAACATTGCCTCTTAATTCTGGCTCGC
1 AATGCAAGAAATCTGTAAAACATTGCCACTTAATTCAGGCTCGC
138104 AAT
1 AAT
138107 CGAATCGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (44 bp):
AATGCAAGAAATCTGTAAAACATTGCCACTTAATTCAGGCTCGC
Found at i:140120 original size:22 final size:23
Alignment explanation
Indices: 140075--140121 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
140065 GTCAGCAACC
* * *
140075 TTTTCATCTGCCTCTGCAACCTT
1 TTTTCATCTACCCCTACAACCTT
140098 TTTTCATCTACCCCTACAA-CTT
1 TTTTCATCTACCCCTACAACCTT
140120 TT
1 TT
140122 GGCTAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.17, C:0.34, G:0.04, T:0.45
Consensus pattern (23 bp):
TTTTCATCTACCCCTACAACCTT
Found at i:141511 original size:2 final size:2
Alignment explanation
Indices: 141504--141564 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
141494 AACTAAAGAA
141504 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
141546 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
141565 ATGATAATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:142477 original size:4 final size:4
Alignment explanation
Indices: 142464--142504 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
142454 GGGACTGTAA
142464 AAAT -AAT AAAT AAAT -AAT AAAT AAAT AAAT -AAT ATAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAA
142505 ATGATTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 9 0.27
4 20 0.61
5 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:142488 original size:15 final size:16
Alignment explanation
Indices: 142466--142504 Score: 71
Period size: 15 Copynumber: 2.5 Consensus size: 16
142456 GACTGTAAAA
142466 ATAATAAATAAATAAT
1 ATAATAAATAAATAAT
142482 A-AATAAATAAATAAT
1 ATAATAAATAAATAAT
142497 ATAATAAA
1 ATAATAAA
142505 ATGATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAAATAAATAAT
Found at i:142497 original size:11 final size:11
Alignment explanation
Indices: 142464--142491 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
142454 GGGACTGTAA
142464 AAATAATAAAT
1 AAATAATAAAT
142475 AAATAATAAAT
1 AAATAATAAAT
142486 AAATAA
1 AAATAA
142492 ATAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:143511 original size:12 final size:12
Alignment explanation
Indices: 143496--143526 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
143486 ATTATTTAAA
143496 CGGGTATCGGGC
1 CGGGTATCGGGC
143508 CGGGTATCGGGC
1 CGGGTATCGGGC
143520 CGGGTAT
1 CGGGTAT
143527 ATATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.19
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:143533 original size:4 final size:4
Alignment explanation
Indices: 143524--143615 Score: 56
Period size: 4 Copynumber: 25.0 Consensus size: 4
143514 TCGGGCCGGG
* * * *
143524 TATA TATA TATT TAAA T-TA AATA TATA AATA T-TA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
143570 T-TA -ATT TA-A TTTA AATT TAT- TA-A TAT- TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
143612 TATA
1 TATA
143616 ATTATTATTT
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
3 15 0.23
4 50 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:143565 original size:6 final size:6
Alignment explanation
Indices: 143524--143615 Score: 56
Period size: 6 Copynumber: 16.7 Consensus size: 6
143514 TCGGGCCGGG
* * * *
143524 TATATA TATATT TAAAT- TAAATA TATAAA TAT-TA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
143570 T-TA-A TTTA-A TTTAAA TTTAT- TA-ATA T-TATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
143612 TATA
1 TATA
143616 ATTATTATTT
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.06
5 24 0.33
6 44 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:143577 original size:40 final size:39
Alignment explanation
Indices: 143524--143610 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 39
143514 TCGGGCCGGG
143524 TATATATA-TATTTAAATTAAATATATAAATATTATATA
1 TATATATATTATTTAAATTAAATATATAAATATTATATA
* * *
143562 TATATATATTAATTTAATTTAAATTTATTAATATTATATA
1 TATATATATT-ATTTAAATTAAATATATAAATATTATATA
143602 TATATATAT
1 TATATATAT
143611 ATATAATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 8 0.18
39 1 0.02
40 35 0.80
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
TATATATATTATTTAAATTAAATATATAAATATTATATA
Found at i:143665 original size:13 final size:12
Alignment explanation
Indices: 143634--143665 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
143624 TTTTAATATT
143634 TATCGGGTCGGG
1 TATCGGGTCGGG
143646 TATCGGGTCGGG
1 TATCGGGTCGGG
143658 TAATCGGG
1 T-ATCGGG
143666 GCAGGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.16, G:0.47, T:0.25
Consensus pattern (12 bp):
TATCGGGTCGGG
Found at i:143761 original size:36 final size:37
Alignment explanation
Indices: 143684--143763 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 37
143674 TACCAAACTC
143684 GTCCCCGTCCCCGTTTAGCATAAACGATTTTTCCCCA
1 GTCCCCGTCCCCGTTTAGCATAAACGATTTTTCCCCA
* *
143721 -TCCCCGTCCTCGTTTAGCATAAAC-AGTTTTT-CTCA
1 GTCCCCGTCCCCGTTTAGCATAAACGA-TTTTTCCCCA
143756 GTCCCCGT
1 GTCCCCGT
143764 TTAATTCGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.17, C:0.36, G:0.14, T:0.33
Consensus pattern (37 bp):
GTCCCCGTCCCCGTTTAGCATAAACGATTTTTCCCCA
Found at i:144559 original size:2 final size:2
Alignment explanation
Indices: 144547--144580 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
144537 AAATTATTAA
*
144547 AT AT AT GT 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
144581 TATTTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:144995 original size:76 final size:76
Alignment explanation
Indices: 144889--145032 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
144879 TGCGGGCATG
* * * * *
144889 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
144953 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
144965 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
145030 ATA
66 ATA
