Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 54 of 378
Found at i:13494281 original size:60 final size:60
Alignment explanation
Indices: 13494213--13494328 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
13494203 TTATTTTTTT
13494213 AAATTTAAAAAATAATTTGATAAATACAAATAAAAATATGTTTTCAATGAAATATGAAAA
1 AAATTTAAAAAATAATTTGATAAATACAAATAAAAATATGTTTTCAATGAAATATGAAAA
*
13494273 AAATTTAAAAAATCATTTGATAAATACAAATAAAAATATGTTTTCAATGAAATATG
1 AAATTTAAAAAATAATTTGATAAATACAAATAAAAATATGTTTTCAATGAAATATG
13494329 TTTCGTACAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (60 bp):
AAATTTAAAAAATAATTTGATAAATACAAATAAAAATATGTTTTCAATGAAATATGAAAA
Found at i:13498473 original size:16 final size:16
Alignment explanation
Indices: 13498448--13498478 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13498438 CCTTCAACTC
*
13498448 TTATATGTAAAAAAAT
1 TTATAAGTAAAAAAAT
13498464 TTATAAGTAAAAAAA
1 TTATAAGTAAAAAAA
13498479 AAAAAAGAAA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
TTATAAGTAAAAAAAT
Found at i:13500057 original size:2 final size:2
Alignment explanation
Indices: 13500050--13500080 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13500040 CTGTTTCAGG
13500050 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 T
13500081 GAACTTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13504224 original size:10 final size:10
Alignment explanation
Indices: 13504198--13504263 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
13504188 TAAATTTTCG
13504198 ATAATATTTT
1 ATAATATTTT
13504208 -T-ATATTTT
1 ATAATATTTT
13504216 ATAATATTTT
1 ATAATATTTT
*
13504226 AT-CTATCTTT
1 ATAATAT-TTT
13504236 -TAATA-TTT
1 ATAATATTTT
* *
13504244 AAAACATTTT
1 ATAATATTTT
*
13504254 ATGATATTTT
1 ATAATATTTT
13504264 GTAGTTTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
8 10 0.23
9 9 0.21
10 24 0.56
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (10 bp):
ATAATATTTT
Found at i:13504241 original size:19 final size:18
Alignment explanation
Indices: 13504198--13504243 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
13504188 TAAATTTTCG
13504198 ATAATATTTTTATATTTT
1 ATAATATTTTTATATTTT
*
13504216 ATAATATTTTATCTATCTTT
1 ATAATATTTT-TATAT-TTT
13504236 -TAATATTT
1 ATAATATTT
13504244 AAAACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 12 0.48
20 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
ATAATATTTTTATATTTT
Found at i:13505210 original size:18 final size:17
Alignment explanation
Indices: 13505167--13505210 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13505157 CAAAAATTAA
13505167 AAAATTAAAAAATAATT
1 AAAATTAAAAAATAATT
* *
13505184 AAATTTTAAATAATAATT
1 AAA-ATTAAAAAATAATT
13505202 ATAAATTAA
1 A-AAATTAA
13505211 TTAAAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 17 0.77
19 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTAAAAAATAATT
Found at i:13509706 original size:22 final size:20
Alignment explanation
Indices: 13509672--13509721 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
13509662 CTAGTAATTA
13509672 TTATAAATTTTAA-TGATTTT
1 TTATAAATTTTAAGT-ATTTT
*
13509692 TTATAATATTTTTAAGTTTTTT
1 TTATAA-A-TTTTAAGTATTTT
13509714 TTATAAAT
1 TTATAAAT
13509722 CTAGAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.27
21 2 0.08
22 16 0.62
23 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTATAAATTTTAAGTATTTT
Found at i:13511563 original size:26 final size:26
Alignment explanation
Indices: 13511534--13511586 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13511524 GATGTGCCAT
*
13511534 TACCTCTTAAGCCTATGTCATCACAA
1 TACCCCTTAAGCCTATGTCATCACAA
13511560 TACCCCTTAAGCCTATGTCATCACAA
1 TACCCCTTAAGCCTATGTCATCACAA
13511586 T
1 T
13511587 CTTCTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (26 bp):
TACCCCTTAAGCCTATGTCATCACAA
Found at i:13516190 original size:22 final size:22
Alignment explanation
Indices: 13516165--13516228 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
13516155 AATTTTAGCT
13516165 ATTAATGTTTAATTT-TTTATTA
1 ATTAAT-TTTAATTTATTTATTA
* *
13516187 ATTAGTTTTTATTTATTTATT-
1 ATTAATTTTAATTTATTTATTA
13516208 -TTAA-TTTAATTTAATTT-TTA
1 ATTAATTTTAATTT-ATTTATTA
13516228 A
1 A
13516229 CTTTTTGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 9 0.26
20 7 0.21
21 7 0.21
22 11 0.32
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
ATTAATTTTAATTTATTTATTA
Found at i:13518129 original size:15 final size:16
Alignment explanation
Indices: 13518109--13518138 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13518099 GATATTTGGC
13518109 AAAAAATG-ATAAAAA
1 AAAAAATGAATAAAAA
13518124 AAAAAATGAATAAAA
1 AAAAAATGAATAAAA
13518139 GTGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAATGAATAAAAA
Found at i:13518315 original size:21 final size:21
Alignment explanation
Indices: 13518290--13518342 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
13518280 ATACTATCGT
13518290 AAGAAAATTATAAAAAATGTA
1 AAGAAAATTATAAAAAATGTA
***
13518311 AAG-AAA-TATAAATTTTGTA
1 AAGAAAATTATAAAAAATGTA
*
13518330 AAAAAAATTATAA
1 AAGAAAATTATAA
13518343 GAATTATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.46
20 6 0.23
21 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (21 bp):
AAGAAAATTATAAAAAATGTA
Found at i:13518529 original size:19 final size:18
Alignment explanation
Indices: 13518498--13518668 Score: 91
Period size: 19 Copynumber: 9.3 Consensus size: 18
13518488 TAAAGGGTCT
*
13518498 TTTTTATACATTTTATAA
1 TTTTTATAAATTTTATAA
13518516 TTTTTATAAAATTTTATAA
1 TTTTTAT-AAATTTTATAA
*
13518535 TTTTT-TAAATTTTTTACGA
1 TTTTTATAAATTTTATA--A
* *
13518554 TTTTTATAATTTTTCTAA
1 TTTTTATAAATTTTATAA
* *
13518572 TTTTAACAAAATTTTA-ATA
1 TTTTTA-TAAATTTTATA-A
* *
13518591 TAATTTAT-ATTTTTATTAAA
1 T-TTTTATAAATTTTA-T-AA
* * *
13518611 ATTTAATAAATTTAATAA
1 TTTTTATAAATTTTATAA
* * *
13518629 ATTTAATAAATTTTATTGA
1 TTTTTATAAATTTTA-TAA
*
13518648 TTTTTAT--GTTTTATAA
1 TTTTTATAAATTTTATAA
13518664 TTTTT
1 TTTTT
13518669 TTTGCCACAT
Statistics
Matches: 118, Mismatches: 23, Indels: 26
0.71 0.14 0.16
Matches are distributed among these distances:
16 7 0.06
17 14 0.12
18 37 0.31
19 41 0.35
20 18 0.15
21 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTTATAAATTTTATAA
Found at i:13518539 original size:28 final size:28
Alignment explanation
Indices: 13518499--13518654 Score: 99
Period size: 28 Copynumber: 5.5 Consensus size: 28
13518489 AAAGGGTCTT
13518499 TTTTATACA-TTTTATAATTTTTATAAAA
1 TTTTATA-ATTTTTATAATTTTTATAAAA
* *
13518527 TTTTATAATTTTT-TAAATTTTT-TACGAT
1 TTTTATAATTTTTAT-AATTTTTATA-AAA
* * *
13518555 TTTTATAATTTTTCTAATTTTAACAAAA
1 TTTTATAATTTTTATAATTTTTATAAAA
*
13518583 TTTTA-ATATAATTTAT-ATTTTTATTAAAA
1 TTTTATA-AT-TTTTATAATTTTTA-TAAAA
* * * * *
13518612 TTTAATAAATTTAATAAATTTAAT-AAA
1 TTTTATAATTTTTATAATTTTTATAAAA
*
13518639 TTTTATTGATTTTTAT
1 TTTTA-TAATTTTTAT
13518655 GTTTTATAAT
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
27 12 0.12
28 64 0.66
29 20 0.21
30 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTTATAATTTTTATAATTTTTATAAAA
Found at i:13518540 original size:10 final size:10
Alignment explanation
Indices: 13518508--13518567 Score: 63
Period size: 9 Copynumber: 6.3 Consensus size: 10
13518498 TTTTTATACA
13518508 TTTTATAA-T
1 TTTTATAATT
**
13518517 TTTTATAAAA
1 TTTTATAATT
13518527 TTTTATAATT
1 TTTTATAATT
13518537 TTTTA-AATT
1 TTTTATAATT
**
13518546 TTTTACGA-T
1 TTTTATAATT
13518555 TTTTATAATT
1 TTTTATAATT
13518565 TTT
1 TTT
13518568 CTAATTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 24 0.57
10 18 0.43
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:13518603 original size:56 final size:56
Alignment explanation
Indices: 13518498--13518604 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 56
13518488 TAAAGGGTCT
* * **
13518498 TTTTTATACATTTTATAATTTTTATAAAATTTTATAATTTTTTAAATTTTTTACGA
1 TTTTTATACATTTTATAATTTTAACAAAATTTTATAATAATTTAAATTTTTTACGA
* *
13518554 TTTTTATA-ATTTTTCTAATTTTAACAAAATTTTA-ATATAATTTATATTTTT
1 TTTTTATACA-TTTTATAATTTTAACAAAATTTTATA-ATAATTTAAATTTTT
13518605 ATTAAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
55 2 0.05
56 41 0.95
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (56 bp):
TTTTTATACATTTTATAATTTTAACAAAATTTTATAATAATTTAAATTTTTTACGA
Found at i:13518623 original size:9 final size:9
Alignment explanation
Indices: 13518609--13518641 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
13518599 ATTTTTATTA
13518609 AAATTTAAT
1 AAATTTAAT
13518618 AAATTTAAT
1 AAATTTAAT
13518627 AAATTTAAT
1 AAATTTAAT
13518636 AAATTT
1 AAATTT
13518642 TATTGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATTTAAT
Found at i:13518969 original size:89 final size:87
Alignment explanation
Indices: 13518798--13519048 Score: 256
Period size: 89 Copynumber: 2.8 Consensus size: 87
13518788 TTTTGACAAA
* * * *
13518798 TCAAATACCTAATTAAGTGCAAAAAAAAAAAAAAGAACTTAATTGCTATATTTTTTTAAGTTTGA
1 TCAAATACCCAATTGAGTGCAAAAAAAAAAACAAGAGCTTAATTGCT-T-TTTTTTTAA-TTTGA
* * *
13518863 GGGCTTTTTTATACATTTTGAAAG-
