Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 53 of 199
Found at i:15595472 original size:2 final size:2
Alignment explanation
Indices: 15595465--15595499 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15595455 ATGACTTTTG
15595465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15595500 GCATTGACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15602197 original size:12 final size:12
Alignment explanation
Indices: 15602180--15602231 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
15602170 ATATCAATCG
15602180 AACTTTATTTAT
1 AACTTTATTTAT
15602192 AACTTTATATATAT
1 AACTTTAT-T-TAT
* *
15602206 AATTTTTCTTTAT
1 AA-CTTTATTTAT
*
15602219 AACTTTATATAT
1 AACTTTATTTAT
15602231 A
1 A
15602232 TGATTTCCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 16 0.50
13 6 0.19
14 6 0.19
15 4 0.12
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AACTTTATTTAT
Found at i:15602238 original size:25 final size:26
Alignment explanation
Indices: 15602187--15602237 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
15602177 TCGAACTTTA
15602187 TTTATAACTTTATATATATAATTTTTC
1 TTTATAACTTTATATATATAA-TTTTC
*
15602214 TTTATAACTTTATATATATGATTT
1 TTTATAACTTTATATATATAATTT
15602238 CCGAATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTATAACTTTATATATATAATTTTC
Found at i:15602246 original size:27 final size:27
Alignment explanation
Indices: 15602189--15602246 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
15602179 GAACTTTATT
* **
15602189 TATAACTTTATATATATAATTTTTCTT
1 TATAACTTTATATATATAATTTTCCAA
*
15602216 TATAACTTTATATATATGA-TTTCCGAA
1 TATAACTTTATATATATAATTTTCC-AA
15602243 TATA
1 TATA
15602247 GATAGGACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (27 bp):
TATAACTTTATATATATAATTTTCCAA
Found at i:15605440 original size:49 final size:49
Alignment explanation
Indices: 15605368--15605468 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
15605358 GTTTGAAAGT
15605368 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
1 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
15605417 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
1 GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
15605466 GTT
1 GTT
15605469 CTCTCAATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (49 bp):
GTTATTAAAGCTTAGCAGGCTAGCATTGCATTCTAGAACATTAATGAGG
Found at i:15607174 original size:22 final size:22
Alignment explanation
Indices: 15607148--15607201 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
15607138 ATATCCAAAC
*
15607148 AATAATAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAACAA
* * **
15607170 TATAAAAATGAAATAGTAACAA
1 AATAATAACAAAATAGTAACAA
*
15607192 AACAATAACA
1 AATAATAACA
15607202 TAACAACAAC
Statistics
Matches: 22, Mismatches: 10, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
AATAATAACAAAATAGTAACAA
Found at i:15610235 original size:12 final size:13
Alignment explanation
Indices: 15610213--15610241 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15610203 TGATTAAATG
15610213 AATTAAAAAGCCA
1 AATTAAAAAGCCA
15610226 AATT-AAAAGCCA
1 AATTAAAAAGCCA
15610238 AATT
1 AATT
15610242 TTGCTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:15613194 original size:12 final size:12
Alignment explanation
Indices: 15613177--15613201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15613167 GAATAAGTAA
15613177 AAACGATGTATT
1 AAACGATGTATT
15613189 AAACGATGTATT
1 AAACGATGTATT
15613201 A
1 A
15613202 TTTACATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAACGATGTATT
Found at i:15618357 original size:25 final size:25
Alignment explanation
Indices: 15618329--15618387 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
15618319 GCTAATTGAT
*
15618329 GAGCACTAACATGCTAATAATCAGA
1 GAGCACCAACATGCTAATAATCAGA
*
15618354 GAGCACCAACGTGCTAATAATCAGA
1 GAGCACCAACATGCTAATAATCAGA
15618379 GAGCACCAA
1 GAGCACCAA
15618388 ACACAAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (25 bp):
GAGCACCAACATGCTAATAATCAGA
Found at i:15618492 original size:131 final size:131
Alignment explanation
Indices: 15618257--15618518 Score: 506
Period size: 131 Copynumber: 2.0 Consensus size: 131
15618247 TTAATAGAAC
*
15618257 ACACAAGATATACGGAACATAACAGAACACCATCGAAACGGATGAACAGAGAGCACAAATGTGCT
1 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
15618322 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
66 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
15618387 A
131 A
15618388 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
1 ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
*
15618453 AATTGATGAGCACTAACATGCTAATAATCAGAGATCACCAACGTGCTAATAATCAGAGAGCACCA
66 AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
15618518 A
131 A
15618519 TGTGCTAATA
Statistics
Matches: 129, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (131 bp):
ACACAAGATATACGGAACATAACAGAACACCACCGAAACGGATGAACAGAGAGCACAAATGTGCT
AATTGATGAGCACTAACATGCTAATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA
A
Found at i:15618499 original size:25 final size:25
Alignment explanation
Indices: 15618460--15618538 Score: 122
Period size: 25 Copynumber: 3.2 Consensus size: 25
15618450 GCTAATTGAT
* *
15618460 GAGCACTAACATGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
*
15618485 GATCACCAACGTGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
*
15618510 GAGCACCAATGTGCTAATAATCAGA
1 GAGCACCAACGTGCTAATAATCAGA
15618535 GAGC
1 GAGC
15618539 GCGCTAAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (25 bp):
GAGCACCAACGTGCTAATAATCAGA
Found at i:15633236 original size:17 final size:17
Alignment explanation
Indices: 15633214--15633246 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15633204 TAGAATTGAG
15633214 TTGAGAACATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
15633231 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
15633247 GTTTAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:15635385 original size:13 final size:14
Alignment explanation
Indices: 15635347--15635388 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15635337 TATGTGAAGA
15635347 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
15635362 ATCATTTTTAAAATT
1 AT-ATTATTAAAATT
15635377 -TATTATTAAAAT
1 ATATTATTAAAAT
15635389 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:15635438 original size:9 final size:9
Alignment explanation
Indices: 15635424--15635456 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15635414 TAAAATGATA
15635424 AATTATATT
1 AATTATATT
15635433 AATTATATT
1 AATTATATT
15635442 AATTAT-TT
1 AATTATATT
15635450 -ATTATAT
1 AATTATAT
15635457 GACTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.22
8 3 0.13
9 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTATATT
Found at i:15641992 original size:26 final size:26
Alignment explanation
Indices: 15641954--15642013 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
15641944 ATCCACTCAT
* * *
15641954 GGTCATTCGACCAACTCAAACTCAAG
1 GGTCCTTCCACCAACTCAAACTAAAG
*
15641980 GGTCCTTCCACCAACTCAAGCTAAAG
1 GGTCCTTCCACCAACTCAAACTAAAG
*
15642006 GGACCTTC
1 GGTCCTTC
15642014 GATCCATCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (26 bp):
GGTCCTTCCACCAACTCAAACTAAAG
Found at i:15645582 original size:13 final size:14
Alignment explanation
Indices: 15645566--15645607 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15645556 TTTCAATTTT
15645566 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15645579 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
15645594 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15645608 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15645659 original size:15 final size:16
Alignment explanation
Indices: 15645638--15645683 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
15645628 TATTCAATAT
15645638 TAATATTTTAATAACA
1 TAATATTTTAATAACA
* *
15645654 -AATA-TTTATTAAAA
1 TAATATTTTAATAACA
15645668 TAATATTTTAATAACA
1 TAATATTTTAATAACA
15645684 CGCTAGGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATTTTAATAACA
Found at i:15648368 original size:61 final size:61
Alignment explanation
Indices: 15648258--15648375 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
15648248 ATCTTAAATA
* ** * *
15648258 TAATAAATTTAACTTTCAATATTTATAAAATTTATCATTTTAGTACTAATTCTAAAATTTT
1 TAATAAATTTAACTCTCAATATTTATAAAATCCATCAATTTAATACTAATTCTAAAATTTT
* *
15648319 TAATAAATTTAA-TACTCAACT-TTTATAAAATCCATCAATTTAATCCTAATTTTAAAA
1 TAATAAATTTAACT-CTCAA-TATTTATAAAATCCATCAATTTAATACTAATTCTAAAA
15648376 ATTAAAAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
60 1 0.02
61 46 0.96
62 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (61 bp):