145033 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:145767 original size:11 final size:11
Alignment explanation
Indices: 145751--145777 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
145741 GATTGCGCCT
145751 AAAGTATTATG
1 AAAGTATTATG
145762 AAAGTATTATG
1 AAAGTATTATG
145773 AAAGT
1 AAAGT
145778 TTTAGCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (11 bp):
AAAGTATTATG
Found at i:146285 original size:2 final size:2
Alignment explanation
Indices: 146278--146306 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
146268 ACTAAAGAAA
146278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
146307 AAATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:147210 original size:3 final size:3
Alignment explanation
Indices: 147193--147260 Score: 77
Period size: 3 Copynumber: 21.7 Consensus size: 3
147183 ATCCTACAAA
147193 AAT AAT AAAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACA- AAT
1 AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
147240 AAAT AAT ATAT AAT -AT AAT AA
1 -AAT AAT A-AT AAT AAT AAT AA
147261 AATGTTTTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.05
3 42 0.71
4 14 0.24
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:147873 original size:84 final size:83
Alignment explanation
Indices: 147623--147916 Score: 297
Period size: 84 Copynumber: 3.5 Consensus size: 83
147613 TTGAAGGTCT
* * * * * * *
147623 TTGGCAGATAACTCTTCTTGCATTGAGCTATGCTGGAAATGATGGTGCCTTTGAGCTGAGTGGAG
1 TTGGCAAATAAC-CTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAG
147688 TCGAACTCGAAGGTC-TTTG
64 TCGAACTCGAAGGTCTTTTG
* * * * * *
147707 TTGACAGATAAACCTTCTAGCCTTGAG-TAATGCTT-TAAATGATGTGCCTTGGAGCTAAGCATA
1 TTGGCAAAT-AACCTTCTTGCCTTGAGCT-ATG-TTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* *
147770 GTTGAACTTGAAGGTCTTTTG
63 GTCGAACTCGAAGGTCTTTTG
* *
147791 TTGGCAAACAACCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAAATAA-CCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
147856 CGAACTCGAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* * * * * *
147875 CTAGAAAATAGAACTTCTTACCTTGAGCTATATTGCAAATGA
1 TTGGCAAATA-ACCTTCTTGCCTTGAGCTATGTTGCAAATGA
147917 ACATGATATC
Statistics
Matches: 173, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
83 34 0.20
84 133 0.77
85 6 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (83 bp):
TTGGCAAATAACCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTG
Found at i:148143 original size:124 final size:124
Alignment explanation
Indices: 147980--148210 Score: 358
Period size: 124 Copynumber: 1.9 Consensus size: 124
147970 GGCACGATAT
* ** *
147980 CCTTTGTCGTGAAGTTGAAATTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
*
148045 TCCTTC-TTCGTGAAGTTAAAATCCAGTCTAAAGATGAATGTTACTGGTGAGGACGATTC
66 TCCTTCGTT-GTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
* *
148104 CCTTCGTCGTGAAGTTGAAACAGTGAATGG-CCCATTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCC-TTCGTTGTGAAGTTGAGCCTTAAATTGGAT
*
148168 ATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 ATCCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTT
148211 GCTTCGAGTC
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
123 3 0.03
124 92 0.95
125 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
TCCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
Found at i:148539 original size:240 final size:243
Alignment explanation
Indices: 148104--148622 Score: 704
Period size: 240 Copynumber: 2.1 Consensus size: 243
148094 AGGACGATTC
* * *
148104 CCTTCGTCGTGAAGTTGAAACAGTGAATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAATC-GTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * * * *
148169 TCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCGC
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCT----AT-AATGTTACTTCGAGTCCAATATCCTTCAC
148234 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
125 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
* * *
148299 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-TAGAG-TTGGCACGATAT
190 TTGGATATCATTCATCATGAAGTTGAAATCCAATCTTAGAGATGGGCACGATAT
* * *
148351 CCTTCGTCGTGAAGTTGAGATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTTAATA
1 CCTTCGTCGTGAAGTTGA-ATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* *
148416 TCCTTCGTAGTAAAGTTGAAATCCAAGCT-T-TTGTTATTTCGAGTCCAATATCCTTCACCGTGA
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGA
* * * *
148479 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGGGTTTTGAATTGGA
130 AGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGA
* *
148544 TATCATTCGTCATGAAGTTGAAATCCAATCTTGTATAGATGGGCACGATAT
195 TATCATTCATCATGAAGTTGAAATCCAATC-T-TAGAGATGGGCACGATAT
* *
148595 CCTTTGTCGTGAAGTTGAAATCATGGAT
1 CCTTCGTCGTGAAGTTG-AATCGTGGAT
148623 TTGTGGGCAC
Statistics
Matches: 242, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
240 117 0.48
242 1 0.00
243 4 0.02
244 35 0.14
245 1 0.00
247 82 0.34
248 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (243 bp):
CCTTCGTCGTGAAGTTGAATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATAT
CCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGAA
GTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGAT
ATCATTCATCATGAAGTTGAAATCCAATCTTAGAGATGGGCACGATAT
Found at i:148647 original size:43 final size:43
Alignment explanation
Indices: 148583--148665 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
148573 CTTGTATAGA
**
148583 TGGGCACGATATCCTTTGTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
* *
148626 TGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGAT
148666 GGCCCCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
Found at i:151162 original size:2 final size:2
Alignment explanation
Indices: 151150--151185 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
151140 AAATTATTAA
*