63 GAGCTTTTTAATACATTTTAAAAGT
* * *
13518887 TCTAAATATCCAATTGAGTG-AAAAAAAAAAGAGCAAGGGGCTTAA-TGTTTTTTTTTTAATTTG
1 TC-AAATACCCAATTGAGTGCAAAAAAAAAA-A-CAA-GAGCTTAATTGCTTTTTTTTTAATTTG
*
13518950 AGAGCATTTTTAATGCATTTTAAAAGT
62 AGAGC-TTTTTAATACATTTTAAAAGT
* * * * * *
13518977 TCAATTACCCAGTTGAGTGCAAAAATAAAAACAATAGCTTAATTGCTTTTTTTTTAAATTAAGAG
1 TCAAATACCCAATTGAGTGCAAAAAAAAAAACAAGAGCTTAATTGCTTTTTTTTTAATTTGAGAG
13519042 CTTTTTA
66 CTTTTTA
13519049 CACCCTTAAA
Statistics
Matches: 134, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
87 12 0.09
88 31 0.23
89 53 0.40
90 27 0.20
91 5 0.04
92 6 0.04
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (87 bp):
TCAAATACCCAATTGAGTGCAAAAAAAAAAACAAGAGCTTAATTGCTTTTTTTTTAATTTGAGAG
CTTTTTAATACATTTTAAAAGT
Found at i:13519168 original size:3 final size:3
Alignment explanation
Indices: 13519160--13519196 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
13519150 CCACAATCAC
*
13519160 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13519197 CATCATCTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13522518 original size:15 final size:18
Alignment explanation
Indices: 13522479--13522519 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13522469 GGATTTTTTC
13522479 TGTTCTAATATGATATTA
1 TGTTCTAATATGATATTA
*
13522497 TGATCTAATAT-ATA-TA
1 TGTTCTAATATGATATTA
13522513 T-TTCTAA
1 TGTTCTAA
13522520 AATTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 3 0.14
17 3 0.14
18 10 0.48
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (18 bp):
TGTTCTAATATGATATTA
Found at i:13523553 original size:53 final size:53
Alignment explanation
Indices: 13523456--13523595 Score: 163
Period size: 53 Copynumber: 2.6 Consensus size: 53
13523446 TTCTATAAGC
* * * * *
13523456 CCGTAACTGGTTGGTTATGGAATCATATTGAAAAAAGACAATATCGTGCAAGA
1 CCGTAACTGGTGGGTTATGAAATCATATGGAAAAAAGACAATATCATACAAGA
* * * *
13523509 CCGTAACTGGTGGGTTATGAAATCATATGGAAAGAATACCATATCATATAAGA
1 CCGTAACTGGTGGGTTATGAAATCATATGGAAAAAAGACAATATCATACAAGA
* * * *
13523562 CCATAATTGGTGGATTATGACATCATATGGAAAA
1 CCGTAACTGGTGGGTTATGAAATCATATGGAAAA
13523596 GTTAAGGAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (53 bp):
CCGTAACTGGTGGGTTATGAAATCATATGGAAAAAAGACAATATCATACAAGA
Found at i:13523810 original size:28 final size:28
Alignment explanation
Indices: 13523728--13523811 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
13523718 TTGTGGAAAA
* * *
13523728 ACTCTGAAAGGATAAGCCTTCGTGGCGA-
1 ACTCTAAAAGGA-AAGCCTTTGTAGCGAG
* * * *
13523756 ACCTCTTAAA-GAATGCATTTGTTGCGAG
1 A-CTCTAAAAGGAAAGCCTTTGTAGCGAG
13523784 ACTCTAAAAGGAAAGCCTTTGTAGCGAG
1 ACTCTAAAAGGAAAGCCTTTGTAGCGAG
13523812 TACTTAATGA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 18 0.41
28 19 0.43
29 7 0.16
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (28 bp):
ACTCTAAAAGGAAAGCCTTTGTAGCGAG
Found at i:13526255 original size:30 final size:30
Alignment explanation
Indices: 13526219--13526280 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13526209 ACTTATTTTA
*
13526219 TTATTAATTTTGTTATTATTTTAAAGGCAT
1 TTATTAATTTTATTATTATTTTAAAGGCAT
* *
13526249 TTATTAATTTTATTATTATTTTAGAGGTAT
1 TTATTAATTTTATTATTATTTTAAAGGCAT
13526279 TT
1 TT
13526281 GCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (30 bp):
TTATTAATTTTATTATTATTTTAAAGGCAT
Found at i:13530425 original size:12 final size:12
Alignment explanation
Indices: 13530408--13530437 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13530398 CCTGTAAAAT
13530408 AGTAAAAATAAC
1 AGTAAAAATAAC
13530420 AGTAAAAATAAC
1 AGTAAAAATAAC
13530432 AGTAAA
1 AGTAAA
13530438 GGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:13532949 original size:15 final size:13
Alignment explanation
Indices: 13532929--13533000 Score: 69
Period size: 15 Copynumber: 5.3 Consensus size: 13
13532919 TTAATATGTG
13532929 AAAATAATAACTAAT
1 AAAATAATAA--AAT
13532944 AAAATAATAAGAA-
1 AAAATAATAA-AAT
13532957 AAAATAAATAAAAT
1 AAAAT-AATAAAAT
13532971 AAAATAAACTAAAAT
1 AAAAT-AA-TAAAAT
13532986 AAAAT-A-AAAAT
1 AAAATAATAAAAT
13532997 AAAA
1 AAAA
13533001 ATTGGGTTGC
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
11 9 0.17
13 8 0.15
14 15 0.28
15 21 0.40
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:13532972 original size:5 final size:5
Alignment explanation
Indices: 13532941--13533000 Score: 66
Period size: 5 Copynumber: 11.4 Consensus size: 5
13532931 AATAATAACT
* * *
13532941 AATAA AATAA TAAGAA AAAATA AATAA AATAA AATAA ACTAA AATAA AATAAA
1 AATAA AATAA -AATAA AATA-A AATAA AATAA AATAA AATAA AATAA AAT-AA
13532994 AATAA AA
1 AATAA AA
13533001 ATTGGGTTGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
5 34 0.72
6 13 0.28
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:13535292 original size:164 final size:164
Alignment explanation
Indices: 13534818--13535308 Score: 867
Period size: 163 Copynumber: 3.0 Consensus size: 164
13534808 CATGTTGGCT
13534818 AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
1 AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
* *
13534883 CTGGAGTAAAGACTGTTCCGTTATACCGTGTTGTGGCCAACTTGCACAGAACTTCTTAAATCGCT
66 CTGGAGTAAAGACTGTTCCGTTATACCGTGTTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
13534948 CCCAATAGTCGTATAGAGTCTCTGTGTCTTTTTG
131 CCCAATAGTCGTATAGAGTCTCTGTGTCTTTTTG
*
13534982 AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCAT-GGTTTCAGACCTTCATAAAAGTA
1 AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
* * *
13535046 CTAGAGTAAAGACTGTTCCGTTATACTGTATTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
66 CTGGAGTAAAGACTGTTCCGTTATACCGTGTTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
*
13535111 CCCAATAGTCGTATAGAGTCTTTGTGTCTTTTTG
131 CCCAATAGTCGTATAGAGTCTCTGTGTCTTTTTG
*
13535145 AACGCTCCTCCACTTGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
1 AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
* *
13535210 CTGGAGTAAAAACTGTTCTGTTATACCGTGTTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
66 CTGGAGTAAAGACTGTTCCGTTATACCGTGTTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
* *
13535275 CGCAATAGTCATATAGAGTCTCTGTGTCTTTTTG
131 CCCAATAGTCGTATAGAGTCTCTGTGTCTTTTTG
13535309 CCTTATGCCC
Statistics
Matches: 309, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
163 155 0.50
164 154 0.50
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (164 bp):
AACGCTCCTCCACTCGCGACATCTACCATATTCATCTCCATGGGTTTCAGGCCTTCATAAAAGTA
CTGGAGTAAAGACTGTTCCGTTATACCGTGTTGTGGGCAACTTGCACACAACTTCTTAAATCGCT
CCCAATAGTCGTATAGAGTCTCTGTGTCTTTTTG
Found at i:13553104 original size:14 final size:15
Alignment explanation
Indices: 13553071--13553111 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
13553061 ATTGAAAATG
13553071 TTTATAAAAATAAAAA
1 TTTATAAAAAT-AAAA
*
13553087 TTTATAAAAAT-TAA
1 TTTATAAAAATAAAA
13553101 TTTA-AAAAATA
1 TTTATAAAAATA
13553112 GTTAAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
16 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTATAAAAATAAAA
Found at i:13554619 original size:2 final size:2
Alignment explanation
Indices: 13554612--13554639 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13554602 TTTGGGTCTA
13554612 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
13554640 TAATTGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13556668 original size:11 final size:12
Alignment explanation
Indices: 13556628--13556671 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13556618 CCTTGTTTCC
*
13556628 CTTTCCCTTCCTT
1 CTTT-CCTTCCAT
*
13556641 CTTTCTTTCCAT
1 CTTTCCTTCCAT
13556653 CTTTCCTTCC-T
1 CTTTCCTTCCAT
13556664 CTTTCCTT
1 CTTTCCTT
13556672 TGTCTTCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 9 0.32
12 15 0.54
13 4 0.14
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (12 bp):
CTTTCCTTCCAT
Found at i:13560025 original size:29 final size:32
Alignment explanation
Indices: 13559973--13560036 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
13559963 ATAGATTATA
*
13559973 TTTTTATAATTTTTAAGTTATT-AAATA-AAT
1 TTTTTATAATTTTTAAGTGATTAAAATATAAT
13560003 TTTTTAT-ATTTTTAAG-GAGTTAAAATATAAT
1 TTTTTATAATTTTTAAGTGA-TTAAAATATAAT
13560034 TTT
1 TTT
13560037 ACCTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.03
29 11 0.37
30 12 0.40
31 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (32 bp):
TTTTTATAATTTTTAAGTGATTAAAATATAAT
Found at i:13562147 original size:34 final size:34
Alignment explanation
Indices: 13562098--13562170 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
13562088 AATTAATTAA
* *
13562098 TTTTTAAAATTTTAAAAAATTAATAAAA-ATAATAT
1 TTTTTAAAATATT-AAAAAGT-ATAAAATATAATAT
13562133 TTTTTAAAA-ATTAAAAAGTATAAAATTATAATAT
1 TTTTTAAAATATTAAAAAGTATAAAA-TATAATAT
13562167 TTTT
1 TTTT
13562171 AATATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 6 0.18
33 6 0.18
34 13 0.38
35 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (34 bp):
TTTTTAAAATATTAAAAAGTATAAAATATAATAT
Found at i:13563149 original size:14 final size:14
Alignment explanation
