Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 46 of 310
Found at i:13589474 original size:40 final size:41
Alignment explanation
Indices: 13589381--13589489 Score: 100
Period size: 40 Copynumber: 2.7 Consensus size: 41
13589371 CAGAAATTAT
* ** *
13589381 TAGCGG-TTTTTTTGCAAAAGTGCCGCTAATGCTTGATCTA
1 TAGCGGATTTTTTTGAAAAAACGCCGCTAATGCTTGAACTA
* *
13589421 TAGCGGCA--CTTTTGAAAAAACGCCGCTAATGC-TGAACTC
1 TAGCGG-ATTTTTTTGAAAAAACGCCGCTAATGCTTGAACTA
* * *
13589460 TAGCGGATTTTTTTGTACAAACACCGCTAA
1 TAGCGGATTTTTTTGAAAAAACGCCGCTAA
13589490 AAGCGCCGCT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.02
39 11 0.20
40 43 0.78
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
TAGCGGATTTTTTTGAAAAAACGCCGCTAATGCTTGAACTA
Found at i:13592143 original size:15 final size:16
Alignment explanation
Indices: 13592107--13592141 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13592097 ATGAAAAGCA
13592107 AAAAAT-AAAAGTGAT
1 AAAAATAAAAAGTGAT
13592122 AAAAATAAAAAGTGAT
1 AAAAATAAAAAGTGAT
13592138 AAAA
1 AAAA
13592142 TATTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAAGTGAT
Found at i:13592335 original size:9 final size:9
Alignment explanation
Indices: 13592321--13592349 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
13592311 CTCATTTGGA
13592321 CTAATCTTT
1 CTAATCTTT
13592330 CTAATCTTT
1 CTAATCTTT
13592339 CTAATCTTT
1 CTAATCTTT
13592348 CT
1 CT
13592350 TTGGATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (9 bp):
CTAATCTTT
Found at i:13607262 original size:35 final size:35
Alignment explanation
Indices: 13607216--13607285 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
13607206 AAACATGTAT
*
13607216 GGGCTCAATAATAATTAGATTTCCATGTACATATA
1 GGGCTCAATAATAATTAGATTTCCACGTACATATA
13607251 GGGCTCAATAATAATTAGATTTCCACGTACATATA
1 GGGCTCAATAATAATTAGATTTCCACGTACATATA
13607286 CTTTCCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (35 bp):
GGGCTCAATAATAATTAGATTTCCACGTACATATA
Found at i:13607513 original size:23 final size:24
Alignment explanation
Indices: 13607487--13607533 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
13607477 ATTCCATGTT
13607487 CATATATCAT-TATC-TCATATTTC
1 CATATATCATGTATCATCAT-TTTC
13607510 CATATATCATGTATCATCATTTTC
1 CATATATCATGTATCATCATTTTC
13607534 ATGTATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (24 bp):
CATATATCATGTATCATCATTTTC
Found at i:13611533 original size:19 final size:19
Alignment explanation
Indices: 13611497--13611535 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13611487 TCTTCATCAT
* *
13611497 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
13611516 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
13611535 A
1 A
13611536 ATAATTAAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:13612039 original size:55 final size:56
Alignment explanation
Indices: 13611974--13612088 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
13611964 AGCATGGCTG
* *
13611974 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
13612030 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
13612085 CCAG
1 CCAG
13612089 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:13612051 original size:27 final size:27
Alignment explanation
Indices: 13611999--13612088 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
13611989 GTGACAGAGT
13611999 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
13612028 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
13612055 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
13612083 CACCAG
1 CACCAG
13612089 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:13612241 original size:28 final size:28
Alignment explanation
Indices: 13612194--13612258 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
13612184 AAATTAACCC
*
13612194 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
13612222 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
13612250 TAGGGGTAT
1 TAGGGGTAT
13612259 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:13614004 original size:3 final size:3
Alignment explanation
Indices: 13613996--13614043 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
13613986 AATAGATTTA
* * * *
13613996 ATT ATT ATT AGT AGT ATT ATT ATA ACT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13614043 A
1 A
13614044 AATAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:13614286 original size:23 final size:24
Alignment explanation
Indices: 13614258--13614316 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
13614248 ATAATGACAA
*
13614258 TTGTAATAAAA-ATAT-TGGTACAT
1 TTGTAATAAAAGATATAT-GTACAC
13614281 TTGTAATAAATAGATATATGTACAC
1 TTGTAATAAA-AGATATATGTACAC
*
13614306 TTGTTATAAAA
1 TTGTAATAAAA
13614317 TAATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 18 0.58
26 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (24 bp):
TTGTAATAAAAGATATATGTACAC
Found at i:13615226 original size:12 final size:13
Alignment explanation
Indices: 13615190--13615227 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13615180 AGATATTTGA
13615190 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
13615203 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
13615217 CTTG-TCTTAAT
1 CTTGTTCTTAAT
13615228 ATACCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:13627552 original size:43 final size:43
Alignment explanation
Indices: 13627420--13627552 Score: 126
Period size: 43 Copynumber: 3.1 Consensus size: 43
13627410 ATACATGGTT
*
13627420 TTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTC
1 TTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACTGTC
* * * ** * **
13627463 TTACAAGAAAAAAT-AGATACGACGCCAATGTCCCAGACA-TGGTC
1 TTATACGTAAATCTCA-AT-CGAGGCCTGTGTCCCAGACACT-GTC
* *
13627507 TTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGAAACTATC
1 TTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACTGTC
13627550 TTA
1 TTA
13627553 CACGATGTCT
Statistics