151150 AT AT AT GT 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
151186 TTATTTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:151601 original size:76 final size:76
Alignment explanation
Indices: 151495--151638 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
151485 TGCGGGCATG
* * * * *
151495 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
151559 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
151571 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
151636 ATA
66 ATA
151639 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:153556 original size:29 final size:29
Alignment explanation
Indices: 153524--153620 Score: 82
Period size: 26 Copynumber: 3.5 Consensus size: 29
153514 TAATTTATTA
153524 TATATTATTAAAATAAAAATATAATATCT
1 TATATTATTAAAATAAAAATATAATATCT
* * *
153553 TATATTATTATAAT-ATAAT-TGAT-TACT
1 TATATTATTAAAATAAAAATATAATAT-CT
* *
153580 T-TATTA-TAATATTAAAATATAATA--T
1 TATATTATTAAAATAAAAATATAATATCT
153605 TATATTATTAGAAATA
1 TATATTATTA-AAATA
153621 TTAATATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
25 6 0.12
26 15 0.29
27 11 0.21
28 7 0.13
29 13 0.25
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TATATTATTAAAATAAAAATATAATATCT
Found at i:153567 original size:52 final size:52
Alignment explanation
Indices: 153513--153614 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 52
153503 AATTTTATTA
*
153513 ATAATTTATTA-TATATTATTAAAATAAAAATATAATATCTTATATTATTATAAT
1 ATAATTGATTACTATATTA-TAAAATAAAAATATAATA--TTATATTATTATAAT
* * *
153567 ATAATTGATTACTTTATTATAATATTAAAATATAATATTATATTATTA
1 ATAATTGATTACTATATTATAAAATAAAAATATAATATTATATTATTA
153615 GAAATATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 11 0.26
54 26 0.60
55 6 0.14
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (52 bp):
ATAATTGATTACTATATTATAAAATAAAAATATAATATTATATTATTATAAT
Found at i:155588 original size:650 final size:649
Alignment explanation
Indices: 153941--156527 Score: 4725
Period size: 645 Copynumber: 4.0 Consensus size: 649
153931 ATCACTCAAC
*
153941 GACTCCTACAGTAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
1 GACTCCTACAATAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
*
154006 ACATGGA-CCCAGTCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
66 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
* *
154070 GTCATTGAAACATGTGACTAAATTAATCAATCAAATCATCATCGATATTTTGATTTAATCAATCA
131 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
* *
154135 AATCGTTTAATTATTTAAATATTTCAGGTGACATGATAATTAAAATATTTTGTTATAATTATACA
196 GATCGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
* *
154200 ATTAGTCATTATTACTTATATATTGTTTTAATTTGATCTTAATTTTAATAAACTAAATTAAATTT
261 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
* * *
154265 AACTCTCGAATCATGTGGTGTCATATGTTATTAGTGATACTATGGTTGAAAAATAAATAAATCAA
326 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAA
* * * *
154330 TGCAAACGAGGGTAAGGGGAATCAAACAAAGAACCCTTTGGGTGACATATAAGCACCAAACCATT
390 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATT
*
154395 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATAATATATATAATGTATCTTAGTATAT
455 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
154460 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGT
520 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTT-AAAATAAATTTTATTTTTGT
*
154525 CTTAATTTATTAAATGTA-TTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACT
584 CTTAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACT
154589 T
649 T
* *
154590 GACTCCTACAGTAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAGGAT
1 GACTCCTACAATAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
* *
154655 ACATGGACCCCAGTCCACAATTTTCATTCCATCTTAAATACTATAACAATGATTATGTAATTTAT
66 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
* * *
154720 GTCATTGAAACATGTGACTAAATTATTCAATCAAACCATCATTGATATTTTGATTTAATCAATCA
131 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
*
154785 GATCGTTTAATTATTTAAATATTTCAGGTGATATGACAATTAAAATATTTTGTTATAATTATACA
196 GATCGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
154850 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
261 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
* *
154915 AACTCTCGAATCATGTGATGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAA
326 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAA
*
154980 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAATCATT
390 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATT
155045 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
455 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
155110 AAACACTTTACTTAAATTCATAATA-TTTATATTCTTAATTTTT-AAATAAATTTTATTTTTGTC
520 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTC
155173 TTAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
585 TTAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
155238 GACTCCTACAATAAATCC-AAAA-AAAAAGAAAAA-AAAGGAAAATAATATTGTATGAAAAAGAT
1 GACTCCTACAATAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
155300 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
66 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
155365 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
131 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
*
155430 GATTGTTTAATTATTT-AA-ATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
196 GATCGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
*
155493 ATTAGTCATTATTATTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
261 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
155558 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAAT
326 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAAT
155623 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
391 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