Indices: 13563100--13563150 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
13563090 TTAATCTTTA
13563100 AAAATA-AAAGAATT
1 AAAATATAAAG-ATT
* * *
13563114 AAATTATAAAAAAT
1 AAAATATAAAGATT
13563128 ACAAATATAAAGATT
1 A-AAATATAAAGATT
13563143 AAAATATA
1 AAAATATA
13563151 TATATATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (14 bp):
AAAATATAAAGATT
Found at i:13563198 original size:2 final size:2
Alignment explanation
Indices: 13563146--13563182 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13563136 AAAGATTAAA
13563146 AT AT AT AT 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 A
13563183 GAGACTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13569225 original size:27 final size:27
Alignment explanation
Indices: 13569195--13569249 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
13569185 GATTATACTT
13569195 AAGGTTTTTGAGGTATAAAACTTTAAG
1 AAGGTTTTTGAGGTATAAAACTTTAAG
13569222 AAGGTTTTTGAGGTATAAAACTTTAAG
1 AAGGTTTTTGAGGTATAAAACTTTAAG
13569249 A
1 A
13569250 GGATTAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (27 bp):
AAGGTTTTTGAGGTATAAAACTTTAAG
Found at i:13584910 original size:31 final size:30
Alignment explanation
Indices: 13584873--13584963 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
13584863 ATTTATTTAA
*
13584873 ATATATATGATTGAATCAAAATTAAAATTTT
1 ATATATATAATTGAATC-AAATTAAAATTTT
* *
13584904 ATATATACATTTGAACTGC-AATTAAAATTTT
1 ATATATATAATTGAA-T-CAAATTAAAATTTT
*
13584935 ATATATATAATT-ACATCAAATTATAATTT
1 ATATATATAATTGA-ATCAAATTAAAATTT
13584964 ATGTATCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.02
30 12 0.24
31 35 0.70
32 1 0.02
33 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (30 bp):
ATATATATAATTGAATCAAATTAAAATTTT
Found at i:13596981 original size:29 final size:29
Alignment explanation
Indices: 13596899--13596982 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 29
13596889 GCTAAATTAA
*
13596899 AAAAAAAATTG-A-TAT--TTGGTTGACC
1 AAAAAAAATTGAACTATAGTTGGATGACC
* * * *
13596924 AAAAAGAAAATAAACAATAGTT-GAGTGACT
1 AAAAA-AAATTGAACTATAGTTGGA-TGACC
13596954 AAAAAAAATTGAACTATAGTTGGATGACC
1 AAAAAAAATTGAACTATAGTTGGATGACC
13596983 TGTGATGTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
25 5 0.12
26 4 0.09
27 1 0.02
28 2 0.05
29 18 0.42
30 13 0.30
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAAAAAATTGAACTATAGTTGGATGACC
Found at i:13605303 original size:32 final size:32
Alignment explanation
Indices: 13605258--13605326 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
13605248 TAAAAGAACA
13605258 ATTT-TACCCTTTATTAATTAATCATTATTCT
1 ATTTATACCCTTTATTAATTAATCATTATTCT
13605289 ATTTATACCCTTTATTAATTAATCATTATTCT
1 ATTTATACCCTTTATTAATTAATCATTATTCT
13605321 ATTTAT
1 ATTTAT
13605327 TTTTGTTATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.55
Consensus pattern (32 bp):
ATTTATACCCTTTATTAATTAATCATTATTCT
Found at i:13606808 original size:11 final size:11
Alignment explanation
Indices: 13606791--13606816 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13606781 TTTTTAATTA
13606791 TTTAATAATAT
1 TTTAATAATAT
13606802 TTTAATAATAT
1 TTTAATAATAT
13606813 TTTA
1 TTTA
13606817 TTATTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:13620486 original size:20 final size:20
Alignment explanation
Indices: 13620461--13620504 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
13620451 TTTTTAAGGA
13620461 TTAAA-ATTAAATTATAATTT
1 TTAAATATTAAATTA-AATTT
13620481 TTAAAATATTAAATTAAATTT
1 TT-AAATATTAAATTAAATTT
13620502 TTA
1 TTA
13620505 TTTTTTAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 10 0.45
22 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATATTAAATTAAATTT
Found at i:13621172 original size:3 final size:3
Alignment explanation
Indices: 13621166--13621193 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13621156 TATTAAAAAA
13621166 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
13621194 CCTGAGCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13622787 original size:2 final size:2
Alignment explanation
Indices: 13622782--13622809 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13622772 TACAAACGGA
13622782 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
13622810 TCTTTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13631767 original size:20 final size:21
Alignment explanation
Indices: 13631724--13631772 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13631714 AAGGTTATAA
*
13631724 ATTTATATAAATATATAATAT
1 ATTTATATAAATATAAAATAT
*
13631745 ATTT-TATATAAT-TAAAATTT
1 ATTTATATA-AATATAAAATAT
13631765 ATTTATAT
1 ATTTATAT
13631773 GGACACGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATATAAATATAAAATAT
Found at i:13636273 original size:19 final size:19
Alignment explanation
Indices: 13636228--13636277 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13636218 GTATAATTAG
13636228 AATTATTTTATAATTGTTT
1 AATTATTTTATAATTGTTT
*
13636247 -ATAAATTTTATAATAT-TTT
1 AAT-TATTTTATAAT-TGTTT
13636266 AATTATTTTATA
1 AATTATTTTATA
13636278 CTTTTATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.08
19 21 0.81
20 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTATTTTATAATTGTTT
Found at i:13639470 original size:115 final size:115
Alignment explanation
Indices: 13639268--13639498 Score: 444
Period size: 115 Copynumber: 2.0 Consensus size: 115
13639258 TACTTCATGC
*
13639268 AACCAATATCAAACATGTCAAACTCACTTTTCATTGAACTTTTGAACTTTCCAAACATCTGCTTA
1 AACCAAGATCAAACATGTCAAACTCACTTTTCATTGAACTTTTGAACTTTCCAAACATCTGCTTA
*
13639333 TTGTTTCCTGTAAAAATAATATCAACGACGTATAAACTTACTATGAGAAT
66 TTGTTTCCTGTAAAAATAATATCAACGACATATAAACTTACTATGAGAAT
13639383 AACCAAGATCAAACATGTCAAACTCACTTTTCATTGAACTTTTGAACTTTCCAAACATCTGCTTA
1 AACCAAGATCAAACATGTCAAACTCACTTTTCATTGAACTTTTGAACTTTCCAAACATCTGCTTA
13639448 TTGTTTCCTGTAAAAATAATATCAACGACATATAAACTTACTATGAGAAT
66 TTGTTTCCTGTAAAAATAATATCAACGACATATAAACTTACTATGAGAAT
13639498 A
1 A
13639499 CCTACATATT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (115 bp):
AACCAAGATCAAACATGTCAAACTCACTTTTCATTGAACTTTTGAACTTTCCAAACATCTGCTTA
TTGTTTCCTGTAAAAATAATATCAACGACATATAAACTTACTATGAGAAT
Found at i:13653977 original size:2 final size:2
Alignment explanation
Indices: 13653970--13653995 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13653960 TCACAATTTA
13653970 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
13653996 CATTTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13655180 original size:4 final size:4
Alignment explanation
Indices: 13655171--13655247 Score: 53
Period size: 4 Copynumber: 20.5 Consensus size: 4
13655161 TCGTGGGTTC
*
13655171 TTCT TTC- TT-T TTCT TTCT CTT-T TT-T TT-T TTCT TTCT TTCTAT TTCG
1 TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTCT TTC--T TTCT
*
13655217 TT-T TGCT TT-T TTCT TTCT TTCT TT-T TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
13655248 TATTACTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
3 19 0.32
4 35 0.58
5 2 0.03
6 4 0.07
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:13655220 original size:22 final size:20
Alignment explanation
Indices: 13655174--13655247 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 20
13655164 TGGGTTCTTC
13655174 TTTC-TTTTTCTTTC--TCT
1 TTTCTTTTTTCTTTCTTTCT
*
13655191 TTTTTTTTTTCTTTCTTTCT
1 TTTCTTTTTTCTTTCTTTCT
*
13655211 ATTTCGTTTTGCTTTTTTCTTTC-
1 -TTTC-TTTT--TTCTTTCTTTCT
13655234 TTTCTTTTTTCTTT
1 TTTCTTTTTTCTTT
13655248 TATTACTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.07
18 10 0.22
19 5 0.11
20 3 0.07
21 7 0.15
22 8 0.17
24 10 0.22
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCTTTTTTCTTTCTTTCT
Found at i:13655248 original size:28 final size:27
Alignment explanation
Indices: 13655171--13655248 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 27
13655161 TCGTGGGTTC
*
13655171 TTCTTTCTTT-TTCTTTCTCTTTTTTTTT
1 TTCTTTCTTTCTT-TTT-TCTTTTCTTTT
*
13655199 TTCTTTCTTTC-TATTTCGTTTTGCTTTT
1 TTCTTTCTTTCTTTTTTC-TTTT-CTTTT
13655227 TTCTTTCTTTCTTTTTTCTTTT
1 TTCTTTCTTTCTTTTTTCTTTT
13655249 ATTACTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 6 0.14
28 30 0.70
29 5 0.12
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (27 bp):
TTCTTTCTTTCTTTTTTCTTTTCTTTT
Found at i:13659448 original size:2 final size:2
Alignment explanation
Indices: 13659441--13659484 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13659431 TAGATGTTCT
13659441 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13659483 TA
1 TA
13659485 GTTCATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13659611 original size:120 final size:118
Alignment explanation
Indices: 13659478--13659714 Score: 291
Period size: 120 Copynumber: 2.0 Consensus size: 118
13659468 ATATATATAT
* * * *
13659478 ATATATAGTTCATGATAAAGTTAATTTTAT-TCTATATACATTATTAAATCTATGTTA-TTTTAT
1 ATATATAATTCATGATAAAATTAATTTAATCT-TATATACATTATTAAATCCATGTTATTTTTAT
* *
13659541 ACATATAATTTCTTCTAAATCTATTTCCATACATATTTATGTTTT-TAAATCTATTAC
65 A-A-ATAATTGCTTCTAAATCTATTT--ATACATATATATGTTTTGTAAATCTATTAC