TAATAAATTTAACTCTCAATATTTATAAAATCCATCAATTTAATACTAATTCTAAAATTTT
Found at i:15651043 original size:9 final size:9
Alignment explanation
Indices: 15651029--15651072 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
15651019 AGTTTTGAAT
15651029 ATTTTTATAA
1 ATTTTTAT-A
15651039 ATTTTTATA
1 ATTTTTATA
*
15651048 ATTTTTGTA
1 ATTTTTATA
15651057 ATTTTCTATA
1 ATTTT-TATA
15651067 AGTTTT
1 A-TTTT
15651073 CGTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 14 0.47
10 12 0.40
11 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15651051 original size:19 final size:19
Alignment explanation
Indices: 15651029--15651072 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15651019 AGTTTTGAAT
15651029 ATTTTTATAAATTTT-TATA
1 ATTTTTAT-AATTTTCTATA
*
15651048 ATTTTTGTAATTTTCTATA
1 ATTTTTATAATTTTCTATA
15651067 AGTTTT
1 A-TTTT
15651073 CGTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTCTATA
Found at i:15651079 original size:19 final size:18
Alignment explanation
Indices: 15651038--15651081 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15651028 TATTTTTATA
*
15651038 AATTTTTATAATTTTTGT
1 AATTTTTATAATTTTCGT
15651056 AATTTTCTATAAGTTTTCGT
1 AATTTT-TATAA-TTTTCGT
15651076 -ATTTTT
1 AATTTTT
15651082 TTGTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
AATTTTTATAATTTTCGT
Found at i:15653454 original size:10 final size:10
Alignment explanation
Indices: 15653439--15653472 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
15653429 TAATTTATGG
15653439 TTTTTAATAA
1 TTTTTAATAA
15653449 TTTTTAA-AA
1 TTTTTAATAA
15653458 -TTTTAATAA
1 TTTTTAATAA
15653467 TTTTTA
1 TTTTTA
15653473 TTTTAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.27
9 4 0.18
10 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:15653612 original size:38 final size:39
Alignment explanation
Indices: 15653521--15653612 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
15653511 TTTTTTTCAT
** *
15653521 TTTTAATATTTTTATAATTTTCTAAAATTTTCTATAACA
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
* *
15653560 TTTTAATAAA-TTATAATTTTCCATAATTTT-TATAA-T
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
15653596 TTTCTAATAAATTTATA
1 TTT-TAATAAATTTATA
15653613 TTAAATTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 3 0.07
37 12 0.26
38 23 0.50
39 8 0.17
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (39 bp):
TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
Found at i:15653619 original size:48 final size:49
Alignment explanation
Indices: 15653526--15653653 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 49
15653516 TTCATTTTTA
* *
15653526 ATATTTTTATAATTTTCTAAAATTTTCT-ATAACATTTTAATAAATTAT
1 ATATTTTCATAATTTTCTATAATTTTCTAATAACATTTTAATAAATTAT
* *
15653574 A-ATTTTCCATAATTTT-TATAATTTTCTAATAA-ATTTATATTAAATTTT
1 ATATTTT-CATAATTTTCTATAATTTTCTAATAACATTT-TAATAAATTAT
* *
15653622 ATATTTTTATGATTTTCTATAAGTTTTC-AATA
1 ATATTTTCATAATTTTCTATAA-TTTTCTAATA
15653654 TTGTAAATAC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
47 19 0.28
48 30 0.44
49 14 0.21
50 5 0.07
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (49 bp):
ATATTTTCATAATTTTCTATAATTTTCTAATAACATTTTAATAAATTAT
Found at i:15653771 original size:18 final size:17
Alignment explanation
Indices: 15653732--15653766 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
15653722 TTTTCTACAA
15653732 ATTTTAATATTTTTTAT
1 ATTTTAATATTTTTTAT
15653749 ATTTTAA-ATTTTTTAT
1 ATTTTAATATTTTTTAT
15653765 AT
1 AT
15653767 ATTTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTAATATTTTTTAT
Found at i:15653796 original size:23 final size:22
Alignment explanation
Indices: 15653753--15653796 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
15653743 TTTTATATTT
**
15653753 TAAATTTTTTATATATTTTTTG
1 TAAATTTTTTATATAGATTTTG
*
15653775 TAAAGTTTTTTTTATAGATTTT
1 TAAA-TTTTTTATATAGATTTT
15653797 CAATGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
TAAATTTTTTATATAGATTTTG
Found at i:15655167 original size:2 final size:2
Alignment explanation
Indices: 15655156--15655185 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15655146 CAAATCAGTG
15655156 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15655186 GTGGTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15656113 original size:20 final size:20
Alignment explanation
Indices: 15656090--15656136 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15656080 AACTACAATA
*
15656090 ATAATGAGAATA-CTAATTTT
1 ATAATAAGAATATC-AATTTT
*
15656110 ATAATAATAATATCAATTTT
1 ATAATAAGAATATCAATTTT
15656130 ATAATAA
1 ATAATAA
15656137 TGGTACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAATAAGAATATCAATTTT
Found at i:15656738 original size:16 final size:16
Alignment explanation
Indices: 15656719--15656758 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15656709 GGCTAAACTG
*
15656719 TAAATAAATAAATGAA
1 TAAATAAATAAAGGAA
* *
15656735 TAAATAAATAGAGGAC
1 TAAATAAATAAAGGAA
15656751 TAAATAAA
1 TAAATAAA
15656759 AATTTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAATAAATAAAGGAA
Found at i:15659649 original size:25 final size:25
Alignment explanation
Indices: 15659612--15659685 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
15659602 AGCTTTCTCT
* * *
15659612 TGAGCCATATAACGGGAAGCTTATG
1 TGAGCCTTGTAACGGGAAGCTCATG
* *
15659637 TGAGTCTTGTAACGGGAAACTCATG
1 TGAGCCTTGTAACGGGAAGCTCATG
*
15659662 TGAGCCTTGTAACCGGAAGCTCAT
1 TGAGCCTTGTAACGGGAAGCTCAT
15659686 TCGAGCTGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (25 bp):
TGAGCCTTGTAACGGGAAGCTCATG
Found at i:15661296 original size:44 final size:44
Alignment explanation
Indices: 15661193--15661486 Score: 257
Period size: 44 Copynumber: 6.6 Consensus size: 44
15661183 TCATTCTAAC
* * ** *
15661193 CCACTGCAACTTCAGAGG-TATAGGATTTGTAATTTCAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCTGCT
* * * * *
15661237 CCGCTACAACCTCAGGGAGATTAGATTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * *
15661281 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * *
15661326 CCACTACAACTTTAGGGAAATAAGATTTGTAGCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* * * *
15661370 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCT
* * * * * ** * *
15661415 TCATTGCAATTTCAGAGAAATAAGATTTGTAATTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* **
15661459 ACACTGCAACTTCAATGAGATAAGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
15661487 ATGGTTAACT
Statistics
Matches: 200, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
43 2 0.01
44 124 0.62
45 74 0.37
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
Found at i:15661355 original size:89 final size:88
Alignment explanation
Indices: 15661193--15661486 Score: 315
Period size: 89 Copynumber: 3.3 Consensus size: 88
15661183 TCATTCTAAC
* * * * * * * *
15661193 CCACTGCAACTTCAGAGGTATAGGATTTGTAAT-TTCAATCTACTCCGCTACAACCTCAGGGAGA
1 CCACTGCAACTTCAGAAG-ATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
* *
15661257 TTAGATTTGTAGCTTTAATCTGCT
65 TAAGATTTGTAGCTTTAATATGCT
*
15661281 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
1 CCACTGCAACTTCA-GAAGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAA
*
15661346 TAAGATTTGTAGCTTCAATATGCT
65 TAAGATTTGTAGCTTTAATATGCT
* * * * * * *
15661370 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTTCATTGCAA-TTTCAGAGAA
1 CCACTGCAACTTCAGA-AGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTT-AGGGAA
**
15661434 ATAAGATTTGTAATTTTAATATGCT
64 ATAAGATTTGTAGCTTTAATATGCT
*
15661459 ACACTGCAACTTCA-ATGAGATAAGATTT
1 CCACTGCAACTTCAGA--AGATAAGATTT
15661487 ATGGTTAACT
Statistics
Matches: 176, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
88 31 0.18
89 145 0.82
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (88 bp):
CCACTGCAACTTCAGAAGATAAGATTTGTTATCTTCAATCTGCTCCACTACAACTTTAGGGAAAT
AAGATTTGTAGCTTTAATATGCT
Found at i:15662338 original size:21 final size:22
Alignment explanation
Indices: 15662295--15662340 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
15662285 AAAAATGATA
*
15662295 AAAATTATTTAAATTTAATTAT
1 AAAATTATATAAATTTAATTAT
15662317 AAAA-TATATAAATATTAA-TAT
1 AAAATTATATAAAT-TTAATTAT
15662338 AAA
1 AAA
15662341 TTTACTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTATATAAATTTAATTAT
Found at i:15664245 original size:109 final size:108
Alignment explanation
Indices: 15664072--15664268 Score: 288
Period size: 108 Copynumber: 1.8 Consensus size: 108
15664062 GGTGCCGGCC
* * *
15664072 ATTGACAGGCCAACACAAAAAAAATTTGCTTTTTTTGGGTACTTGTGGTGCCATTGACATGCCAA
1 ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTTGTGGTGCCATTGACAGGCCAA
* *