155688 AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
456 AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
155753 AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTT-AAATAAATTTTATTTTTGTCT
521 AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTCT
155817 TAACTTATTAAATGTATTTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
586 TAACTTATTAAATGTA-TTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
*
155882 GACTCCTACAATAAATCCAAAAAAAAAAAG-AAAA-AAAGG-AAATAATATTGTATGAAAAAGAT
1 GACTCCTACAATAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
155944 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
66 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
156009 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
131 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
*
156074 GATTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAAT-TTTTGTTATAATTATACA
196 GATCGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
156138 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
261 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
156203 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAAT
326 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAAT
156268 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
391 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
*
156333 ATTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
456 AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
156398 AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGTC
521 AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTT-AAAATAAATTTTATTTTTGTC
*
156463 TTAACTTATTAAATGTATTTTTTTAATTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
585 TTAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
156528 ACAAGTATAT
Statistics
Matches: 1892, Mismatches: 36, Indels: 23
0.97 0.02 0.01
Matches are distributed among these distances:
642 170 0.09
643 209 0.11
644 237 0.13
645 502 0.27
646 90 0.05
647 77 0.04
648 64 0.03
649 89 0.05
650 454 0.24
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (649 bp):
GACTCCTACAATAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
GATCGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAAT
GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTCT
TAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
Found at i:155836 original size:30 final size:28
Alignment explanation
Indices: 155785--155840 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 28
155775 TATTTTATAT
*
155785 TCTTAATTTTTAAATAAATTTTATTTTTG
1 TCTTAATTATTAAATAAATTTT-TTTTTG
**
155814 TCTTAACTTATTAAATGTATTTTTTTT
1 TCTTAA-TTATTAAATAAATTTTTTTT
155841 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (28 bp):
TCTTAATTATTAAATAAATTTTTTTTTG
Found at i:156575 original size:28 final size:28
Alignment explanation
Indices: 156508--156599 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 28
156498 AAAATATATG
* **
156508 TTTTAA-TCTTATCTTCACTTACAAGTATA
1 TTTTAACT-TTATCTTCATTTA-AAAAATA
156537 TTTTAACTTTATCTTCATTTAAAAAATA
1 TTTTAACTTTATCTTCATTTAAAAAATA
** *
156565 TTTTATTTTTATCTTAATTTTTAAAAATATA
1 TTTTAACTTTATCTTCA--TTTAAAAA-ATA
156596 TTTT
1 TTTT
156600 CTAATTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.36
29 18 0.34
30 9 0.17
31 7 0.13
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTTAACTTTATCTTCATTTAAAAAATA
Found at i:156659 original size:29 final size:29
Alignment explanation
Indices: 156618--156747 Score: 105
Period size: 29 Copynumber: 4.7 Consensus size: 29
156608 TTTAACTTAA
* * *
156618 AATATATTTATATAGTTTATTCTTATTTC
1 AATATAATAATATATTTTATTCTTATTTC
* *
156647 AATATAATAATATA-TTTGTCCTTATATTC
1 AATATAATAATATATTTTATTCTTAT-TTC
* * *
156676 ACT-TAAAAATATATTTTATTCTTATTTT
1 AATATAATAATATATTTTATTCTTATTTC
156704 AA-ATTAA-AGATATATTTTATTCTTATTT-
1 AATA-TAATA-ATATATTTTATTCTTATTTC
156732 --TA-AATAATATATTTTA
1 AATATAATAATATATTTTA
156748 ATTTAAAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
25 12 0.14
26 1 0.01
27 1 0.01
28 22 0.26
29 48 0.57
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (29 bp):
AATATAATAATATATTTTATTCTTATTTC
Found at i:160184 original size:11 final size:11
Alignment explanation
Indices: 160168--160194 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
160158 TTCATAGCCA
160168 TTTTATGAAAG
1 TTTTATGAAAG
160179 TTTTATGAAAG
1 TTTTATGAAAG
160190 TTTTA
1 TTTTA
160195 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:161013 original size:262 final size:263
Alignment explanation
Indices: 160552--164722 Score: 4758
Period size: 262 Copynumber: 16.0 Consensus size: 263
160542 ATAATATCAT
* * * * *
160552 GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAA-CGATTGCACCC--A-TTTCATGTCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* *
160613 CCAAAGAAAGCACGTTGCAATAT-GAA-ATATATCATTTTAAAAAAT-AAAGCGATTGAACGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATAT-TATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
160675 AGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * *
160740 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTACACCCCAAAATATCACGGTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
160805 AATA
260 AATA
* *
160809 TGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
160874 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
** ** * *
160939 GTATTATG-AAGTTTTAGTTGATGGAGCCTTGGCGTTCTGCACAACAAACAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * * *
161003 ACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGGA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
161068 ATA
261 ATA
* * *
161071 GGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
161136 CTAAGGTAAGCACGTTGCAATAT-GTAATATTATCATTTTTAAAAATAAAAGCAATTGCAAT-TA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* * * * * * *