* * *
13659598 ATATATAATTCATGGTAAAATTAATTTAATCTTATATGCATTATTAATTCCATGTTATTTTTATA
1 ATATATAATTCATGATAAAATTAATTTAATCTTATATACATTATTAAATCCATGTTATTTTTATA
* * **
13659663 AATAATTGCTTTTAAATTTATTTATGTATATATATGTTTTGTAAATCTATTA
66 AATAATTGCTTCTAAATCTATTTATACATATATATGTTTTGTAAATCTATTA
13659715 TGTGTATGGT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
117 14 0.14
118 11 0.11
119 19 0.19
120 49 0.49
121 8 0.08
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (118 bp):
ATATATAATTCATGATAAAATTAATTTAATCTTATATACATTATTAAATCCATGTTATTTTTATA
AATAATTGCTTCTAAATCTATTTATACATATATATGTTTTGTAAATCTATTAC
Found at i:13659955 original size:8 final size:8
Alignment explanation
Indices: 13659942--13659971 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13659932 AATTATTTCA
*
13659942 AATTCATC
1 AATTCAAC
13659950 AATTCAAC
1 AATTCAAC
13659958 AATTCAAC
1 AATTCAAC
13659966 AATTCA
1 AATTCA
13659972 TATATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (8 bp):
AATTCAAC
Found at i:13661025 original size:25 final size:25
Alignment explanation
Indices: 13660969--13661025 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
13660959 AGCTCTTCCA
* * *
13660969 AGCTAAATAACGGAAAGCTCATACG
1 AGCTGAATAACGGAAAGCTCAGAAG
13660994 AGCTGAATAAC-GAGAAGCTCAGAAG
1 AGCTGAATAACGGA-AAGCTCAGAAG
*
13661019 AGTTGAA
1 AGCTGAA
13661026 ATTGGTAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.16
Consensus pattern (25 bp):
AGCTGAATAACGGAAAGCTCAGAAG
Found at i:13672837 original size:46 final size:46
Alignment explanation
Indices: 13672770--13672898 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
13672760 TGTAACCCGC
* * * *
13672770 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13672816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13672862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13672899 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13672917 original size:46 final size:45
Alignment explanation
Indices: 13672778--13672917 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
13672768 GCCCATAAGC
* ** * *
13672778 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
13672824 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
13672870 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
13672916 GA
1 GA
13672918 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:13680998 original size:37 final size:37
Alignment explanation
Indices: 13680957--13681028 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 37
13680947 TTTTAACTAA
*
13680957 TAATTAT-AATTTAATTTATATTTATTTTTTAAATTTG
1 TAATTATAAATCTAATTTATATTTA-TTTTTAAATTTG
* *
13680994 TAATTATCAAATCTATTTTATTTTTATTTTTAAAT
1 TAATTAT-AAATCTAATTTATATTTATTTTTAAAT
13681029 GTGAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 7 0.23
38 9 0.30
39 14 0.47
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (37 bp):
TAATTATAAATCTAATTTATATTTATTTTTAAATTTG
Found at i:13681782 original size:18 final size:18
Alignment explanation
Indices: 13681759--13681808 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
13681749 AAGTAGATTT
13681759 TTATATCATGTATACTTC
1 TTATATCATGTATACTTC
*
13681777 TTATATCTATGAATA-TTC
1 TTATATC-ATGTATACTTC
13681795 TT-TATCATGTATAC
1 TTATATCATGTATAC
13681809 CATGGTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 12 0.43
19 6 0.21
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (18 bp):
TTATATCATGTATACTTC
Found at i:13683694 original size:397 final size:396
Alignment explanation
Indices: 13682953--13683725 Score: 981
Period size: 397 Copynumber: 1.9 Consensus size: 396
13682943 TCTAATGTCT
13682953 TAAGTGTAGTATTTTCGTCTATGTACACTTGTATTTTTTTGAACATATTAGTTAATAAAATTATT
1 TAAGTGTAGTATTTTCGTCTATGTACACTTGTATTTTTTTGAACATATTAGTTAATAAAATTATT
* * **
13683018 CATGAATTATATTAATATCCTTTGTATATTATCCTCAATGGTTTTTGCATGCAAAGAAAAATGAA
66 CATGAATTACATTAATA-CCTTTGTATAATATCCTCAATGGTTTTTGCACACAAAGAAAAATGAA
* * * *
13683083 AGCAAATATTAGTTCATTGGTTGTCTAATGTTTAACTAATACTAAACGGTATTATGTGATTAGAT
130 AGCAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAACGATATTATATGATTAGAT
*
13683148 CGTAATACAGAAAGATAGCTTATATTAGTAGATGAACCTAAAGATATCCTTAGTCTAATCGAAAA
195 CGTAATACAGAAAGATAGCTTATATTAGTAGACGAACCTAAAGATATCCTTAGTCTAATCGAAAA
** * * *
13683213 TGAGCAAACTGATTAAAAGACTAATTTGTCGTCTATCAAGTTCAATTGGGGAGATGCTTTATCTT
260 TGAGCAAACCAATTAAAAGACTAATATGTCGTCTATCAAGTCCAATTAGGGAGATGCTTTATCTT
* * *
13683278 GGGCATCAGAGCAGATGACTCCCAGAAGATAAAGATATAGATGTGATTGACCAGATGTTGGATCT
325 AGGCATCAGAGCAGATGACTCCCAGAAGATAAAGACATAGATGTGACTGACCAGATGTTGGATCT
13683343 GGTGCCC
390 GGTGCCC
* * *
13683350 TAAGTGTTGTATTTTCGT-TAATGTACGCTTGTAATTTTTTTGAACA-AGTTTA-TTACTAAAAT
1 TAAGTGTAGTATTTTCGTCT-ATGTACACTTGT-ATTTTTTTGAACATA--TTAGTTAATAAAAT
* * * *
13683412 TATTCATGAATTACGTTAATA-CTTTGTATAATGTCCTC-ATGTGATTTTTGTACACAAAGCAAA
62 TATTCATGAATTACATTAATACCTTTGTATAATATCCTCAATG-G-TTTTTGCACACAAAGAAAA
* *
13683475 AT-AGAAGCAAATGTT-GCTCACTGGTTGTCTAATGTTTAAACTAATACTAAGCGATATTATATG
125 ATGA-AAGCAAATATTAGCTCACTGGTTGTCTAATGTTT-AACTAATACTAAACGATATTATATG
* * * * ** *
13683538 GTTGGATTGTAATAC-GAAA-ATACATCTTATATTAGTAGACGAACCTAATTATGTCCTTAGTCT
188 ATTAGATCGTAATACAGAAAGAT--AGCTTATATTAGTAGACGAACCTAAAGATATCCTTAGTCT
* * *
13683601 AATCGAAAATGAGTAAACCAATTGAAAGACTAATATGTTGTCTATCAAGTCCAATTAGGGAGATG
251 AATCGAAAATGAGCAAACCAATTAAAAGACTAATATGTCGTCTATCAAGTCCAATTAGGGAGATG
* * ** * * *
13683666 TTTTGTCTTAGGCATC-GAAGTGGATGACTCCTAGAAGATAGAGGCATAGATGTGACTGAC
316 CTTTATCTTAGGCATCAG-AGCAGATGACTCCCAGAAGATAAAGACATAGATGTGACTGAC
13683726 TGGATTGACA
Statistics
Matches: 322, Mismatches: 43, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
395 5 0.02
396 43 0.13
397 230 0.71
398 41 0.13
399 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (396 bp):
TAAGTGTAGTATTTTCGTCTATGTACACTTGTATTTTTTTGAACATATTAGTTAATAAAATTATT
CATGAATTACATTAATACCTTTGTATAATATCCTCAATGGTTTTTGCACACAAAGAAAAATGAAA
GCAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATACTAAACGATATTATATGATTAGATC
GTAATACAGAAAGATAGCTTATATTAGTAGACGAACCTAAAGATATCCTTAGTCTAATCGAAAAT
GAGCAAACCAATTAAAAGACTAATATGTCGTCTATCAAGTCCAATTAGGGAGATGCTTTATCTTA
GGCATCAGAGCAGATGACTCCCAGAAGATAAAGACATAGATGTGACTGACCAGATGTTGGATCTG
GTGCCC
Found at i:13684522 original size:58 final size:58
Alignment explanation
Indices: 13684458--13684632 Score: 208
Period size: 52 Copynumber: 3.1 Consensus size: 58
13684448 ATAGAAATTG
*
13684458 TGAAAATGGAGAAATTGAAATCATTTGGAAATTATTATGATTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATTGAAATCATTTGGAAATGATTATGATTTTCTCCAAAATGAAAA
* * *
13684516 TGAAAATGGAGAAATGGAAA-CATTTGGAAATGATTATAGGTTTTTTCC------AAAA
1 TGAAAATGGAGAAATTGAAATCATTTGGAAATGATTAT-GATTTTCTCCAAAATGAAAA
*
13684568 TGAAAATGGAGAAA-TGGAATCATTTGGAAATGA--ATGTAGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATTGAAATCATTTGGAAATGATTATG-A-TTTTCTCCAAAATGAAAA
13684625 TGAAAATG
1 TGAAAATG
13684633 AAAATGAAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 21
0.77 0.06 0.16
Matches are distributed among these distances:
49 1 0.01
50 2 0.02
51 10 0.10
52 31 0.31
57 28 0.28
58 27 0.27
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (58 bp):
TGAAAATGGAGAAATTGAAATCATTTGGAAATGATTATGATTTTCTCCAAAATGAAAA
Found at i:13684626 original size:6 final size:6
Alignment explanation
Indices: 13684615--13684664 Score: 91
Period size: 6 Copynumber: 8.2 Consensus size: 6
13684605 AGTTTTCTCC
13684615 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG -AAAATG AAAATG
13684664 A
1 A
13684665 CCTGAAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:13684638 original size:18 final size:19
Alignment explanation
Indices: 13684615--13684677 Score: 94
Period size: 18 Copynumber: 3.4 Consensus size: 19
13684605 AGTTTTCTCC
13684615 AAAATGAAAATGAAAATG-
1 AAAATGAAAATGAAAATGA
13684633 AAAATGAAAATGAAAATGA
1 AAAATGAAAATGAAAATGA
**
13684652 AAAATGAAAATG-ACCTGA
1 AAAATGAAAATGAAAATGA
13684670 AAAATGAA
1 AAAATGAA
13684678 TTTATGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 30 0.71
19 12 0.29
ACGTcount: A:0.65, C:0.03, G:0.16, T:0.16
Consensus pattern (19 bp):
AAAATGAAAATGAAAATGA
Found at i:13684650 original size:51 final size:52
Alignment explanation
Indices: 13684498--13684652 Score: 145
Period size: 51 Copynumber: 2.9 Consensus size: 52
13684488 ATTATTATGA
*
13684498 TTTTCTCCAAAATGAAAATGAAAATGGAGAAATGGAAACATTTGGAAATGATTATAGG
1 TTTTCTCCAAAATGAAAATGAAAAT-GA-AAAT-GAAA-A--TGGAAATGAATATAGG
* * * ** *
13684556 TTTTTTCCAAAATGAAAATGGAGAAATG-GAAT-CATTTGGAAATGAATGTA-G
1 TTTTCTCCAAAATGAAAAT-GA-AAATGAAAATGAAAATGGAAATGAATATAGG
*
13684607 TTTTCTCCAAAATGAAAATGAAAATGAAAATGAAAATGAAAATGAA
1 TTTTCTCCAAAATGAAAATGAAAATGAAAATGAAAATGGAAATGAA
13684653 AAATGAAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
49 5 0.06
50 5 0.06
51 29 0.36
52 12 0.15
55 1 0.01
57 3 0.04
58 18 0.22
59 3 0.04
60 4 0.05
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (52 bp):
TTTTCTCCAAAATGAAAATGAAAATGAAAATGAAAATGGAAATGAATATAGG
Found at i:13687266 original size:21 final size:21
Alignment explanation