15664137 CACCAAAAATATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
66 CACAAAAAAAATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
* * *
15664180 ATTGACAGGCTAGCACAAAAAAAAATTGATTTTTTT-TGTACTTGGTGGTGGCCATTGACAGGCC
1 ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTT-GTGGT-GCCATTGACAGGCC
*
15664244 AATACAAAAAAAATTTGATTTTTTT
64 AACACAAAAAAAATTTGATTTTTTT
15664269 ACGTGGTGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 6 0.08
108 37 0.47
109 35 0.45
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (108 bp):
ATTGACAGGCCAACACAAAAAAAAATTGATTTTTTTGGGTACTTGTGGTGCCATTGACAGGCCAA
CACAAAAAAAATTTGATTTTTTTTTTTGTACTTGGTGGTGGAG
Found at i:15664280 original size:53 final size:53
Alignment explanation
Indices: 15664053--15664268 Score: 256
Period size: 53 Copynumber: 4.0 Consensus size: 53
15664043 TTTCTAAAAC
** *
15664053 TTGTACTTTGGTGCCGGCCATTGACAGGCCAACACAAAAAAAATTTGCTTTTTT
1 TTGTAC-TTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
* * * *
15664107 TGGGTACTT-GTGGT-GCCATTGACATGCCAACACCAAAAATATTTGATTTTTTTTT
1 T-TGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGA---TTTTTT
** * * *
15664162 TTGTACTTGGTGGTGGAGATTGACAGGCTAGCACAAAAAAAAATTGATTTTTT
1 TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
*
15664215 TTGTACTTGGTGGTGGCCATTGACAGGCCAATACAAAAAAAATTTGATTTTTT
1 TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
15664268 T
1 T
15664269 ACGTGGTGGT
Statistics
Matches: 134, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
52 28 0.21
53 57 0.43
54 9 0.07
55 16 0.12
56 24 0.18
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (53 bp):
TTGTACTTGGTGGTGGCCATTGACAGGCCAACACAAAAAAAATTTGATTTTTT
Found at i:15680791 original size:109 final size:109
Alignment explanation
Indices: 15680651--15680870 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
15680641 TTTGAAAAAG
15680651 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
1 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
15680716 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
66 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
15680760 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
1 GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
15680825 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
66 AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
15680869 GA
1 GA
15680871 TTTTCCATCG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (109 bp):
GAAATTGAGTTCCTTGAAATTACTCACAAAATTAAAATTCTTGAATATATTTAGCCAAACCTATA
AATAAGCGTTATTCTCCTTTGGAAAAGTATTGATTTTAAGAATT
Found at i:15682945 original size:21 final size:19
Alignment explanation
Indices: 15682920--15682960 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15682910 CCAGCCTGAT
15682920 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
15682941 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
15682960 T
1 T
15682961 ATTTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:15685896 original size:18 final size:17
Alignment explanation
Indices: 15685868--15685904 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
15685858 AAATATTATC
*
15685868 TATTTAATTAATTAAAT
1 TATTTAATTAACTAAAT
15685885 TATTTAAATTAACTAAAT
1 TATTT-AATTAACTAAAT
15685903 TA
1 TA
15685905 ATTTTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTAATTAACTAAAT
Found at i:15685924 original size:9 final size:9
Alignment explanation
Indices: 15685873--15685907 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15685863 TTATCTATTT
15685873 AATTAATTA
1 AATTAATTA
*
15685882 AATTATTTA
1 AATTAATTA
*
15685891 AATTAACTA
1 AATTAATTA
15685900 AATTAATT
1 AATTAATT
15685908 TTCCAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:15689760 original size:25 final size:25
Alignment explanation
Indices: 15689732--15689838 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
15689722 TGCTCTCACG
15689732 AGCTGTGAATTGAGAAGCTCATACA
1 AGCTGTGAATTGAGAAGCTCATACA
*** * *
15689757 AGCTACAAATTGGGAACCTCATA-A
1 AGCTGTGAATTGAGAAGCTCATACA
* * **
15689781 TAGCTGTAAATTGAAAAGCTCATATG
1 -AGCTGTGAATTGAGAAGCTCATACA
*
15689807 AGCTG-GAAATCGAGAAGCTCATACA
1 AGCTGTG-AATTGAGAAGCTCATACA
*
15689832 AGTTGTG
1 AGCTGTG
15689839 GTGTGTCCAC
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
24 1 0.02
25 59 0.97
26 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (25 bp):
AGCTGTGAATTGAGAAGCTCATACA
Found at i:15689828 original size:50 final size:50
Alignment explanation
Indices: 15689732--15689829 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
15689722 TGCTCTCACG
* * * *
15689732 AGCTGTGAATTGAGAAGCTCATACAAGCTACAAATTGGGAACCTCATAAT
1 AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATAAT
** ** *
15689782 AGCTGTAAATTGAAAAGCTCATATGAGCTGGAAATCGAGAAGCTCATA
1 AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATA
15689830 CAAGTTGTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (50 bp):
AGCTGTAAATTGAAAAGCTCATACAAGCTACAAATCGAGAACCTCATAAT
Found at i:15695244 original size:27 final size:27
Alignment explanation
Indices: 15695203--15695291 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
15695193 TACATGTCAG
15695203 GAAAGAAAAGCCTTTGCGGCATAAAAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
* * *
15695230 GAAAGAAAAGTCTTTGTGGCATAATAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
* * * * *
15695257 GAAGGAAAAACCTTTGTGGTAGAAAAT
1 GAAAGAAAAGCCTTTGCGGCATAAAAT
*
15695284 AAAAGAAA
1 GAAAGAAA
15695292 TTCATTTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.21
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGCGGCATAAAAT
Found at i:15712710 original size:30 final size:30
Alignment explanation
Indices: 15712674--15712734 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15712664 CTTGATTATA
15712674 ATCAAGTACAGATTTCCATGTGACCCTTCT
1 ATCAAGTACAGATTTCCATGTGACCCTTCT
*
15712704 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGACCCTTCT
15712734 A
1 A
15712735 ACTGTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (30 bp):
ATCAAGTACAGATTTCCATGTGACCCTTCT
Found at i:15728437 original size:23 final size:24
Alignment explanation
Indices: 15728411--15728463 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
15728401 AATAAGAAAA
15728411 CAAGAAT-ACAAAAAACGTGCTAC
1 CAAGAATAACAAAAAACGTGCTAC
* *
15728434 CAAGAATAGACAAAGAATGTGCTAC
1 CAAGAATA-ACAAAAAACGTGCTAC
15728459 CAAGA
1 CAAGA
15728464 GCATACATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.27
25 19 0.73
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.13
Consensus pattern (24 bp):
CAAGAATAACAAAAAACGTGCTAC
Found at i:15728839 original size:24 final size:24
Alignment explanation
Indices: 15728812--15728865 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
15728802 AATCAAAGTC
* *
15728812 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
15728836 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15728860 AAATAT
1 AAATAT
15728866 TCTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15733265 original size:24 final size:24
Alignment explanation
Indices: 15733238--15733289 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
15733228 AATCAAAGTC
*
15733238 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
15733262 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15733286 AAAT
1 AAAT
15733290 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15738076 original size:18 final size:18
Alignment explanation
Indices: 15738041--15738080 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
15738031 GAAATATTTA
*
15738041 TTTTGATGTTTCTAATAT
1 TTTTGATGTTTATAATAT
15738059 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
15738079 TT
1 TT
15738081 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:15747290 original size:29 final size:29
Alignment explanation
Indices: 15747237--15747305 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
15747227 TGGGAATGAT
*
15747237 TTAATCTTTATAAAAGTATTTAAATAAAAA
1 TTAATATTT-TAAAAGTATTTAAATAAAAA
* *
15747267 TTAAATATTTTAAAA-TATTTAAATAAGAG
1 TT-AATATTTTAAAAGTATTTAAATAAAAA
15747296 TTAATATTTT
1 TTAATATTTT
15747306 TGAAAGTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.23
29 14 0.40
30 7 0.20
31 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAATATTTTAAAAGTATTTAAATAAAAA
Found at i:15748519 original size:19 final size:19
Alignment explanation
Indices: 15748479--15748521 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15748469 TAAAAATATT
15748479 TTTATATTTTATAATTAAA
1 TTTATATTTTATAATTAAA
15748498 TTTA-ATTTTAATAA-TAATA
1 TTTATATTTT-ATAATTAA-A
15748517 TTTAT
1 TTTAT
15748522 TATCTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATTTTATAATTAAA
Found at i:15748880 original size:24 final size:25
Alignment explanation
Indices: 15748847--15748897 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
15748837 AAATTTTAAT
*
15748847 ATACCATGT-AATTTTTTTTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
*
15748871 ATACCCTGTAAATTTTTTGTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
15748896 AT
1 AT
15748898 GCTCTATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (25 bp):
ATACCATGTAAATTTTTTGTTCAAA
Found at i:15754089 original size:45 final size:45
Alignment explanation
Indices: 15754038--15754125 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
15754028 GAAGTAAGAG
* * *
15754038 AATGGTCTGCTAATAGGGACGAAATTGCACAAACTATGTGGACAA
1 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACAA
*
15754083 AATGGTCTACTAAGAGAGACGAAATTTCACAAACTATGTGGAC
1 AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGAC
15754126 TAATTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (45 bp):
AATGGTCTACTAAGAGAGACGAAATTGCACAAACTATGTGGACAA
Found at i:15762172 original size:27 final size:27
Alignment explanation
Indices: 15762134--15762188 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15762124 TTTTGAAATT
*
15762134 ATTATGTCTTAAATTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
* *
15762161 ATTATGTTTTAAGCTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
15762188 A
1 A
15762189 ATTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
ATTATGTCTTAAACTTGTTAGATATTG
Found at i:15762200 original size:32 final size:32
Alignment explanation
Indices: 15762161--15762221 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
15762151 TTAGATATTG
15762161 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
15762193 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
15762222 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:15763499 original size:18 final size:18
Alignment explanation
Indices: 15763478--15763520 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15763468 ACAATTTAAA
15763478 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
15763496 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
15763514 ATGTAAA
1 ATATAAA
15763521 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:15772493 original size:25 final size:25
Alignment explanation
Indices: 15772451--15772531 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
15772441 GGACACACCA
* *
15772451 CAGCTCTTATGAGTTTCCCGATACT
1 CAGCTCGTATGAGCTTCCCGATACT
* * *
15772476 CATCTCGTATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGATACT
* * * *
15772501 CAGCTCGCATGAGCTTTCCGTTATT
1 CAGCTCGTATGAGCTTCCCGATACT
15772526 CAGCTC
1 CAGCTC
15772532 AAAAGAGCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTCCCGATACT
Found at i:15772539 original size:25 final size:25
Alignment explanation
Indices: 15772486--15772541 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
15772476 CATCTCGTAT
** *
15772486 GAGCTTCCCGTTATTCAGCTCGCAT
1 GAGCTTCCCGTTATTCAGCTCAAAA
*
15772511 GAGCTTTCCGTTATTCAGCTCAAAA
1 GAGCTTCCCGTTATTCAGCTCAAAA
15772536 GAGCTT
1 GAGCTT
15772542 GCTGTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTATTCAGCTCAAAA
Found at i:15774982 original size:16 final size:16
Alignment explanation
Indices: 15774957--15775004 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
15774947 TGAGCAATTT
*
15774957 AATAGATAAAATAAAA
1 AATATATAAAATAAAA
* **
15774973 AATATTTAAAATTCAA
1 AATATATAAAATAAAA
*
15774989 AATATATAAACTAAAA
1 AATATATAAAATAAAA
15775005 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AATATATAAAATAAAA
Found at i:15781752 original size:27 final size:29
Alignment explanation
Indices: 15781695--15781757 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
15781685 TATTAATAAG
**
15781695 AATAATAGTGTTAAATACTTTTCCTTCAAA
1 AATAATAACGTTAAATACTTTT-CTTCAAA
*
15781725 AATAATAACGTTAAATA-TTTT-TTTAAA
1 AATAATAACGTTAAATACTTTTCTTCAAA
15781752 AATAAT
1 AATAAT
15781758 TATGTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
29 4 0.13
30 15 0.50
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
AATAATAACGTTAAATACTTTTCTTCAAA
Found at i:15791162 original size:23 final size:24
Alignment explanation
Indices: 15791135--15791179 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15791125 TATATGTTAA
15791135 AAATGA-AATTAAAA-ATAAAAATT
1 AAATGATAA-TAAAACATAAAAATT
15791158 AAATGATAATAAAACATAAAAA
1 AAATGATAATAAAACATAAAAA
15791180 CAAAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATGATAATAAAACATAAAAATT
Found at i:15802364 original size:50 final size:50
Alignment explanation
Indices: 15802298--15802491 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 50
15802288 AGTGACAGTG
* *
15802298 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAAATGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAAATGA
* * * * * *
15802348 AAGGTCGCATGTGTAGTACTATTTGCAGGCTATTACGTGTATCAGATATTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCA-AAATGA
* * * * *
15802399 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCGAAAA-GT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AAAATGA
* * * *
15802449 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC
15802492 GAATGATAAT
Statistics
Matches: 116, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
50 74 0.64
51 41 0.35
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAAATGA
Found at i:15802479 original size:101 final size:101
Alignment explanation
Indices: 15802298--15802491 Score: 246
Period size: 101 Copynumber: 1.9 Consensus size: 101
15802288 AGTGACAGTG
* * * * * * *
15802298 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAAAATGAAAGGTCGCATGTGTA
1 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCAAAATGAAAGATCACATGTGTA
* * *
15802363 GTACTATTTGCAGGCTATTACGTGTATCAGATATTA
66 GTACTATGTGAAGGCTACTACGTGTATCAGATATTA
*** *
15802399 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCGAAAA-GTTTGATCACGTGTGT
1 ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACC-AAAATGAAAGATCACATGTGT
15802463 AGTACTATGTGAAGGCTACTACGTGTATC
65 AGTACTATGTGAAGGCTACTACGTGTATC
15802492 GAATGATAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 74 0.95
102 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (101 bp):
ATGGTCACCTGTGTAGTACTATGTGCAGACTACTACGTGAACCAAAATGAAAGATCACATGTGTA
GTACTATGTGAAGGCTACTACGTGTATCAGATATTA
Found at i:15803689 original size:40 final size:40
Alignment explanation
Indices: 15803590--15803705 Score: 99
Period size: 40 Copynumber: 2.9 Consensus size: 40
15803580 AAAAACTCCG
* * **
15803590 CTAAAAATCGAACATTAGCGGCG-CTTTATGAAAATCGCCA
1 CTAAAAAT-GAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
* * * **
15803630 CTAAAGATTTAGCAATAGCGGCGTTTTTAAAAAAATTTCCA
1 CTAAA-AATGAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
* **
15803671 CTAAAAATGAGCATTAGCGGCATTTTCCAAAAAAT
1 CTAAAAATGAGCATTAGCGGCGTTTTTAAAAAAAT
15803706 GCCGCAAAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
40 40 0.68
41 19 0.32
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (40 bp):
CTAAAAATGAGCATTAGCGGCGTTTTTAAAAAAATCGCCA
Found at i:15803808 original size:41 final size:41
Alignment explanation
Indices: 15803751--15804057 Score: 452
Period size: 41 Copynumber: 7.5 Consensus size: 41
15803741 GGGCCTTTCG
* *
15803751 TGGTCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* * *
15803792 TGGTCTTTAGCGGCGTTTTTAGAAAAGCACCGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* *
15803833 TAGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
*
15803874 TGGTCTTTAGCGTCATTTTTGGAAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* * *
15803915 TGGTCTTTAGCGTCATTTTTGGAAAAGCGCCACGAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* *
15803956 TGGTCTTTGGCGGCATTTTTGGCAAAGCGCCGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* * *
15803997 TGGCCTTTATCGGCATTTTTGGAAAAGCGCTGCTAATGCTC
1 TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
* *
15804038 TGGCCTTTAGCGGAATTTTT
1 TGGTCTTTAGCGGCATTTTT
15804058 AAAAAATCGC
Statistics
Matches: 243, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 243 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TGGTCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:15804552 original size:22 final size:22
Alignment explanation
Indices: 15804525--15804596 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
15804515 GTTGGAATTT
15804525 AGGGTTTAGGAGTTAGGGGTTA
1 AGGGTTTAGGAGTTAGGGGTTA
*
15804547 AGGGTTTATGG-GTTAGAGGTTA
1 AGGGTTTA-GGAGTTAGGGGTTA
* * * *
15804569 TGGGGTTAAGAGTTAGGGATTCA
1 AGGGTTTAGGAGTTAGGGGTT-A
15804592 AGGGT
1 AGGGT
15804597 CGGGTTAGGT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 32 0.82