161199 AAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTTAATA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
** * *
161264 GCACAAA-TATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
161327 AAATA
259 AAATA
* * * * *
161332 GGTTGCAACTCGTAATGTCAACTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
** * * * * * *
161396 CCAAAGAAAGTGCATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * *
161461 GTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAATAAC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * *
161526 ACAAAGTATTACGA-TAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
161590 ATA
261 ATA
* * *
161593 GGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
161658 ACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT-ACGTGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGA-ATGTAA
* ** * * * * *
161721 AGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* ** * * * *
161786 CACAAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
161850 AATA
260 AATA
* * * * * * * *
161854 GGTTGTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCATGGCCT
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC-
* * * * * *
161919 CTC-AGGAAAGCTCGTTGCAATAT-GAAATATTATAATTTTAAAAAATAAAAGCAATTGCAAT-T
65 CCCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTG-AATGT
* * *
161981 AAAGTATTATGAAAGTTTTAGCCGATGGAGCATTGGCATTCCCCATGACAATCAAATAGGTTAAG
128 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * *
162046 AGCACAAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATATCATGGTTCTAAAG
193 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
162111 GAAATA
258 GAAATA
* * * *
162117 AGTTGTGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTCATGG-C
1 GGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * * * *
162179 CCCAAAGAAATCGCATTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGCACT-AA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
162242 AAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * *
162307 ACACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGATTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
162372 AAATA
259 AAATA
* *
162377 GGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
162442 CCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * * ** *
162507 GTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAGAG
131 GTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * * * * * *
162570 -ATAAAAGTATTACGATTAGACAAAATAGAAGCGATTGTGCTCCAGAATATCAGGGATCT-AAGG
195 CA-CAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
*
162633 AAGTA
259 AAATA
* * * * *
162638 GGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTGTCATGGAC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCGCCCAGAGTGTCATGGCC
*** * * *
162702 TTTAAAGAAAGCATGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAAT-TA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
162766 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATC-AATAGGTTAAGG
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
** * * ** * *
162830 GCACAAAGTATTACGATTAGGC---A-AGAAATTGTTACACTTCAGAACATAACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
162891 AAATA
259 AAATA
* * *
162896 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * ****
162960 CCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * ** * *
163025 GTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATA-GTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* *** * * * *
163089 ACAAAGTA-TATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGGAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
163153 ATA
261 ATA
* * *
163156 GGTTGCGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCACAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
163221 CCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTTAAAAAATAAAAGCTATTGTACGTGAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * *
163286 GTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCCCTACGAAAATCAAATAGGTTAAGAG
131 GTATTATGAAAGTTTT-AGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * *
163350 CACAAA-TATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGTTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
163414 AATA
260 AATA
* * * * * * **
163418 GGTTGCGACTTGTAATTTCTACTTGTGTATTACAT--AATCGATTTCACCTAGAGTGTCAT-TTC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTA-ATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * *
163480 CCC-AAG-AAGCATGTTACAATCT-GAAATATT-TACATTTTAAAAAAT-AAA-TGATTGCATCT
65 CCCAAAGAAAGCACGTTGCAATCTAG-AATATTAT-CATTTTAAAAAATAAAAGCGATTGAATGT
* * * * * *
163539 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTT-CCTATGATAATCAAATAGATTAAG
128 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * * * *
163603 AGCACAAAGCATTACGATTAGGCAAAATA-AAACGATTGCGCCCCAAAATATAACAGTTCTCAAT
193 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
163667 GAAATA
258 GAAATA
* * *
163673 GGTTGCGACTTGTAATTTCAAC-T-TGTATTAATAG-ATAGATTGCGCTCAGAATGTCATGG-CC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * *
163734 CC-AAGAAAGCACATTGCAATCTGGAATATTATCATTTT-AAAAATAAAAGCGATTGCACGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* *
163797 GTATTATGAAAGTTTTAG-TGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * * *
163861 ACAAAATACTACGATTAGGCAAAATAGACACGGTTGTGCCCCA-TATATCACGGTTCTAAAGGAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
163925 ATA
261 ATA
* *
163928 GGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * * **
163993 CCAAAGAAAGAATGTTGCAA-CTATAATATTATCATTTT-AAATAGAAAAGAGATTGCGTGT-AA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * ** *
164055 --ATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * ** * * * * *
164118 AAAAAGTATTACAATTAAACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGAAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