Indices: 13687198--13687269 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
13687188 AGGTCAAACG
*
13687198 CCCGTATGACTGAGGCACACA
1 CCCGTGTGACTGAGGCACACA
* ** *
13687219 CTCGTGTGAAGGGAGGCGCACGA
1 CCCGTGTG-ACTGAGGCACAC-A
13687242 -CCGTGTGACTGAGGCACACA
1 CCCGTGTGACTGAGGCACACA
13687262 CCCGTGTG
1 CCCGTGTG
13687270 GACCAAGGAC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.03
21 22 0.56
22 15 0.38
23 1 0.03
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.15
Consensus pattern (21 bp):
CCCGTGTGACTGAGGCACACA
Found at i:13687780 original size:259 final size:259
Alignment explanation
Indices: 13687346--13687819 Score: 678
Period size: 259 Copynumber: 1.8 Consensus size: 259
13687336 CAGGGTAGAT
* * * ** * * * *
13687346 ACGACCGTGTGAGGATCTCACACGCTCGTGTGCTTATCAGACACTGACACACGCCTGTTTGGGAT
1 ACGACCATATGAGGATCTCACACACTCGTGTGCCCACCAAACACTGACACACGCCCGTATGGGAT
* ** *
13687411 CCTTAAATTCCCAAATTAGCCACACAACCGTGTAGCCAGACTGTGTGGTACCAAATCACTCAAAC
66 CCTTAAATTCCCAAATTAGCCACACAACCATGTAGCCAGACCATGTGGCACCAAATCACTCAAAC
* * * **
13687476 CCTAATCCCCAAACACATACGTACGTGTGTCCAGAGGACATGGCCGTGTGAATATTGACAAAAAT
131 CCTAATCCCCAAACACACACGTACGTGTGCCCAGAGGACATGGCCGTGTGAAGATCAACAAAAAT
13687541 CCCCGAAACAGCCACACGACAGTGTGGCTAGGTCGTGTATGCTAAAATATAGTATAGGGCATAC
196 CCCCGAAACAGCCACACGACAGTGTGGCTAGGTCGTGTATGCTAAAATATAGTATAGGGCATAC
*
13687605 ACGACCATATGAGGGTCTCACACACTCGTGTGCCCACCAAACACTGACACACGCCCGTATGGGAT
1 ACGACCATATGAGGATCTCACACACTCGTGTGCCCACCAAACACTGACACACGCCCGTATGGGAT
* * * * *
13687670 CCTTAAATTCTCAAATTAGTCACACGACCATGTGGCCAGGCCATGTGGCACCAAATCACTCAAAC
66 CCTTAAATTCCCAAATTAGCCACACAACCATGTAGCCAGACCATGTGGCACCAAATCACTCAAAC
* * *
13687735 CCTAATCCCCAAACATACACGTCCGTGTGCCCAGGGGACATGGCCGTGTGAAGATCAACAAAAAT
131 CCTAATCCCCAAACACACACGTACGTGTGCCCAGAGGACATGGCCGTGTGAAGATCAACAAAAAT
* * *
13687800 CCCTGAATCGGCCACACGAC
196 CCCCGAAACAGCCACACGAC
13687820 CATGTGGAAC
Statistics
Matches: 185, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
259 185 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (259 bp):
ACGACCATATGAGGATCTCACACACTCGTGTGCCCACCAAACACTGACACACGCCCGTATGGGAT
CCTTAAATTCCCAAATTAGCCACACAACCATGTAGCCAGACCATGTGGCACCAAATCACTCAAAC
CCTAATCCCCAAACACACACGTACGTGTGCCCAGAGGACATGGCCGTGTGAAGATCAACAAAAAT
CCCCGAAACAGCCACACGACAGTGTGGCTAGGTCGTGTATGCTAAAATATAGTATAGGGCATAC
Found at i:13691422 original size:46 final size:47
Alignment explanation
Indices: 13691265--13691535 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 47
13691255 ATTTGTTTAT
* * * * *
13691265 GAGCTAGTGTAAGAAATGTTTGGGACAT-GCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGA-GATGA
* * * * *
13691311 GAGCTAGTGTAAGACCATGT-TCGGGACATGGCATCGGCGTTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCT-GGGACATGGCATCAGCCTCGAGATGA
* * * *
13691359 GAGCTAGGGTAAAACATGTCTGGGACAT-GCATCAGCCTCGAGACTTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGA-TGA
* * *
13691406 -AGCCAGTGTAAGACATGTCTGGGACAT-GCAT-TGGCTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCT-CGAGATGA
* * * *
13691451 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCTCGAGATGA
*
13691497 TGAGCCAGTGTAAGAACATGTCTGGTACATGGCATCAGC
1 -GAGCCAGTGTAAG-ACATGTCTGGGACATGGCATCAGC
13691536 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
45 5 0.03
46 72 0.40
47 72 0.40
48 32 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGAGATGA
Found at i:13691506 original size:47 final size:48
Alignment explanation
Indices: 13691262--13691532 Score: 201
Period size: 47 Copynumber: 5.8 Consensus size: 48
13691252 GTCATTTGTT
* * * * *
13691262 TATGAGCTAGTGTAAGAA-ATGTTTGGGACAT-GCATCAGC-C-ACAT
1 TATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCTCGAGAC
* * *
13691306 TATGAGAGCTAGTGTAAGACCATGT-TCGGGACATGGCATCGGCGTTGAGAC
1 TAT--GAGCCAGTGTAAGAACATGTCT-GGGACATGGCATCGGC-TCGAGAC
* * * *
13691357 GA-GAGCTAGGGTAA-AACATGTCTGGGACAT-GCATCAGCCTCGAGAC
1 TATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATC-GGCTCGAGAC
* * *
13691403 T-TAAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATTGGCTACAAGA-
1 TATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCT-CGAGAC
* * * *
13691448 TGAT-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-
1 T-ATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCTCGAGAC
*
13691495 TATGAGCCAGTGTAAGAACATGTCTGGTACATGGCATC
1 TATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATC
13691533 AGCACCTTAC
Statistics
Matches: 183, Mismatches: 26, Indels: 33
0.76 0.11 0.14
Matches are distributed among these distances:
44 3 0.02
45 4 0.02
46 71 0.39
47 76 0.42
48 26 0.14
51 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
TATGAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCTCGAGAC
Found at i:13691527 original size:140 final size:141
Alignment explanation
Indices: 13691270--13691535 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 141
13691260 TTTATGAGCT
* **
13691270 AGTGTAAGAAATGTTTGGGACATGCATCAGCCACATTATGAGAGCTAGTGTAAGACCATGTTCGG
1 AGTGTAAGAAATGTCTGGGACATGCATCAGCCACAAGATGAGAGCTAGTGTAAGACCATGTTCGG
* *
13691335 GACATGGCATCGGCGTTGAGACGAGAGCTAGGGTAAAACATGTCTGGGACAT-GCATCAGCCTCG
66 GACATGGCATCGACGTTGAGACGAGAGCCAGGGTAAAACATGTCTGGGACATGGCATCAGCCTCG
13691399 AGACTTAAGCC
131 AGACTTAAGCC
* ** * *
13691410 AGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGATAG-TCAGTGTAAGACCATG-TCT
1 AGTGTAAGAAATGTCTGGGACATGCATCAGCCACAAGATGAGAGCT-AGTGTAAGACCATGTTC-
* * *
13691473 GGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGAACATGTCTGGTACATGGCATCAGC
64 GGGACATGGCATCGACGTTGAGACGA-GAGCCAGGGTAA-AACATGTCTGGGACATGGCATCAGC
13691536 ACCTTACCCA
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 80 0.74
141 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGAAATGTCTGGGACATGCATCAGCCACAAGATGAGAGCTAGTGTAAGACCATGTTCGG
GACATGGCATCGACGTTGAGACGAGAGCCAGGGTAAAACATGTCTGGGACATGGCATCAGCCTCG
AGACTTAAGCC
Found at i:13695641 original size:93 final size:92
Alignment explanation
Indices: 13695483--13695706 Score: 274
Period size: 93 Copynumber: 2.4 Consensus size: 92
13695473 ACATTATGAG
*
13695483 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGAGATGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCGTCGAGATGAGAGCTAGTGTAAGACATG
*
13695548 TCTAGGACAT-GCATCGGCCTCGAGACATA
64 TCTAGGACATGGCATC-GACTCGAGACATA
* * *
13695577 AGCCAGTGTAAGACATGTCTGGGACATGTATCGGC-TACGAGATGATAG-TCAGTGTAAGATCAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCGT-CGAGATGAGAGCT-AGTGTAAGA-CAT
* * * *
13695640 GTCTGGGACATGGCATCGACTTGAGATATG
63 GTCTAGGACATGGCATCGACTCGAGACATA
13695670 AGCCAGTGTAAGACTATGTCTGGGACATGGCATCAGC
1 AGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGC
13695707 ACATTACCCA
Statistics
Matches: 113, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 24 0.21
93 50 0.44
94 31 0.27
95 6 0.05
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (92 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCGTCGAGATGAGAGCTAGTGTAAGACATGTC
TAGGACATGGCATCGACTCGAGACATA
Found at i:13695666 original size:47 final size:47
Alignment explanation
Indices: 13695483--13695703 Score: 231
Period size: 47 Copynumber: 4.7 Consensus size: 47
13695473 ACATTATGAG
* *
13695483 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCGTTGAGATGA-G
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGA-C-TCGAGATGATA
* * * *
13695531 AGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGA-CATA
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGATGATA
* *
13695577 AGCCAGTGTAAGACATGTCTGGGACAT-GTATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGATGATA
* * *
13695623 AGTCAGTGTAAGATCATGTCTGGGACATGGCATCGACTTGAGAT-ATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGATGATA
13695670 AGCCAGTGTAAGACTATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATC
13695704 AGCACATTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
45 4 0.03
46 59 0.40
47 66 0.45
48 19 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGATGATA
Found at i:13702128 original size:16 final size:16
Alignment explanation
Indices: 13702109--13702139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13702099 CTTCTTCACT
13702109 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
13702125 TACTTACTTACTTAA
1 TACTCACTTACTTAA
13702140 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:13702145 original size:20 final size:20
Alignment explanation
Indices: 13702106--13702145 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13702096 GAACTTCTTC
* *
13702106 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
13702126 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
13702146 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:13702532 original size:55 final size:54
Alignment explanation
Indices: 13702379--13702584 Score: 220
Period size: 55 Copynumber: 3.8 Consensus size: 54
13702369 CCTTTTGAAA
* * *
13702379 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAC
* * * **
13702432 CTCACCAATGCCATG-CATTGGCATGGTCTTAGATGGGA-CCTTTGCCTTATAGTAC