23 6 0.15
ACGTcount: A:0.24, C:0.01, G:0.43, T:0.32
Consensus pattern (22 bp):
AGGGTTTAGGAGTTAGGGGTTA
Found at i:15804559 original size:15 final size:16
Alignment explanation
Indices: 15804536--15804580 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
15804526 GGGTTTAGGA
15804536 GTTA-GGGGTTAAG-G
1 GTTATGGGGTTAAGAG
15804550 GTTTAT-GGGTT-AGAG
1 G-TTATGGGGTTAAGAG
15804565 GTTATGGGGTTAAGAG
1 GTTATGGGGTTAAGAG
15804581 TTAGGGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 7 0.27
15 15 0.58
16 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (16 bp):
GTTATGGGGTTAAGAG
Found at i:15804801 original size:14 final size:15
Alignment explanation
Indices: 15804766--15804802 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
15804756 TATTTTAAGG
15804766 TTTAGGGAGTATAGA
1 TTTAGGGAGTATAGA
*
15804781 TTTAGGGATTATAGA
1 TTTAGGGAGTATAGA
15804796 -TTAGGGA
1 TTTAGGGA
15804803 ACATGGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (15 bp):
TTTAGGGAGTATAGA
Found at i:15804900 original size:301 final size:297
Alignment explanation
Indices: 15804398--15804990 Score: 813
Period size: 301 Copynumber: 2.0 Consensus size: 297
15804388 TAGGGTTTTT
* *
15804398 GGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTATTTTAA
1 GGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTAA
* ** *
15804463 GGTTTAGGGAGTATGAATTTAAGGATTATGGATTAGAGATTATGGTTTAAGGGTTGGAATTTAGG
66 GGTTTAGGGAGTATGAATTTAAGGATTATAGATTAGAGAACATGGTTTAAGGGTTGGAATTTAAG
* * * * *
15804528 GTTTAGGAGTTAGGGGTTAAGGGTTTATGGGTTAGAGGTTATGGGGTTAAGAGTTAGGGATTCAA
131 ATTTAGGAGTTAGGGGTTAAGGGTTTATGGGTTAGAAGTGATGGGATTAAGAGTTAGGCATTCAA
* *
15804593 GGGTCGGGTTAGGTTTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAATATGTTCTT
196 GGGTCGGGTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAACATGTTC--
15804658 ATATATATAATTGTAAAAGAAAAAATAATAAATTTATTTAG
259 -T-TATATAATTGTAAAAGAAAAAATAATAAATTTATTTAG
15804699 GGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTAA
1 GGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTAA
* * *
15804764 GGTTTAGGGAGTAT-AGATTTAGGGATTATAGATTAGGGAACATGGTTTAAAGGTTTGG-ATTTA
66 GGTTTAGGGAGTATGA-ATTTAAGGATTATAGATTAGAGAACATGGTTT-AAGGGTTGGAATTTA
* * * *
15804827 AGATTTAGGGGTTTAGGGGTT-AGATGTTT-TGGGGTTA-ATAGTGA-GGGATTTAGGGTTTAGG
129 AGATTTAGGAG-TTAGGGGTTAAG-GGTTTAT-GGGTTAGA-AGTGATGGGATTAAGAG-TTAGG
* * *
15804888 CCTT-AGGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTAATTTATATTTTAAACA
189 CATTCAAGGGTCGGGTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAACA
* *
15804952 TGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTA
254 TGTTCTTATATAATTGTAAAAGAAAAAATAATAAATTTA
15804991 ATATATTGAA
Statistics
Matches: 260, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
297 31 0.12
298 1 0.00
300 1 0.00
301 190 0.73
302 37 0.14
ACGTcount: A:0.29, C:0.03, G:0.27, T:0.41
Consensus pattern (297 bp):
GGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTAA
GGTTTAGGGAGTATGAATTTAAGGATTATAGATTAGAGAACATGGTTTAAGGGTTGGAATTTAAG
ATTTAGGAGTTAGGGGTTAAGGGTTTATGGGTTAGAAGTGATGGGATTAAGAGTTAGGCATTCAA
GGGTCGGGTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTAATTTATATTTTAAACATGTTCTT
ATATAATTGTAAAAGAAAAAATAATAAATTTATTTAG
Found at i:15805331 original size:19 final size:19
Alignment explanation
Indices: 15805284--15805329 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
15805274 AAATTATAAG
* *
15805284 AAATAAAATTAAAATACAA
1 AAATAAAAATGAAATACAA
15805303 AAATAAAAATGAAATA-AA
1 AAATAAAAATGAAATACAA
15805321 AAATAAAAA
1 AAATAAAAA
15805330 ATATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:15809542 original size:43 final size:43
Alignment explanation
Indices: 15809493--15809631 Score: 174
Period size: 43 Copynumber: 3.2 Consensus size: 43
15809483 GTTCTATAGT
15809493 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGAG-CTTTAGC
1 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATG-GTCTTTAGC
* * ** *
15809536 GGCGTTTGTGATAAAAGTGCCGTTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGGTCTTTAGC
* * *
15809579 GGCGTTTGTTACAAAAGCGA-AGCTAAAGGTCGTGGTCTTTAGC
1 GGCGTTTGTAACAAAAGC-ACCGCTAAAGGTCATGGTCTTTAGC
15809622 GGCGTTTGTA
1 GGCGTTTGTA
15809632 GGTAAAAACG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.99
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
GGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGGTCTTTAGC
Found at i:15809604 original size:86 final size:85
Alignment explanation
Indices: 15809469--15809630 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
15809459 TGCGAGAAGC
* * * *
15809469 GCCGTTAAAGGTTTGTTCTATAGTGGCGTTTGTAACAAAAGCACCGCTAAAGGTCATGAG-CTTT
1 GCCGTTAAAGGTATGGTCTATAGCGGCGTTTGTAACAAAAGCACAGCTAAAGGTCATG-GTCTTT
15809533 AGCGGCGTTTGTGATAAAAGT
65 AGCGGCGTTTGTGATAAAAGT
* * *
15809554 GCCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTTACAAAAGCGA-AGCTAAAGGTCGTGGTCTT
1 GCCGTTAAAGGT-ATGGTCTATAGCGGCGTTTGTAACAAAAGC-ACAGCTAAAGGTCATGGTCTT
15809618 TAGCGGCGTTTGT
64 TAGCGGCGTTTGT
15809631 AGGTAAAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 13 0.19
86 53 0.79
87 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (85 bp):
GCCGTTAAAGGTATGGTCTATAGCGGCGTTTGTAACAAAAGCACAGCTAAAGGTCATGGTCTTTA
GCGGCGTTTGTGATAAAAGT
Found at i:15813238 original size:13 final size:13
Alignment explanation
Indices: 15813222--15813246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15813212 GAAAGATTTC
15813222 TTGAAAATTTCGT
1 TTGAAAATTTCGT
15813235 TTGAAAATTTCG
1 TTGAAAATTTCG
15813247 ACGTTTGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
TTGAAAATTTCGT
Found at i:15814335 original size:51 final size:48
Alignment explanation
Indices: 15814216--15814451 Score: 197
Period size: 51 Copynumber: 4.7 Consensus size: 48
15814206 AAAGTGATGG
* * *** *
15814216 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAC--GTACCAGATA-GTTCGA
* * *
15814266 TCGCATGTGTAGTACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA--CGTACCAGATAG-TTCGA
* * * *
15814317 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCAGTTA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAC--GTACCAGATAGTT--CGA
* * *
15814368 TCACGTGTGTAGTACTATGTGCAGACTACTACGTAAACCGGAAAGTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGT--ACCAGATAGTTCGA
*
15814418 TCACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGT
15814452 GTATCGAATG
Statistics
Matches: 150, Mismatches: 25, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
49 5 0.03
50 68 0.45
51 74 0.49
52 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (48 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTACCAGATAGTTCGA
Found at i:15814484 original size:101 final size:101
Alignment explanation
Indices: 15814216--15814491 Score: 328
Period size: 101 Copynumber: 2.7 Consensus size: 101
15814206 AAAGTGATGG
* *
15814216 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGATAATGGTCACATGTGTAGT
* * *
15814279 ACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAGACTACTA-GCGTACCAGAAAGCTTCGA
* * * * *
15814317 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATC-AGTTATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGA-TAATGGTCACATGTGTAGT
*
15814381 ACTATGTGCAGACTACTA-CGTAAACCGGAAAG-TTCGA
65 ACTATGTGCAGACTACTAGCGT--ACCAGAAAGCTTCGA
* * * * *
15814418 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
15814483 CTATGTGCA
66 CTATGTGCA
15814492 AACCACCGAA
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 104 0.70
102 39 0.26
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGACTACTAGCGTACCAGAAAGCTTCGA
Found at i:15831604 original size:16 final size:17
Alignment explanation
Indices: 15831564--15831605 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
15831554 GTAGTAGATT
*
15831564 GATTACGTTGGTAAGGC
1 GATTATGTTGGTAAGGC
15831581 GTATTATGTTGGTAAGGC
1 G-ATTATGTTGGTAAGGC
15831599 -ATTATGT
1 GATTATGT
15831606 GATTTAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 1 0.04
18 15 0.65
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (17 bp):
GATTATGTTGGTAAGGC
Found at i:15833680 original size:16 final size:16
Alignment explanation
Indices: 15833659--15833694 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15833649 CTGCACTACT
15833659 TTTGTTGAAACGAACC
1 TTTGTTGAAACGAACC
*
15833675 TTTGTTGAAACGATCC
1 TTTGTTGAAACGAACC
15833691 TTTG
1 TTTG
15833695 ACATCCGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (16 bp):
TTTGTTGAAACGAACC
Found at i:15839604 original size:101 final size:102
Alignment explanation
Indices: 15839484--15839668 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
15839474 AAAATGATGG
*