164183 ATA
261 ATA
* * ** * * *
164186 GGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGGGTTTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * * *
164251 CTAAGGAAAGCAAC-TTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTG--TGCTT
66 CCAAAGAAAGC-ACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATG-TA
* * *
164313 AAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* *
164378 GCACAAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCAGAATATCACAGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
164443 AAATA
259 AAATA
* * *
164448 GGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGG-CC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
164512 CCTAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAATCGATTGCATGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATA-TTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
164577 AATATTATGAAAGTTTTAGCC-ATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAGA
130 AGTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * *
164641 GCACAAAGTAATACAATTAGAC-AAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
164705 AAATA
259 AAATA
* *
164710 AGTTGTGACTTGT
1 GGTTGCGACTTGT
164723 TCTCTTTAAA
Statistics
Matches: 3329, Mismatches: 502, Indels: 161
0.83 0.13 0.04
Matches are distributed among these distances:
252 2 0.00
253 37 0.01
254 46 0.01
255 200 0.06
256 96 0.03
257 280 0.08
258 206 0.06
259 59 0.02
260 414 0.12
261 763 0.23
262 989 0.30
263 234 0.07
264 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (263 bp):
GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
ATA
Found at i:162201 original size:784 final size:785
Alignment explanation
Indices: 159724--164722 Score: 5189
Period size: 784 Copynumber: 6.4 Consensus size: 785
159714 ATTGAGTTGA
* ** *
159724 AAAGTATTACGATTAGGTAAAATAGAAAC-ATTTATGCACCAGAATATCACGGTTCTAAAGGAAA
1 AAAGTATTACGATTAGGCAAAATAGAAACGA-TTGCGCCCCAGAATATCACGGTTCTAAAGGAAA
* * * * * *
159788 TAGGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGTCCAGAGTATCATGAC
65 TAGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCGCCCAGAGTGTCATGGC
* ** * * * * *
159853 CCCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAGCGATTGCGCCTAA
129 CCCAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGC-ACTAA
** * * * *
159918 AGTATTATGAGTGTTTTAGCTC-AAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAGA
193 AGTATTATGAAAGTTTTA--TCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGA
* * * * * * * *
159982 GCACAAAGTATTACGATTAAG-CAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAGG
256 GCACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
* ** * * ** **
160046 AAATAGGTT--AAAAT-T-ATATC-A-TAT-T-TATCT-A-ACAAT-GA-ACCAAACCAAA-TGT
321 AAATAGGTTGCGACTTGTAATGTCAACT-TGTGTAT-TAATAGAATAGATTGC-GCCCAAAGTGT
** ** ** * * * * * * ***
160098 -ATGATCTGC-TTGAATG-GC-TTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCT
383 CATGGCCCCCAAAGAAAGCACGTT-GCAAT-CTAGA--AT-ATTATCATTT---TA-AA---AAA
* * * *** * * * * *
160159 TCATAGCCATTTTATG-AAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGA
436 TAAAAGCAATTACGTGTAAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCACACAA
* * * *
160223 CAATCAAATAGATTAAGAGCACAAAATATTATGATTAGGCAAAATAGAAACGG-T-TGCTTCCTA
501 CAATCAAATAGGTTAAGAGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGC--CCCA
* * * *
160286 GAATATCATGGTTCTCAAGGAAATAGGTTGCGACTTGTAATGTCAACTTGTG---TATT--AATA
564 GAATATCACGATTCTAAAGGAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATA
* * * * *
160346 GATTGCACCCAA-AGTGTCATGGCCCCAAAGAAAGCAA-GTTGTAATATGGACTATTA-ACATTT
629 GATTGC-TCCAAGAGTGTCATGGCCCTAAAGAAAGCAACGTTGCAATATGAAATATTATA-ATTT
* **** * * *
160408 TAAAAAATAAAAGCGATTGTGCCTAAAGTGTTTTGAAAGTTTTAGTCGATGGAGCCTTGGCGTTC
692 TAAAAAATAAAAGCAATTGCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTC
* * * * *
160473 CACATGGCAATTAAATAGGTTAAGAACAC
757 CCCACGACAATCAAATAGGTTAAGAGCAC
* *
160502 AAAGTATTACGATTAGGCAAAACAGAAACGATTGCGCCCCA-TA-AT-A----TC--------AT
1 AAAGTATTACGATTAGGCAAAATAGAAACGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * *
160552 -GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGA-ACGATTGCACCC--A-TTTCATGTCC
66 AGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAGATA-GATTGCGCCCAGAGTGTCATG-GC
* * * *
160612 CCCAAAGAAAGCACGTTGCAATATGAAATA-TATCATTTTAAAAAAT-AAAGCGATTGAACGTAA
129 CCCAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCAC-TAA
* * *
160675 AGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAAGAG
193 AGTATTATGAAAGTTTTA-TCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAG
* * * * *
160740 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTACACCCCAAAATATCACGGTTCTAAAGGA
257 CACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
* * *
160805 AATATGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATT
322 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATG
* *
160870 GCCCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGA-AT
387 GCCCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT-ACGT
* ** *
160934 GTAAAGTATTATG-AAGTTTTAGTTGATGGAGCCTTGGCGTTCTGCACAACAAACAAATAGGTTA
451 GTAAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCACACAACAATCAAATAGGTTA
* * *
160998 AGAGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCAC-AGTTCTA
516 AGAGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGCCCCAGAATATCACGA-TTCTA
* *
161062 AAGGGAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTG
580 AAGGAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCAAGAGTG
* * * * *
161127 TCATGGCCCCTAAGGTAAGC-ACGTTGCAATATGTAATATTATCATTTTTAAAAATAAAAGCAAT
645 TCATGG-CCCTAAAGAAAGCAACGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAAT
* * * * * *
161191 TGCAATTAAAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATA
709 TGCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATA
*
161256 GGTTAATAGCAC
774 GGTTAAGAGCAC
* * *
161268 AAA-TATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
** * * * *
161331 AGGTTGCAACTCGTAATGTCAACTTGTGTATTAATTGATAGATTGCGCTCAGAGTATCATGGCCC
66 AGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAGATAGATTGCGCCCAGAGTGTCATGG-CC
**
161396 CCAAAGAAAGTGCATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAAA
130 CCAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCA-CTAAA
* * *
161461 GTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAATAAC
194 GTATTATGAAAGTTTTATC-GATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAGC
* *
161526 ACAAAGTATTACGA-TAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAAA
258 ACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
* *
161590 ATAGGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATGG
323 ATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG
*
161655 CCCACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTACGTGT
388 CCCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTACGTGT
* * * * *
161719 AAAGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTAAG
453 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCACACAACAATCAAATAGGTTAAG
* * *
161784 AGCACAAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-
518 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGCCCCAGAATATCACGATTCTAAAG
* * * * *
161848 AAAATAGGTTGTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCA
583 GAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCAAGAGTGTCA
* * *
161913 TGGCCTCTCAGGAAAGC-TCGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAATTGC
648 TGGCC-CTAAAGAAAGCAACGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAATTGC
* * *
161977 AATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCATTGGCATTCCCCATGACAATCAAATAGGT
712 AATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGT
162042 TAAGAGCAC
777 TAAGAGCAC
* * * * * *
162051 AAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATATCATGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
162116 AAGTTGTGAATTG-AACTGTCAACTTGTGTATTAATAGATAGATTGTGCCCAGAGTGTCATGGCC
66 AGGTTGTGACTTGTAA-TGTCAACTTGTGTATTAATAGATAGATTGCGCCCAGAGTGTCATGGCC
* *
162180 CCAAAGAAATCGCATTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGCACTAAAA
130 CCAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCACT-AAA
* * * * *
162244 GTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGAAC
194 GTATTATGAAAGTTTTA-TCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAGC
* *
162309 ACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGATTCTAAAGGAA
258 ACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
* * *
162374 ATAGGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGG
323 ATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG
* * * * * ***
162439 CCCCCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGT
388 CCCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTACGTGT
* * * * ** * *
162504 AAAGTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAA
453 AAAGTATTATGAAAGTTTTAGCTGAT-GGAGCCTTGGCGTTCCACACAACAATCAAATAGGTTAA
* * * * * * *
162567 GAG-ATAAAAGTATTACGATTAGACAAAATAGAAGCGATTGTGCTCCAGAATATCAGGGA-TCT-
517 GAGCA-CAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGCCCCAGAATATCA-CGATTCTA
* * *
162629 AAGGAAGTAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGT
580 AAGGAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAA-TAGATTGCTCCAAGAGT
** * * * *
162693 GTCATGGACTTTAAAGAAAGC-ATGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGA
644 GTCATGG-CCCTAAAGAAAGCAACGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAA
*
162757 TTGCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATC-AAT
708 TTGCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAAT
*
162821 AGGTTAAGGGCAC
773 AGGTTAAGAGCAC
* * * ** * *
162834 AAAGTATTACGATTAGGC---A-AGAAATTG-TTACACTTCAGAACATAACGGTTCTAAAGGAAA
1 AAAGTATTACGATTAGGCAAAATAGAAA-CGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAA
* * * *
162894 TAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGATAGATTGCTCCCAAAGTGTCATGCCC
65 TAGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAGATAGATTGCGCCCAGAGTGTCATG-GC
* * *
162959 CCCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTAA
129 CCCAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGC-ACTAA
* * * * *
163024 AGTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATA-GTTAAGAG
193 AGTATTATGAAAGTTTTA-TCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAG
* * * * * *
163088 CACAAAGTA-TATGATTA-TTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGG
257 CACAAAGTATTACGATTAGGTAAAAC-AGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
* * *
163151 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCACAGTGTCAT
321 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCAT
* * *
163216 GGCCCCCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTTAAAAAATAAAAGCTATTGTAC
386 GGCCCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGC-AAT-TAC
* * *
163281 GTG--AAGTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCC-CTACGAA-AATCAAATA
449 GTGTAAAGTATTATGAAAGTTTT-AGCTGATGGAGCCTTGGCGTTCCAC-AC-AACAATCAAATA
* * *
163341 GGTTAAGAGCACAAA-TATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGTT
511 GGTTAAGAGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGCCCCAGAATATCACGAT
* * * * * * * * *
163405 TCTAAAGGAAATAGGTTGCGACTTGTAATTTCTACTTGTGTATTA-CATAATCGATTTCACCTAG
576 TCTAAAGGAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCAAG
** * * * * *
163469 AGTGTCATTTCCC-CAAG-AAGC-ATGTTACAATCTGAAATATT-TACATTTTAAAAAATAAATG
641 AGTGTCATGGCCCTAAAGAAAGCAACGTTGCAATATGAAATATTATA-ATTTTAAAAAATAAAAG
* * * * *
163530 --ATTGC-ATCTAAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTT-CCTATGATAATC