1 CTTACCAATGCCATGTC-TTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AC
* * * *
13702487 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAAC
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAC
* * *
13702541 CTTACCAATTCCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGATATCCTT
13702585 AAACCCTAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
52 3 0.02
53 40 0.32
54 10 0.08
55 70 0.56
56 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAC
Found at i:13709678 original size:16 final size:16
Alignment explanation
Indices: 13709659--13709689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13709649 CTTCTTCACT
13709659 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
13709675 TACTTACTTACTTAA
1 TACTCACTTACTTAA
13709690 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:13709695 original size:20 final size:20
Alignment explanation
Indices: 13709656--13709695 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13709646 AAACTTCTTC
* *
13709656 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
13709676 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
13709696 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:13710071 original size:55 final size:53
Alignment explanation
Indices: 13709881--13710135 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
13709871 ACACGGGTAC
* * * * *
13709881 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
13709930 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
13709983 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
13710038 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
13710091 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
13710136 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.20
52 2 0.01
53 47 0.27
54 14 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:13710072 original size:108 final size:110
Alignment explanation
Indices: 13709928--13710128 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
13709918 ATCCTTTTGA
* *
13709928 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
13709991 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
13710036 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
13710101 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
13710129 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:13717799 original size:14 final size:14
Alignment explanation
Indices: 13717780--13717830 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
13717770 CATAACTTAT
13717780 ATTATATACATATA
1 ATTATATACATATA
* *
13717794 ATTATATACATTTC
1 ATTATATACATATA
13717808 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
13717824 TATTATA
1 -ATTATA
13717831 CATATTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 3 0.10
16 7 0.23
17 4 0.13
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:13723601 original size:13 final size:13
Alignment explanation
Indices: 13723583--13723610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13723573 ACAAACGATA
13723583 AAAATTTTCACAC
1 AAAATTTTCACAC
13723596 AAAATTTTCACAC
1 AAAATTTTCACAC
13723609 AA
1 AA
13723611 GTCACATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:13730292 original size:23 final size:23
Alignment explanation
Indices: 13730262--13730385 Score: 126
Period size: 23 Copynumber: 5.4 Consensus size: 23
13730252 CTGATCATTT
* *
13730262 GAGCTTACCGATTCAGCTCGTAA
1 GAGCTTACTGATTCAGCTCATAA
* **
13730285 GAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCATAA
*
13730308 GAGCTTACTGATTCAGCTCGTAA
1 GAGCTTACTGATTCAGCTCATAA
**
13730331 GAGCTTACTG-TTCAGCTCATTG
1 GAGCTTACTGATTCAGCTCATAA
* * *
13730353 GAACTTACCGTTTCAGCTCA-ATA
1 GAGCTTACTGATTCAGCTCATA-A
13730376 GAGCTTACTG
1 GAGCTTACTG
13730386 TCCATCAACT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
22 17 0.21
23 64 0.79
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (23 bp):
GAGCTTACTGATTCAGCTCATAA
Found at i:13730323 original size:46 final size:46
Alignment explanation
Indices: 13730256--13730386 Score: 194
Period size: 45 Copynumber: 2.9 Consensus size: 46
13730246 TCACCACTGA
*
13730256 TCATTTGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGC
1 TCATTGGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGC
*
13730302 TCATTGGAGCTTACTGATTCAGCTCGTAAGAGCTTACTG-TTCAGC
1 TCATTGGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGC
* * *
13730347 TCATTGGAACTTACCGTTTCAGCTC-AATAGAGCTTACTGT
1 TCATTGGAGCTTACCGATTCAGCTCGTA-AGAGCTTACTGT
13730387 CCATCAACTC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
44 1 0.01
45 39 0.51
46 37 0.48
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (46 bp):
TCATTGGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTTTCAGC
Found at i:13731043 original size:15 final size:16
Alignment explanation
Indices: 13731011--13731049 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13731001 TGGTTGTATA
13731011 TATGTTTTAGATATGG
1 TATGTTTTAGATATGG
*
13731027 TATGTTTTGGA-ATGG
1 TATGTTTTAGATATGG
13731042 TAATGTTT
1 T-ATGTTT
13731050 GAATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (16 bp):
TATGTTTTAGATATGG
Found at i:13742236 original size:24 final size:24
Alignment explanation
Indices: 13742209--13742269 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
13742199 GTATATGTAT
*
13742209 ATAAAAAATATTTATAAATATCAA
1 ATAAAAAATATTAATAAATATCAA
* * *
13742233 ATAATGAAAT-TAAATAAATCTCAA
1 ATAA-AAAATATTAATAAATATCAA
*
13742257 ATATAAAATATTA
1 ATAAAAAATATTA
13742270 TTCAATGAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
23 4 0.14
24 20 0.71
25 4 0.14
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAAAAAATATTAATAAATATCAA
Found at i:13742438 original size:19 final size:19
Alignment explanation
Indices: 13742414--13742454 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
13742404 TTGTCACATC
13742414 TTAAATCAACTTGTGGAGT
1 TTAAATCAACTTGTGGAGT
13742433 TTAAATCAACTTGTGGAGT
1 TTAAATCAACTTGTGGAGT
13742452 TTA
1 TTA
13742455 TCTAAAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (19 bp):
TTAAATCAACTTGTGGAGT
Found at i:13744392 original size:150 final size:149
Alignment explanation
Indices: 13744074--13744662 Score: 835
Period size: 150 Copynumber: 3.9 Consensus size: 149
13744064 TAGGCGATCT
* * * *
13744074 GGAGGCACATTCCACTGAGGATCTAATACTACCCATCACATTGGATGGAGAAGAGTGCGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
** * *
13744139 CACTGTATGTCTCACTTCTAGGAGTCC-T--TCCACTCTTCTTATTAGTTTTCCTTCCAAGATTT
66 CACCATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTT-TTATCAGTTTTCCTTCCAAGATTT
**
13744201 TCTTCAGAGTGCAATTTGGA
130 TCTTCACTGTGCAATTTGGA
* * * *
13744221 AGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACGTTGTACGGAGAAGAGTGGGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
*
13744286 CACCGTGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCATTTTATCAGTTTTCCTTCCAAGATTT
66 CACCATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTC-TTTTATCAGTTTTCCTTCCAAGATTT
*
13744351 TCTTCACTGTGCAATTTGGG
130 TCTTCACTGTGCAATTTGGA
*
13744371 GGAGGCACCTTTCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
* ** * *
13744436 CACTATGCATCTCACTTCTAGGAGTCCTTCCTCCACCCTTTATATCAGTTTTCCTTACAAGATTT
66 CACCATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTT-TATCAGTTTTCCTTCCAAGATTT
13744501 TCTTCACTGTGCAATTTGGA
130 TCTTCACTGTGCAATTTGGA
* * *
13744521 GGAGGCACCTTCCACCGAGGATCTACTACTACCCATCACATTGAATGGAGAAGAGTGAGGAATTC
1 GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
* * * **
13744586 CATCATGTGTCTCGCTTCTAGGAGT-CTGTCCTCCACGCTTTTTATCAGTTTTCCTTCCATCATT
66 CACCATGTGTCTCACTTCTAGGAGTCCT-TCCTCCACTC-TTTTATCAGTTTTCCTTCCAAGATT
13744650 TTCTTCACTGTGC
129 TTCTTCACTGTGC
13744663 TTTCTCTTCT
Statistics
Matches: 397, Mismatches: 38, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
147 83 0.21
148 1 0.00
149 5 0.01
150 303 0.76
151 5 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (149 bp):
GGAGGCACCTTCCACTGAGGATCTACTACTACCCATCACATTGGACGGAGAAGAGTGAGGAATTC
CACCATGTGTCTCACTTCTAGGAGTCCTTCCTCCACTCTTTTATCAGTTTTCCTTCCAAGATTTT
CTTCACTGTGCAATTTGGA
Found at i:13746930 original size:36 final size:36
Alignment explanation
Indices: 13746890--13746963 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
13746880 AGAAATAGGA
*
13746890 CAAAGCATTGTTTTTGCAATGACACAAAAATAAAAT
1 CAAAGCATTGTTTTTGCAATGAAACAAAAATAAAAT
13746926 CAAAGCATTGTTTTTGCAATGAAACAAAAATAAAAT
1 CAAAGCATTGTTTTTGCAATGAAACAAAAATAAAAT
13746962 CA
1 CA
13746964 TACTCCCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (36 bp):
CAAAGCATTGTTTTTGCAATGAAACAAAAATAAAAT
Found at i:13749278 original size:3 final size:3
Alignment explanation
Indices: 13749264--13749297 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
13749254 ATCATACAAG
* *
13749264 TCA TCT TCA TCA TCA TCA TTA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
13749298 TATTGGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:13749298 original size:15 final size:15
Alignment explanation