15839484 TCACGTGTGTAGTACTATGTCCAGGCCACTACGTGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTCCAGGCCACTACGTGTATCGG-ATGATAATGGTCACATGTGTAGT
15839547 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCAA
65 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCAA
* * * *
15839585 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTTACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTCCAGGCCACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
15839650 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
15839669 TGAACCGAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTCCAGGCCACTACGTGTATCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGCTTCAA
Found at i:15839645 original size:51 final size:50
Alignment explanation
Indices: 15839482--15839666 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
15839472 TGAAAATGAT
* * *
15839482 GGTCACGTGTGTAGTACTATGTCCAGGCCACTACGTGTATCGGAATGAT-A
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGATAA
* * * * * *
15839532 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-G-AT-AA
* *
15839585 --TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAA
*
15839633 TGGTTACATGTGTAGTACTATGTGCAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
15839667 TGTGAACCGA
Statistics
Matches: 110, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 37 0.34
51 67 0.61
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAA
Found at i:15839670 original size:26 final size:26
Alignment explanation
Indices: 15839590--15839670 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
15839580 TTCAATCACG
15839590 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
15839616 CGTGTA-T-CGGATG-GTAATGGTTAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCTACTA
15839641 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
15839667 TGTG
1 TGTG
15839671 AACCGAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:15839728 original size:45 final size:45
Alignment explanation
Indices: 15839672--15839766 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
15839662 TACTATGTGA
* * *
15839672 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
*
15839717 ACCGGACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
15839762 ACCGA
1 ACCGA
15839767 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGATGGTTGCTATGTGCTGAATCC
Found at i:15844373 original size:29 final size:29
Alignment explanation
Indices: 15844341--15844468 Score: 168
Period size: 29 Copynumber: 4.4 Consensus size: 29
15844331 GATGCCTTTA
* *
15844341 TGGCTATCTTTATTAAAAGGAAGTTTTTG
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
*
15844370 TGGCTATCTCTATTAAAAGGAAGCGTTT-
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
* * *
15844398 TGGCTATCTCTGTGAAAAGGAAGCTTTTA
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
* *
15844427 TGGCTATCTCTACTAAAAGGAAGCCTTTG
1 TGGCTATCTCTATTAAAAGGAAGCTTTTG
*
15844456 TGGCAATCTCTAT
1 TGGCTATCTCTAT
15844469 CAAAGGATTC
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 25 0.29
29 60 0.71
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (29 bp):
TGGCTATCTCTATTAAAAGGAAGCTTTTG
Found at i:15844419 original size:57 final size:58
Alignment explanation
Indices: 15844297--15844468 Score: 186
Period size: 57 Copynumber: 3.0 Consensus size: 58
15844287 TAGCTTCCAT
* * * * * * * *
15844297 AAAAGGACA-TTTTTGTAGTTATATCTATTCAATGGATGCCTTTATGGCTATCTTTATT
1 AAAAGGA-AGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
* *
15844355 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCGTTT-TGGCTATCTCTGTG
1 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
* * * * *
15844412 AAAAGGAAGCTTTTATGGCTATCTCTACTAAAAGGAAGCCTTTGTGGCAATCTCTAT
1 AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTAT
15844469 CAAAGGATTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
57 51 0.53
58 45 0.47
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (58 bp):
AAAAGGAAGTTTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTATGGCTATCTCTATG
Found at i:15844482 original size:28 final size:29
Alignment explanation
Indices: 15844334--15844487 Score: 125
Period size: 29 Copynumber: 5.4 Consensus size: 29
15844324 TTCAATGGAT
* * * *
15844334 GCCTTTATGGCTATCTTTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
** * *
15844363 GTTTTTGTGGCTATCTCTATTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
* * *
15844392 GCGTTT-TGGCTATCTCT-GTGAAAAGGAA
1 GCCTTTGTGGCAATCTCTACT-AAAAGGAA
* * *
15844420 GCTTTTATGGCTATCTCTACTAAAAGGAA
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
* *
15844449 GCCTTTGTGGCAATCTCTA-TCAAAGGAT
1 GCCTTTGTGGCAATCTCTACTAAAAGGAA
*
15844477 TCCTTTGTGGC
1 GCCTTTGTGGC
15844488 GAGACTCTAA
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 41 0.38
29 64 0.60
30 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (29 bp):
GCCTTTGTGGCAATCTCTACTAAAAGGAA
Found at i:15846343 original size:61 final size:58
Alignment explanation
Indices: 15846267--15846417 Score: 162
Period size: 56 Copynumber: 2.6 Consensus size: 58
15846257 ATACAACATG
* * * * * *
15846267 CAGTTACAGTTTGGGCCTGAGCCCTAATCAGTAATAGCACAGTGTGGGCCTTAGCACGATA
1 CAGTAACAGTGTGGGCCTTAGCCC-AATCAGTAATA--ACAGTATGGGCCATAGCACAATA
* *
15846328 CAGTAACAGTGTGGGCCTTAGCCCAAT-A-CAATAACAGTATGGGCCATAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATCAGTAATAACAGTATGGGCCATAGCACAATA
* *
15846384 CAATAACAGTGTGGGTCTTAGCCCAATGCAGTAA
1 CAGTAACAGTGTGGGCCTTAGCCCAAT-CAGTAA
15846418 CAGTATAGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
56 44 0.58
58 5 0.07
59 3 0.04
60 3 0.04
61 21 0.28
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (58 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATCAGTAATAACAGTATGGGCCATAGCACAATA
Found at i:15846345 original size:28 final size:28
Alignment explanation
Indices: 15846305--15846421 Score: 162
Period size: 28 Copynumber: 4.2 Consensus size: 28
15846295 CAGTAATAGC
* * *
15846305 ACAGTGTGGGCCTTAGCACGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
15846333 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* *
15846361 ACAGTATGGGCCATAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* * *
15846389 ACAGTGTGGGTCTTAGCCCAATGCAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
15846417 ACAGT
1 ACAGT
15846422 ATAGTGCAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:15846561 original size:26 final size:26
Alignment explanation
Indices: 15846530--15846631 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
15846520 CCAATATCGT
* *
15846530 AGCAAACCTGCCAGTAACAGTATAGT
1 AGCAAAGCTGCCAGTAACAGTATAGC
* *
15846556 AACAAAGCTGCCAGTAACAATATCA-C
1 AGCAAAGCTGCCAGTAACAGTAT-AGC
* * *
15846582 AGCAAAGTTGCCAATAACAGTATCGC
1 AGCAAAGCTGCCAGTAACAGTATAGC
15846608 AGCAAAGCTGCCAGTAACAGTATA
1 AGCAAAGCTGCCAGTAACAGTATA
15846632 CTTCCTCTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 61 0.98
27 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTATAGC
Found at i:15846963 original size:27 final size:26
Alignment explanation
Indices: 15846783--15846976 Score: 165
Period size: 27 Copynumber: 7.2 Consensus size: 26
15846773 TATAACAGTT
* *
15846783 ATTTTACCCTATGGGGGTATTTCAGG-C
1 ATTTTACCCT-TCGGGGTAATTC-GGTC
* * * *
15846810 ATTCTACCCTTAGGGTGTATTTCAGTC
1 ATTTTACCCTTCGGG-GTAATTCGGTC
* *
15846837 ATTTTACCCTTCGGAGGTAACTCGATC
1 ATTTTACCCTTCGG-GGTAATTCGGTC
*
15846864 ATTTTACCCTTCTGGGGTAATTCGATC
1 ATTTTACCCTTC-GGGGTAATTCGGTC
* * *
15846891 ATTTTTACCCTTCAAGGGTAATTCAGTT
1 A-TTTTACCCTTC-GGGGTAATTCGGTC
15846919 ATTTTACCCTTCGGGGGTAATTCGGTC
1 ATTTTACCCTTC-GGGGTAATTCGGTC
* * *
15846946 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCTTCG-GGGTAATTCGGTC
15846973 ATTT
1 ATTT
15846977 GCCCATAATT
Statistics
Matches: 139, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.04
27 108 0.78
28 25 0.18
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTACCCTTCGGGGTAATTCGGTC
Found at i:15846975 original size:82 final size:81
Alignment explanation
Indices: 15846783--15846976 Score: 223
Period size: 82 Copynumber: 2.4 Consensus size: 81
15846773 TATAACAGTT
* * * *
15846783 ATTTTACCCTATGGGGGTATTTCAGGCA-TTCTACCCTTAGGGTGTATTTCAGTCATTTTACCCT
1 ATTTTACCC-ATCGGGGTATTTCAGTCATTTCTACCCTTAAGGTGTAATTCAGTCATTTTACCCT
15846847 TCGGAGGTAACTCGATC
65 TCGGAGGTAACTCGATC
* * * *
15846864 ATTTTACCCTTCTGGGGTAATTC-GATCATTTTTACCCTTCAAGG-GTAATTCAGTTATTTTACC
1 ATTTTACCCATC-GGGGTATTTCAG-TCATTTCTACCCTT-AAGGTGTAATTCAGTCATTTTACC
* * *
15846927 CTTCGGGGGTAATTCGGTC
63 CTTCGGAGGTAACTCGATC
15846946 ATTTTACCCATCGAGGGTATTTCAGTCATTT
1 ATTTTACCCATCG-GGGTATTTCAGTCATTT
15846977 GCCCATAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
80 2 0.02
81 21 0.22
82 67 0.71