705 CAATTGCAAT-TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATC
*
163591 AAATAGATTAAGAGCAC
769 AAATAGGTTAAGAGCAC
* * * * * *
163608 AAAGCATTACGATTAGGCAAAATA-AAACGATTGCGCCCCAAAATATAACAGTTCTCAATGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
163672 AGGTTGCGACTTGTAATTTCAAC-T-TGTATTAATAGATAGATTGCGCTCAGAATGTCATGGCCC
66 AGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAGATAGATTGCGCCCAGAGTGTCATGGCCC
* *
163735 C-AAGAAAGCACATTGCAATCTGGAATATTATCATTTT-AAAAATAAAAGCGATTGCACGTAAAG
131 CAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCAC-TAAAG
*
163798 TATTATGAAAGTTTTAGT-GATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTAAGAGCA
195 TATTATGAAAGTTTTA-TCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAGCA
* * * * * * *
163862 CAAAATACTACGATTAGGCAAAATAGACACGGTTGTGCCCCA-TATATCACGGTTCTAAAGGAAA
259 CAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAA
*
163926 TAGGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGC
324 TAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGC
* * * * * *
163991 CCCCAAAGAAAGAATGTTGCAA-CTATAATATTATCATTTT-AAATAGAAAAG-AGATTGCGTGT
389 CCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCA-ATTACGTGT
* * * * * *
164053 -AA--ATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAG
453 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCACACAACAATCAAATAGGTTAAG
* * ** *
164115 AGCAAAAAGTATTACAATTAAACAAAATAGAAGCGG-T-TGCACTCCAGAATATCAC-AGTTCTA
518 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGC-C-CCAGAATATCACGA-TTCTA
* * * ** * *
164177 AAGAAAATAGGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGGGTT
580 AAGGAAATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCAAGAGTG
* * * * *
164242 TCATGGCCCCTAAGGAAAGCAAC-TTGCAAT-TTAGAATACTATCATTTTAAAATATAAAAGCAA
645 TCATGG-CCCTAAAGAAAGCAACGTTGCAATATGA-AATATTATAATTTTAAAAAATAAAAGCAA
*** * * *
164305 TTGTGCTT-AAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAAT
708 TTGCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAAT
164369 AGGTTAAGAGCAC
773 AGGTTAAGAGCAC
*
164382 AAAGTATTACGATTAGGCAAAATAGAAACTG-TTGCGCCCCAGAATATCACAGTTCTAAAGGAAA
1 AAAGTATTACGATTAGGCAAAATAGAAAC-GATTGCGCCCCAGAATATCACGGTTCTAAAGGAAA
* *
164446 TAGGTT-TCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGG
65 TAGGTTGT-GACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCGCCCAGAGTGTCATGG
* * * * *
164510 CCCCTAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAA-TCGATTGCATG
128 CCCCAAAGAAAGCACATTGCAATATGGAATA-TTATCATTTTAAAAAATAAAAGT-GATTGCA-C
* * * * * *
164574 TAAAATATTATGAAAGTTTTAGCCATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAA
190 TAAAGTATTATGAAAGTTTTATCGAT-GGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAA
* * * * * * * *
164639 GAGCACAAAGTAATACAATTA-G-ACAAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAA
254 GAGCACAAAGTATTACGATTAGGTA-AAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAA
* *
164702 AGGAAATAAGTTGTGACTTGT
318 AGGAAATAGGTTGCGACTTGT
164723 TCTCTTTAAA
Statistics
Matches: 3577, Mismatches: 501, Indels: 282
0.82 0.11 0.06
Matches are distributed among these distances:
756 3 0.00
757 84 0.02
758 65 0.02
759 29 0.01
760 139 0.04
761 21 0.01
762 39 0.01
763 10 0.00
764 32 0.01
765 34 0.01
766 118 0.03
767 75 0.02
768 86 0.02
769 26 0.01
770 21 0.01
771 58 0.02
772 190 0.05
773 104 0.03
774 135 0.04
775 88 0.02
776 43 0.01
777 66 0.02
778 68 0.02
779 348 0.10
780 179 0.05
781 130 0.04
782 93 0.03
783 401 0.11
784 637 0.18
785 254 0.07
786 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (785 bp):
AAAGTATTACGATTAGGCAAAATAGAAACGATTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
AGGTTGTGACTTGTAATGTCAACTTGTGTATTAATAGATAGATTGCGCCCAGAGTGTCATGGCCC
CAAAGAAAGCACATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCACTAAAGT
ATTATGAAAGTTTTATCGATGGAGCCTTGGCGTTCCGCACGACAATCAAATAGGTTAAGAGCACA
AAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAATA
GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCCC
CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTACGTGTAAA
GTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCACACAACAATCAAATAGGTTAAGAGC
ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTATGCCCCAGAATATCACGATTCTAAAGGAA
ATAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCAAGAGTGTCATGG
CCCTAAAGAAAGCAACGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAATTGCAATT
AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
AGCAC
Found at i:167761 original size:25 final size:25
Alignment explanation
Indices: 167712--167761 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
167702 ACTTCTATTC
* *
167712 AAAAATAATAAAAAAAAATTTAATT
1 AAAAATAATAAAAAAAAAATCAATT
167737 AAAAA-AATTAAAAAAAAAATCAATT
1 AAAAATAA-TAAAAAAAAAATCAATT
167762 GTTAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (25 bp):
AAAAATAATAAAAAAAAAATCAATT
Found at i:168335 original size:13 final size:13
Alignment explanation
Indices: 168310--168351 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
168300 TAACTCAAAA
168310 TTTAAAT-ATTAT
1 TTTAAATAATTAT
168322 TTTAAATAATTATT
1 TTTAAATAATTA-T
168336 TTTATAATAA-TAT
1 TTTA-AATAATTAT
168349 TTT
1 TTT
168352 CACATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.26
13 8 0.30
14 7 0.26
15 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATAATTAT
Found at i:168349 original size:14 final size:14
Alignment explanation
Indices: 168310--168351 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
168300 TAACTCAAAA
168310 TTTAAAT-ATTA-T
1 TTTAAATAATTATT
168322 TTTAAATAATTATT
1 TTTAAATAATTATT
168336 TTTATAATAA-TATT
1 TTTA-AATAATTATT
168350 TT
1 TT
168352 CACATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.26
13 4 0.15
14 11 0.41
15 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAATAATTATT
Done.