Indices: 13749270--13749300 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13749260 CAAGTCATCT
13749270 TCATCATCATCATTA
1 TCATCATCATCATTA
13749285 TCATCATCATCATTA
1 TCATCATCATCATTA
13749300 T
1 T
13749301 TGGAATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCATCATCATTA
Found at i:13751116 original size:7 final size:7
Alignment explanation
Indices: 13751106--13751147 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
13751096 AAATTAAGAA
13751106 TTTTAAT
1 TTTTAAT
13751113 TTTT-AT
1 TTTTAAT
*
13751119 TTTTATT
1 TTTTAAT
13751126 TTTTATATT
1 TTTTA-A-T
13751135 TTTTAAT
1 TTTTAAT
13751142 TTTTAA
1 TTTTAA
13751148 AATTTAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 1 0.03
9 6 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:13752802 original size:16 final size:16
Alignment explanation
Indices: 13752783--13752816 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13752773 CCCCCCCCCC
*
13752783 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAACAA
*
13752799 AAAAAAAACAAAACAA
1 AAAAAAAAAAAAACAA
13752815 AA
1 AA
13752817 TCGCCTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAACAA
Found at i:13758945 original size:15 final size:14
Alignment explanation
Indices: 13758897--13758949 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
13758887 TTTTCTTCTG
*
13758897 ATTATATTTTAGTT
1 ATTATATTTTAATT
* *
13758911 ATTTATATTTAAAAT
1 A-TTATATTTTAATT
13758926 ATTATATTTTAATT
1 ATTATATTTTAATT
*
13758940 AGT-TATTTTA
1 ATTATATTTTA
13758950 TCATTAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 7 0.22
14 14 0.44
15 11 0.34
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:13762270 original size:38 final size:38
Alignment explanation
Indices: 13762210--13762286 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
13762200 CTGAGCACAC
*
13762210 GCCCGTGTCGATATCGCTCCAGGTTTTCCAAATACGCA
1 GCCCATGTCGATATCGCTCCAGGTTTTCCAAATACGCA
* *
13762248 GCCCATGTGGATATTGCTCCAGGTTTTCCAAATACGCA
1 GCCCATGTCGATATCGCTCCAGGTTTTCCAAATACGCA
13762286 G
1 G
13762287 AAAAAGCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (38 bp):
GCCCATGTCGATATCGCTCCAGGTTTTCCAAATACGCA
Found at i:13763664 original size:16 final size:15
Alignment explanation
Indices: 13763634--13763663 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13763624 GGATGGTGGG
13763634 GGGAATTCATTTTTT
1 GGGAATTCATTTTTT
13763649 GGGAATTCATTTTTT
1 GGGAATTCATTTTTT
13763664 TTCATCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (15 bp):
GGGAATTCATTTTTT
Found at i:13773962 original size:26 final size:24
Alignment explanation
Indices: 13773928--13773976 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
13773918 TAAATACAAA
* *
13773928 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
13773954 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
13773977 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:13774042 original size:41 final size:40
Alignment explanation
Indices: 13773967--13774051 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
13773957 TAAAAACATA
*
13773967 AAAACAAATATTAAAACAAGAAACAAATAAAAAATGATACT
1 AAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAAT
* * * * **
13774008 AAAACAATTCTTAAAACAATACACAAATTGAAAATATAAT
1 AAAACAAATATTAAAACAAGAAACAAATAAAAAATATAAT
13774048 AAAA
1 AAAA
13774052 AGTGGTCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.20
Consensus pattern (40 bp):
AAAACAAATATTAAAACAAGAAACAAATAAAAAATATAAT
Found at i:13774236 original size:23 final size:23
Alignment explanation
Indices: 13774187--13774236 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13774177 AAAGAACAAT
*
13774187 AAAACACCATAAAAAATAACACC
1 AAAACACCATAAAAAATAACACA
* *
13774210 AAAACAGCATAACAAAA-AGCACA
1 AAAACACCATAA-AAAATAACACA
13774233 AAAA
1 AAAA
13774237 AAAAAGCACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.68, C:0.22, G:0.04, T:0.06
Consensus pattern (23 bp):
AAAACACCATAAAAAATAACACA
Found at i:13774238 original size:36 final size:35
Alignment explanation
Indices: 13774197--13774265 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
13774187 AAAACACCAT
* *
13774197 AAAAAATAA-CACCAAAACAGCATAACAAAAAGCACA
1 AAAAAAAAAGCACC-AAACAGCA-AAAAAAAAGCACA
13774233 AAAAAAAAAGCACCAAACAGCAAAAAAAAAGCA
1 AAAAAAAAAGCACCAAACAGCAAAAAAAAAGCA
13774266 TCACCAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 10 0.33
36 16 0.53
37 4 0.13
ACGTcount: A:0.70, C:0.20, G:0.07, T:0.03
Consensus pattern (35 bp):
AAAAAAAAAGCACCAAACAGCAAAAAAAAAGCACA
Found at i:13779712 original size:30 final size:32
Alignment explanation
Indices: 13779678--13779736 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
13779668 AAATAATACT
*
13779678 TATAAATTATT-GAAATTATATTT-TATTAAA
1 TATAAATTATTAAAAATTATATTTATATTAAA
13779708 TATAAATTATTAAAAATTATATTTATATT
1 TATAAATTATTAAAAATTATATTTATATT
13779737 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 11 0.42
32 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (32 bp):
TATAAATTATTAAAAATTATATTTATATTAAA
Found at i:13779717 original size:14 final size:15
Alignment explanation
Indices: 13779677--13779721 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
13779667 TAAATAATAC
13779677 TTATAAATTATTGAAA
1 TTATAAATTATT-AAA
**
13779693 TTATATTTTATTAAA
1 TTATAAATTATTAAA
13779708 -TATAAATTATTAAA
1 TTATAAATTATTAAA
13779722 AATTATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 3 0.12
16 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTATAAATTATTAAA
Found at i:13779775 original size:27 final size:26
Alignment explanation
Indices: 13779722--13779783 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
13779712 AATTATTAAA
*
13779722 AATTATATTTATATTTTTAATAAAAT
1 AATTAAATTTATATTTTTAATAAAAT
* * *
13779748 ATGTTAAATTTATTTTATTTAA-ATAAT
1 A-ATTAAATTTATATT-TTTAATAAAAT
13779775 AATTAAATT
1 AATTAAATT
13779784 ACATGTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 8 0.28
27 16 0.55
28 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AATTAAATTTATATTTTTAATAAAAT
Found at i:13779775 original size:32 final size:33
Alignment explanation
Indices: 13779690--13779776 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 33
13779680 TAAATTATTG
*
13779690 AAATTATATTTTA-TTAAAT-ATAAATTATTAA
1 AAATTATATTTTATTTAAATAATAAAATATTAA
* *
13779721 AAATTATATTTATATTT--TTAATAAAATATGT-T
1 AAATTATATTT-TATTTAAATAATAAAATAT-TAA
13779753 AAATT-TATTTTATTTAAATAATAA
1 AAATTATATTTTATTTAAATAATAA
13779777 TTAAATTACA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
30 5 0.11
31 17 0.37
32 21 0.46
33 3 0.07
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
AAATTATATTTTATTTAAATAATAAAATATTAA
Found at i:13780364 original size:42 final size:42
Alignment explanation
Indices: 13780312--13780395 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
13780302 TATCTAAAAT
* * *
13780312 AATATAAAATATTATATTACTAAGATTCAAATTAGAAATAAA
1 AATATAAAATATTATATTAATAAGATTAAAATTAAAAATAAA
*
13780354 AATATAAAATATTATATTAATAAGGTTAAAATTAAAAATAAA
1 AATATAAAATATTATATTAATAAGATTAAAATTAAAAATAAA
13780396 TAATCTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (42 bp):
AATATAAAATATTATATTAATAAGATTAAAATTAAAAATAAA
Found at i:13780509 original size:16 final size:15
Alignment explanation
Indices: 13780488--13780532 Score: 65
Period size: 14 Copynumber: 3.0 Consensus size: 15
13780478 TTTTTAATAT
13780488 AAATTTAGTACTTATA
1 AAATTTAGTACTTA-A
*
13780504 AAATTTAGCAC-TAA
1 AAATTTAGTACTTAA
13780518 AAATTTAGTACTTAA
1 AAATTTAGTACTTAA
13780533 TTTTTTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 11 0.42
15 5 0.19
16 10 0.38
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (15 bp):
AAATTTAGTACTTAA
Found at i:13782482 original size:7 final size:7
Alignment explanation
Indices: 13782470--13782503 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
13782460 TTTATCTCAT
13782470 ATATATC
1 ATATATC
13782477 ATATATC
1 ATATATC
13782484 ATATATC
1 ATATATC
13782491 ATATATC
1 ATATATC
13782498 ATATAT
1 ATATAT
13782504 ACTATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATATC
Found at i:13785905 original size:20 final size:20
Alignment explanation
Indices: 13785880--13785917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13785870 TTAAAATTGA
13785880 CAAAAATAAAAAAATGTTTT
1 CAAAAATAAAAAAATGTTTT
* *
13785900 CAAAAATTAAAAATTGTT
1 CAAAAATAAAAAAATGTT
13785918 AAAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
CAAAAATAAAAAAATGTTTT
Found at i:13793505 original size:2 final size:2
Alignment explanation
Indices: 13793500--13793532 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13793490 TCTCTCTCTC
13793500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13793533 TATCCCCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13793755 original size:24 final size:24
Alignment explanation
Indices: 13793723--13793772 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
13793713 CTACAGAAGA
* *
13793723 AAATAACAAAGATTTTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
*
13793747 AAATAACAAATATATTATACTAAT