83 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (81 bp):
ATTTTACCCATCGGGGTATTTCAGTCATTTCTACCCTTAAGGTGTAATTCAGTCATTTTACCCTT
CGGAGGTAACTCGATC
Found at i:15849385 original size:18 final size:18
Alignment explanation
Indices: 15849362--15849396 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15849352 TGGTTGGTTC
15849362 TAATGAGAATAATAATGT
1 TAATGAGAATAATAATGT
*
15849380 TAATGAGCATAATAATG
1 TAATGAGAATAATAATG
15849397 CACAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
TAATGAGAATAATAATGT
Found at i:15851089 original size:34 final size:34
Alignment explanation
Indices: 15851046--15851115 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
15851036 TTTTCAACAG
*
15851046 TAAGTTTTCTACAAAACCCTATTTTTAACTCTTA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
15851080 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
15851114 TA
1 TA
15851116 CTTTGTTTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (34 bp):
TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
Found at i:15851333 original size:31 final size:31
Alignment explanation
Indices: 15851292--15851352 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
15851282 TTGCGAGCAT
* * *
15851292 AGCTCCCTATGCTAGTTCTCTGTGATAAGTA
1 AGCTCCCTATGCGAGCTCTCTATGATAAGTA
* *
15851323 AGCTCTCTATGCGAGCTCTCTATGCTAAGT
1 AGCTCCCTATGCGAGCTCTCTATGATAAGT
15851353 CTCTGTGTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (31 bp):
AGCTCCCTATGCGAGCTCTCTATGATAAGTA
Found at i:15851341 original size:13 final size:13
Alignment explanation
Indices: 15851323--15851347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15851313 GTGATAAGTA
15851323 AGCTCTCTATGCG
1 AGCTCTCTATGCG
15851336 AGCTCTCTATGC
1 AGCTCTCTATGC
15851348 TAAGTCTCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (13 bp):
AGCTCTCTATGCG
Found at i:15856260 original size:18 final size:18
Alignment explanation
Indices: 15856239--15856276 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15856229 CTAATAATTT
**
15856239 AAAAAGTATATTTATTCA
1 AAAAAGTATAAATATTCA
15856257 AAAAAGTATAAATATTCA
1 AAAAAGTATAAATATTCA
15856275 AA
1 AA
15856277 TTATTGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAAGTATAAATATTCA
Found at i:15857107 original size:18 final size:17
Alignment explanation
Indices: 15857076--15857109 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15857066 TATTTATGGA
*
15857076 TATTTTATATTTTTTTC
1 TATTTTATAATTTTTTC
15857093 TATTTCTATAATTTTTT
1 TATTT-TATAATTTTTT
15857110 TTCTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTATAATTTTTTC
Found at i:15857267 original size:23 final size:23
Alignment explanation
Indices: 15857203--15857276 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
15857193 TATATATTTC
*
15857203 TTTTATTTTCATATATTTA-ATA
1 TTTTATTTTAATATATTTATATA
*
15857225 TTTTATTTTTAATTAAATTTATATA
1 TTTTA-TTTTAA-TATATTTATATA
* * *
15857250 TTTTATTGTAATATATTTTTAGA
1 TTTTATTTTAATATATTTATATA
15857273 TTTT
1 TTTT
15857277 TATATTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.12
23 18 0.42
24 12 0.28
25 8 0.19
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (23 bp):
TTTTATTTTAATATATTTATATA
Found at i:15857346 original size:17 final size:17
Alignment explanation
Indices: 15857302--15857351 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
15857292 ATTTTTTTCT
*
15857302 TTTTTCTTTTTTATATA
1 TTTTTCTATTTTATATA
* **
15857319 TTTATGGATTTTATATA
1 TTTTTCTATTTTATATA
15857336 TTTTTCTATTTT-TATA
1 TTTTTCTATTTTATATA
15857352 AATTTCAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTCTATTTTATATA
Found at i:15860948 original size:16 final size:16
Alignment explanation
Indices: 15860927--15860958 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15860917 TGACATGTGG
*
15860927 CAATTTTTTGTTCAAC
1 CAATTTTTTGTCCAAC
15860943 CAATTTTTTGTCCAAC
1 CAATTTTTTGTCCAAC
15860959 ATCAAATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
CAATTTTTTGTCCAAC
Found at i:15865314 original size:27 final size:27
Alignment explanation
Indices: 15865265--15865363 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
15865255 GACAAACCCT
* * * *
15865265 AAAGGAACTCATTTATGGTGCAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
** *
15865292 AAAGGAATTCCTTTGTGGGGCAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
*
15865319 AAAGGAACGCCTTTGTGGCACAATATG
1 AAAGGAACGCCTTTGTGGCGCAATATG
* *
15865346 AAAGGAATGCCTCTGTGG
1 AAAGGAACGCCTTTGTGG
15865364 AAAAATATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (27 bp):
AAAGGAACGCCTTTGTGGCGCAATATG
Found at i:15865370 original size:27 final size:27
Alignment explanation
Indices: 15865285--15865376 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
15865275 ATTTATGGTG
* **
15865285 CAATATGAAAGGAATTCCTTTGTGGGG
1 CAATATGAAAGGAATGCCTTTGTGGAA
* *
15865312 CAATATGAAAGGAACGCCTTTGTGGCA
1 CAATATGAAAGGAATGCCTTTGTGGAA
*
15865339 CAATATGAAAGGAATGCCTCTGTGGAA
1 CAATATGAAAGGAATGCCTTTGTGGAA
* *
15865366 AAATATTAAAG
1 CAATATGAAAG
15865377 AGTAGTCTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (27 bp):
CAATATGAAAGGAATGCCTTTGTGGAA
Found at i:15868087 original size:20 final size:20
Alignment explanation
Indices: 15868062--15868100 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15868052 TTACTTTTTC
15868062 TTTACTTACTCTCTTACTTG
1 TTTACTTACTCTCTTACTTG
*
15868082 TTTACTTACTTTCTTACTT
1 TTTACTTACTCTCTTACTT
15868101 AAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTACTTACTCTCTTACTTG
Found at i:15868430 original size:50 final size:50
Alignment explanation
Indices: 15868302--15868543 Score: 193
Period size: 50 Copynumber: 4.7 Consensus size: 50
15868292 AATAATAACA
* * * *
15868302 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAG
* * * *
15868351 TGCCAATGCCATATCTCAAATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* ** * *
15868401 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTCATATCAG
* ** ** *
15868451 TGCCAAAGCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATAAACTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT--A-TC---AG
** *
15868507 TGCCAATTTCATGTCCCACACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15868544 TCTCATCCCC
Statistics
Matches: 153, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
48 3 0.02
49 36 0.24
50 80 0.52
51 1 0.01
53 2 0.01
56 31 0.20
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
Found at i:15868693 original size:22 final size:21
Alignment explanation
Indices: 15868649--15868693 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
15868639 TCGACATCAA
**
15868649 ATAATTTCATAAAATAAGTAC
1 ATAATTTCATAAAATAACAAC
*
15868670 ATAATTTCTTGAAAATAACAAC
1 ATAATTTCAT-AAAATAACAAC
15868692 AT
1 AT
15868694 TAATAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATTTCATAAAATAACAAC
Found at i:15873300 original size:22 final size:22
Alignment explanation
Indices: 15873258--15873301 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15873248 GCAAAAAATT
15873258 CTGCCAGTAAAAATGTAGACAAG
1 CTGCCAGTAAAAA-GTAGACAAG
15873281 CTGCCAGTAAAAA-TACGACAA
1 CTGCCAGTAAAAAGTA-GACAA
15873302 ATCGCCATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 5 0.25
23 13 0.65
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (22 bp):
CTGCCAGTAAAAAGTAGACAAG
Found at i:15880477 original size:27 final size:27
Alignment explanation
Indices: 15880444--15880583 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
15880434 CGGTGAACCC
15880444 TGAAAGGAACACCTTTGTGGCATAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* * *
15880471 TTAAAGGAACACCTTTATGGCGTAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* * *
15880498 TAAAAGGAACGCCTTTGTGGCACAATA
1 TGAAAGGAACACCTTTGTGGCATAATA
* *
15880525 TGAAAGGACCGCCTTTGT-G-ATGCAATA
1 TGAAAGGAACACCTTTGTGGCAT--AATA
*
15880552 TGAAGGGAACACCTTTGTGGCGA-AATA
1 TGAAAGGAACACCTTTGTGGC-ATAATA
15880579 TGAAA
1 TGAAA
15880584 AGTAGCTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 89 0.96
28 1 0.01
30 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (27 bp):
TGAAAGGAACACCTTTGTGGCATAATA
Found at i:15880598 original size:26 final size:27
Alignment explanation
Indices: 15880564--15880643 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
15880554 AAGGGAACAC
15880564 CTTTGTGGCGAAATATGAAA-AGTAG-
1 CTTTGTGGCGAAATATGAAAGAGTAGT
15880589 CTTTTGTGGCGAAATATGAAAGAGTAGT
1 C-TTTGTGGCGAAATATGAAAGAGTAGT
* * *
15880617 CTTTATGGAGAAATATGAAATAGTAGT
1 CTTTGTGGCGAAATATGAAAGAGTAGT
15880644 GTAGCATCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 19 0.39
27 28 0.57
28 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCGAAATATGAAAGAGTAGT
Found at i:15882140 original size:27 final size:27
Alignment explanation
Indices: 15882097--15882164 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
15882087 TATGAAATAG
*
15882097 AAGCCTTT-TCGGTGTATTTGTAAAGAA
1 AAGCCTTTGT-GGCGTATTTGTAAAGAA
15882124 AAGCCTTTGTGGCGTATTTGTAAAGAA
1 AAGCCTTTGTGGCGTATTTGTAAAGAA
*
15882151 AAACCTTTGTGGCG
1 AAGCCTTTGTGGCG
15882165 AGCCTATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
AAGCCTTTGTGGCGTATTTGTAAAGAA
Found at i:15882190 original size:30 final size:28
Alignment explanation
Indices: 15882145--15882218 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 28
15882135 GCGTATTTGT
* * *
15882145 AAAGAAAAACCTTTGTGGCGAGCCTATGA
1 AAAGGAAAGCCTTTGTGGCAAGCCTAT-A
* *
15882174 AATGGAAAGGCCTTTGTGGCAAGCCTCTA
1 AAAGGAAA-GCCTTTGTGGCAAGCCTATA
15882203 AAAGGAAAGCCTTTGT
1 AAAGGAAAGCCTTTGT
15882219 AGAGAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 8 0.21
29 14 0.37
30 16 0.42
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (28 bp):
AAAGGAAAGCCTTTGTGGCAAGCCTATA
Found at i:15882306 original size:29 final size:30
Alignment explanation
Indices: 15882234--15882308 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
15882224 AATTTTGTAC
* * * *
15882234 AAAAAGCCTTTATGGCAAATCTCTGTAAAGG
1 AAAAAGCCCTTGTGGCAAACCTCTCTAAA-G
*
15882265 AAAAAGCCGTTGTGGCAAACCTCTCTAAA-
1 AAAAAGCCCTTGTGGCAAACCTCTCTAAAG
15882294 AAAAAGCCCTTGTGG
1 AAAAAGCCCTTGTGG
15882309 TGACTTCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 14 0.36
31 25 0.64
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (30 bp):
AAAAAGCCCTTGTGGCAAACCTCTCTAAAG
Found at i:15883764 original size:26 final size:26
Alignment explanation
Indices: 15883726--15883775 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15883716 GCTTTACAAT
15883726 TAGCCTCTATGGAGAAATATGAAAAG
1 TAGCCTCTATGGAGAAATATGAAAAG
* * *
15883752 TAGCCTTTTTGGATAAATATGAAA
1 TAGCCTCTATGGAGAAATATGAAA
15883776 TGTAACACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (26 bp):
TAGCCTCTATGGAGAAATATGAAAAG
Found at i:15885056 original size:21 final size:21
Alignment explanation
Indices: 15884997--15885061 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
15884987 GGCTGTACAG
* *
15884997 AAGCACATAAGTGCTAAATCGA
1 AAGCACATAAGAGCTGAAT-GA
* * *
15885019 AA-CCCATAAGGGTTGAATGA
1 AAGCACATAAGAGCTGAATGA
* *
15885039 AAGCTCATAAGAGCTGAACGA
1 AAGCACATAAGAGCTGAATGA
15885060 AA
1 AA
15885062 ACCCAGAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 4 0.12
21 28 0.82
22 2 0.06
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
AAGCACATAAGAGCTGAATGA
Found at i:15885064 original size:42 final size:43
Alignment explanation
Indices: 15885017--15885131 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 43
15885007 GTGCTAAATC
* *
15885017 GAAACCCATAAGGGTTGAA-TGAAAGCTCATAAGAGCTGAAC-
1 GAAACCCATAAGGGTTAAACTGAAAGCTCATAACAGCTGAACT
*
15885058 GAAAACCCAGAAGGGTTAAACT-AAAGCTCGA-AACAGCTGAACT
1 G-AAACCCATAAGGGTTAAACTGAAAGCTC-ATAACAGCTGAACT
15885101 GAAACCCATTAA-GGTTAAACTGAAA-CTCATA
1 GAAACCCA-TAAGGGTTAAACTGAAAGCTCATA
15885132 TGAGTTAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
41 2 0.03
42 53 0.84
43 8 0.13
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (43 bp):
GAAACCCATAAGGGTTAAACTGAAAGCTCATAACAGCTGAACT
Found at i:15886582 original size:26 final size:27
Alignment explanation
Indices: 15886546--15886699 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
15886536 GGGCTGTTAC
15886546 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* * **
15886572 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
15886598 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
*
15886625 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
15886651 ATGAAAGAGTAGCCTTTGAGGCAAAAC
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
15886678 ATGAAAGA-TAAGCCTTTGTGGC
1 ATGAAAGAGT-AGCCTTTGTGGC
15886700 GACTTTAAAG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 53 0.49
27 56 0.51
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTTGTGGCAAAAT
Found at i:15886624 original size:27 final size:27
Alignment explanation
Indices: 15886546--15886699 Score: 172
Period size: 26 Copynumber: 5.8 Consensus size: 27
15886536 GGGCTGTTAC
*
15886546 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* * * **
15886572 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
15886598 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
15886625 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* * *
15886651 ATGAAAGAGTAGCCTTTGAGGCAAAAC
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
15886678 ATGAAAGA-TAAGCCTTTGTGGC
1 ATGAAAGAGTAA-CCTTTGTGGC
15886700 GACTTTAAAG
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 54 0.50
27 54 0.50
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGAAAGAGTAACCTTTGTGGCAAAAT
Found at i:15886625 original size:53 final size:53
Alignment explanation
Indices: 15886557--15886699 Score: 177
Period size: 53 Copynumber: 2.7 Consensus size: 53
15886547 TGAAAAGTAG
15886557 CCTTTGTGGCAAAATATGAAA-AGTAGCCC-TTGTAGTG-AAATATGAAAGAATAA
1 CCTTTGTGGCAAAATATGAAAGAGTA-CCCTTTGT-G-GCAAATATGAAAGAATAA
* *
15886610 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAGTAG
1 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
* * *
15886663 CCTTTGAGGCAAAACATGAAAGA-TAAGCCTTTGTGGC
1 CCTTTGTGGCAAAATATGAAAGAGT-ACCCTTTGTGGC
15886700 GACTTTAAAG
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
52 2 0.02
53 71 0.88
54 8 0.10
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (53 bp):
CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
Found at i:15890630 original size:16 final size:16
Alignment explanation
Indices: 15890609--15890639 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15890599 TCCCAACCCC
*
15890609 ATGCAGTATGTCATGA
1 ATGCAGTATGCCATGA
15890625 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
15890640 CTCAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (16 bp):
ATGCAGTATGCCATGA
Found at i:15890764 original size:27 final size:27
Alignment explanation
Indices: 15890721--15890780 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
15890711 GGGCAAAATA
* *
15890721 GTCA-TTTACCCTCCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCACTACG
*
15890747 GTCATTTTACCTTACAGGGGCACTACG
1 GTCATTTTACCCTACAGGGGCACTACG
15890774 GTCATTT
1 GTCATTT
15890781 AACAACCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCACTACG
Found at i:15893713 original size:20 final size:20
Alignment explanation
Indices: 15893663--15893722 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
15893653 TTTAATTTAA
* *
15893663 TGATTATCTTAATAGT-ATT
1 TGATTATCTTAATACTAAAT
*
15893682 TTATTAAT-TTAATACTAAAT
1 TGATT-ATCTTAATACTAAAT
*
15893702 TGATTATCTTAATATTAAAT
1 TGATTATCTTAATACTAAAT
15893722 T
1 T
15893723 TAATTTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TGATTATCTTAATACTAAAT
Found at i:15893785 original size:12 final size:12
Alignment explanation
Indices: 15893765--15893798 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15893755 TATTATTTTA
*
15893765 ATAAGATTTAAT
1 ATAATATTTAAT
15893777 ATAATATTTAAT
1 ATAATATTTAAT
*
15893789 CTAATATTTA
1 ATAATATTTA
15893799 TCTTGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (12 bp):
ATAATATTTAAT
Found at i:15898640 original size:20 final size:20
Alignment explanation
Indices: 15898615--15898667 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
15898605 TGTACGGGTT
15898615 TGCACTTTGGTTCCTCTATG
1 TGCACTTTGGTTCCTCTATG
* * * *
15898635 TGCACTTCGGTGCCTCTTTT
1 TGCACTTTGGTTCCTCTATG
15898655 TGCACTTTGGTTC
1 TGCACTTTGGTTC
15898668 TTCTGTATAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (20 bp):
TGCACTTTGGTTCCTCTATG
Found at i:15901941 original size:20 final size:20
Alignment explanation
Indices: 15901905--15901947 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15901895 TTATGCTAAA
*
15901905 TAAATGGAATGGAAAGTAAG
1 TAAATGGAATAGAAAGTAAG
*
15901925 TAAATGGAA-AGACAAGTATG
1 TAAATGGAATAGA-AAGTAAG
15901945 TAA
1 TAA
15901948 GTAAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAATGGAATAGAAAGTAAG
Found at i:15903166 original size:21 final size:22
Alignment explanation
Indices: 15903121--15903174 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
15903111 TAAGGGACAA
15903121 TATGC-ATGTATATGATTGACT
1 TATGCTATGTATATGATTGACT
*
15903142 TATGCTATGTTTATG-TTGA-T
1 TATGCTATGTATATGATTGACT
*
15903162 GTATGATATGTAT
1 -TATGCTATGTAT
15903175 TGTCGAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 19 0.68
22 8 0.29
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.48
Consensus pattern (22 bp):
TATGCTATGTATATGATTGACT
Done.