1 AAATAACAAAGATATTATACTAAT
13793771 AA
1 AA
13793773 TTTTTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:13797089 original size:40 final size:40
Alignment explanation
Indices: 13797034--13797113 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
13797024 AATTAGAGAC
13797034 AAGATACATGACCGACGATGCTACAAGTAAGAAGTTTATT
1 AAGATACATGACCGACGATGCTACAAGTAAGAAGTTTATT
13797074 AAGATACATGACCGACGATGCTACAAGTAAGAAGTTTATT
1 AAGATACATGACCGACGATGCTACAAGTAAGAAGTTTATT
13797114 GTTAGTCGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (40 bp):
AAGATACATGACCGACGATGCTACAAGTAAGAAGTTTATT
Found at i:13802419 original size:2 final size:2
Alignment explanation
Indices: 13802412--13802460 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
13802402 CCATTCAAGA
13802412 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
13802454 AT AT AT A
1 AT AT AT A
13802461 ACATGCTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13804371 original size:18 final size:19
Alignment explanation
Indices: 13804344--13804381 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13804334 TAAATAAATA
*
13804344 ATTATATATTTTTAAAGAC
1 ATTATATATTTTGAAAGAC
13804363 ATTAT-TATTTTGAAAGAC
1 ATTATATATTTTGAAAGAC
13804381 A
1 A
13804382 CCTATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (19 bp):
ATTATATATTTTGAAAGAC
Found at i:13804976 original size:14 final size:15
Alignment explanation
Indices: 13804946--13804976 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13804936 GAGAATAAGC
13804946 TTGTCTTTTATTTTT
1 TTGTCTTTTATTTTT
13804961 TTGTCTTTTATTTTT
1 TTGTCTTTTATTTTT
13804976 T
1 T
13804977 CTTTAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (15 bp):
TTGTCTTTTATTTTT
Found at i:13805430 original size:3 final size:3
Alignment explanation
Indices: 13805422--13805454 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
13805412 AAATAAAGTA
*
13805422 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13805455 GACAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13807350 original size:92 final size:92
Alignment explanation
Indices: 13807192--13807393 Score: 307
Period size: 92 Copynumber: 2.2 Consensus size: 92
13807182 TCCAACCCAT
* * * * *
13807192 TGCAACTTCGGGTAGATATTCGTCTCTTCAACCTATTTCACTGCAACTTCAGGGAGATAAGATCT
1 TGCAACTTTGGGGAGATATTCGTATCTTCAACCTATTCCACTACAACTTCAGGGAGATAAGATCT
13807257 GTAGCTTATAGCTTTAGTTTATTCCAC
66 GTAGCTTATAGCTTTAGTTTATTCCAC
*
13807284 TGCAACTTTGGGGAGATATTCGTATCCTT-AACCTATTCCACTACAACTTCAGGGAGATAAGGTC
1 TGCAACTTTGGGGAGATATTCGTAT-CTTCAACCTATTCCACTACAACTTCAGGGAGATAAGATC
*
13807348 TGTAGCTTGTAGCTTTAGTTTATTCCAC
65 TGTAGCTTATAGCTTTAGTTTATTCCAC
* *
13807376 TGTAACTTTAGGGAGATA
1 TGCAACTTTGGGGAGATA
13807394 AGACTTGCTG
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 97 0.97
93 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (92 bp):
TGCAACTTTGGGGAGATATTCGTATCTTCAACCTATTCCACTACAACTTCAGGGAGATAAGATCT
GTAGCTTATAGCTTTAGTTTATTCCAC
Found at i:13807565 original size:89 final size:89
Alignment explanation
Indices: 13807458--13807710 Score: 255
Period size: 89 Copynumber: 2.8 Consensus size: 89
13807448 TTGTCGCTTT
* * *
13807458 AATCTGCTCCACTCCAACTTCAAGGAGATAAGATTTGTAATCTTCAATCTGCTCTACTATAACT-
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT-AGCTTCAATCTGCTCCACTATAACTA
* **
13807522 TCA-AGTAGAT-AAGTTTTGTGA-CTTC
65 T-AGAG-AGATAAAATTTACT-ATCTTC
* * * * *
13807547 AA-CTTGCTCCATTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTGTAACTA
1 AATC-TGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTATAACTA
13807611 TAGAGAGATAAAATTTACTATCTTC
65 TAGAGAGATAAAATTTACTATCTTC
* * * * * ** *
13807636 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAACCTACTCCATTGCAACTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTATAACTAT
13807701 AGAGAGATAA
66 AGAGAGATAA
13807711 GGTTTATAAC
Statistics
Matches: 136, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
88 28 0.21
89 107 0.79
90 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTATAACTAT
AGAGAGATAAAATTTACTATCTTC
Found at i:13807566 original size:44 final size:44
Alignment explanation
Indices: 13807422--13807699 Score: 224
Period size: 44 Copynumber: 6.3 Consensus size: 44
13807412 TTAATCCGAC
* * * ** *
13807422 CCACTGCAACTTCAGAGG-TATAGGACTTGTCGCTTTAATCTGCT
1 CCACTGCAACTTCA-AGGAGATAAGATTTGTATCTTCAATCTGCT
*
13807466 CCACTCCAACTTCAAGGAGATAAGATTTGTAATCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGT-ATCTTCAATCTGCT
* ** * *
13807511 CTACTATAACTTCAAGTAGATAAGTTTTGTGA-CTTCAA-CTTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGT-ATCTTCAATC-TGCT
* * * * *
13807555 CCATTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAATCTGCT
* * *
13807599 CCACTGTAAC-T-ATAGAGAGATAAAATTTACTATCTTCAATCTGCT
1 CCACTGCAACTTCA-AG-GAGATAAGATTT-GTATCTTCAATCTGCT
* ** * *
13807644 CCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTCAACCTACT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAATCTGCT
*
13807688 CCATTGCAACTT
1 CCACTGCAACTT
13807700 TAGAGAGATA
Statistics
Matches: 187, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 8 0.04
44 104 0.56
45 71 0.38
46 2 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGAGATAAGATTTGTATCTTCAATCTGCT
Found at i:13807665 original size:133 final size:133
Alignment explanation
Indices: 13807453--13807718 Score: 342
Period size: 133 Copynumber: 2.0 Consensus size: 133
13807443 AGGACTTGTC
* * * *
13807453 GCTTTAATCTGCTCCACTCCAACTTCAAGGAGATAAGATTTGTAATCTTCAATCTGCTCTACTAT
1 GCTTTAATCTGCTCCACTCCAACTTCAAGGAGATAAAATTTCTAATCTTCAATCTGCTCCACTAC
* * * *
13807518 AACTTCAAGTAGATAAGTTTTGTGACTTCAACTTGCTCCATTGCAACTTCAAG-GAGATAAGGTT
66 AACTTCAAGGAGATAAGATTTGTGACTTCAACCTACTCCATTGCAACTT-AAGAGAGATAAGGTT
13807582 TATA
130 TATA
**
13807586 GCTTTAATCTGCTCCACTGTAAC-T-ATAGAGAGATAAAATTTACT-ATCTTCAATCTGCTCCAC
1 GCTTTAATCTGCTCCACTCCAACTTCA-AG-GAGATAAAATTT-CTAATCTTCAATCTGCTCCAC
* * * *
13807648 TGCAACTTCAGGGAGATAAGATTTGTGGCTTCAACCTACTCCATTGCAACTTTAGAGAGATAAGG
63 TACAACTTCAAGGAGATAAGATTTGTGACTTCAACCTACTCCATTGCAACTTAAGAGAGATAAGG
13807713 TTTATA
128 TTTATA
13807719 ACTTGTAGCT
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
131 1 0.01
132 5 0.04
133 108 0.94
134 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (133 bp):
GCTTTAATCTGCTCCACTCCAACTTCAAGGAGATAAAATTTCTAATCTTCAATCTGCTCCACTAC
AACTTCAAGGAGATAAGATTTGTGACTTCAACCTACTCCATTGCAACTTAAGAGAGATAAGGTTT
ATA
Found at i:13813562 original size:2 final size:2
Alignment explanation
Indices: 13813555--13813584 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13813545 ACACATATGA
13813555 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
13813585 CATAACCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13816892 original size:35 final size:35
Alignment explanation
Indices: 13816848--13817014 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
13816838 TCCTCATTGA
** *
13816848 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
13816883 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
13816923 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
13816958 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13816993 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13817015 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13816931 original size:75 final size:73
Alignment explanation
Indices: 13816843--13817014 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
13816833 GGTTTTCCTC
** * * **
13816843 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
13816907 TCAGTATGG
65 TCAGTATGG
*
13816916 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
13816981 CTCAGTATGG
64 CTCAGTATGG
13816991 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
13817015 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:13822970 original size:29 final size:29
Alignment explanation
Indices: 13822925--13822982 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
13822915 TTTATTATCA
*
13822925 AACATCTATCTTCGTACATTGAGGGCAAT
1 AACATCTATCTTCGTACATTGACGGCAAT
*
13822954 AACATCTATCTTTGTACATTGACGGCAAT
1 AACATCTATCTTCGTACATTGACGGCAAT
13822983 GTACATCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (29 bp):
AACATCTATCTTCGTACATTGACGGCAAT
Found at i:13829613 original size:3 final size:3
Alignment explanation
Indices: 13829605--13829653 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
13829595 AACTGTTTTA
13829605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13829653 A
1 A
13829654 GGCTAACAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13833158 original size:19 final size:20
Alignment explanation
Indices: 13833129--13833178 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
13833119 CATATTATCA
* *
13833129 TTTAATTAATTTTTTTAAATT
1 TTTAA-TAATTTTTTAAAAAT
13833150 TTTAA-AATTTTTTAAAAAT
1 TTTAATAATTTTTTAAAAAT
13833169 TTTAATAATT
1 TTTAATAATT
13833179 CTAATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 17 0.65
20 4 0.15
21 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAATAATTTTTTAAAAAT
Done.