Matches: 66, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
42 1 0.02
43 32 0.48
44 32 0.48
45 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
TTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACTGTC
Found at i:13627552 original size:87 final size:88
Alignment explanation
Indices: 13627385--13627554 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 88
13627375 GTCTTACATG
* * * * *
13627385 AAATCAGATACGATGCCGATGTCGCATACATGGTTTTATACGTAAATCTCAATCGAGGCCTGTGT
1 AAATCAGATACGACGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGT
* *
13627450 CCCAGACACGGTCTTACAAGAAA
66 CCCAGAAACGATCTTACAAGAAA
13627473 AAAT-AGATACGACGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGT
1 AAATCAGATACGACGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGT
*
13627537 CCCAGAAACTATCTTACA
66 CCCAGAAACGATCTTACA
13627555 CGATGTCTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 70 0.95
88 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (88 bp):
AAATCAGATACGACGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTGT
CCCAGAAACGATCTTACAAGAAA
Found at i:13631409 original size:12 final size:13
Alignment explanation
Indices: 13631373--13631410 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13631363 AAATATTTGA
13631373 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
13631386 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
13631400 CTTG-TCTTAAT
1 CTTGTTCTTAAT
13631411 ATTCCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:13632916 original size:48 final size:47
Alignment explanation
Indices: 13632844--13633013 Score: 243
Period size: 48 Copynumber: 3.6 Consensus size: 47
13632834 TGCCTCATGC
**
13632844 CGATG-CATGTCCCAAACATGGTCTTACGTTGGCTCACATAACGATG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACGATG
* *
13632890 TCGATGCCATGTCCTAAACATTGTCTTACACTGGCTCACATAACGATG
1 -CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACGATG
* *
13632938 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACGATG
1 C-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACGATG
*
13632986 CCGATGCCATATCCCAAACATGGTCTTA
1 -CGATGCCATGTCCCAAACATGGTCTTA
13633014 TACGGGATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
47 6 0.05
48 103 0.94
49 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACGATG
Found at i:13635909 original size:43 final size:44
Alignment explanation
Indices: 13635846--13635991 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 44
13635836 GTTATCGAGA
* * *
13635846 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* *
13635889 TGTGATTACGTGTAATACCATGTCTGGAACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* * * * *
13635933 T-TGATTTCGTCTAAGACCCTGTCTGGGACAATGGCATCGATA-
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* *
13635975 TGTGATAACATGTAAGA
1 TGTGATTACGTGTAAGA
13635992 TTGGGATATG
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.94
44 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
Found at i:13641767 original size:16 final size:16
Alignment explanation
Indices: 13641721--13641768 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
13641711 TCGACAAATC
* *
13641721 CCGAAATGTCAGAAAG
1 CCGAAATGCCAAAAAG
* *
13641737 CTGAAATGCCGAAAAG
1 CCGAAATGCCAAAAAG
*
13641753 CCGAAATGCTAAAAAG
1 CCGAAATGCCAAAAAG
13641769 TTAAAAGTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (16 bp):
CCGAAATGCCAAAAAG
Found at i:13642044 original size:29 final size:29
Alignment explanation
Indices: 13642011--13642093 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
13642001 CGATTGGATG
*
13642011 GGCCATATGATTGTGATTTGGGCCTAA-T
1 GGCCATATGAATGTGATTTGGGCCTAATT
13642039 GAGCCATATGAATGTGATTTGGGCCTAATT
1 G-GCCATATGAATGTGATTTGGGCCTAATT
* *
13642069 GGCCATATGACTGAGA-TTGGGCCTA
1 GGCCATATGAATGTGATTTGGGCCTA
13642094 GTGGGCCGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 10 0.20
29 38 0.76
30 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (29 bp):
GGCCATATGAATGTGATTTGGGCCTAATT
Found at i:13645527 original size:8 final size:8
Alignment explanation
Indices: 13645511--13645569 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
13645501 TTAGATCGAC
*
13645511 AAATCCCG
1 AAATGCCG
13645519 AAATGCCG
1 AAATGCCG
*
13645527 AAATGTCG
1 AAATGCCG
* *
13645535 ATATACCG
1 AAATGCCG
*
13645543 AAAAGCCG
1 AAATGCCG
*
13645551 AAATGCCA
1 AAATGCCG
*
13645559 AAAAGCCG
1 AAATGCCG
13645567 AAA
1 AAA
13645570 GTCTGGCTAC
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (8 bp):
AAATGCCG
Found at i:13645863 original size:28 final size:29
Alignment explanation
Indices: 13645802--13645870 Score: 122
Period size: 28 Copynumber: 2.4 Consensus size: 29
13645792 TTCGGGACGG
13645802 ATGGGCCATATGAATGCAATTTGGGCCTA
1 ATGGGCCATATGAATGCAATTTGGGCCTA
13645831 ATGGGCCATATGAATG-AATTTGGGCCTA
1 ATGGGCCATATGAATGCAATTTGGGCCTA
*
13645859 GTGGGCCATATG
1 ATGGGCCATATG
13645871 CATGTATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGCAATTTGGGCCTA
Found at i:13650463 original size:43 final size:43
Alignment explanation
Indices: 13650402--13650566 Score: 197
Period size: 43 Copynumber: 3.8 Consensus size: 43
13650392 GTTATCTAGA
* *
13650402 TGTGATTACATGTAAGACCATGTTTGGGACGTTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
13650445 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
** * * * *
13650488 TGTGATTACGCGTAATACCCTGTCTGGAACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* * * * *
13650532 T-CGATTTCGTGTAAGACCCTGTCTGGGACAATGGC
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGC
13650567 GTCGATATGT
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 103 0.96
44 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:13652305 original size:24 final size:23
Alignment explanation
Indices: 13652278--13652330 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
13652268 TATGTATTTG
13652278 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
13652302 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
13652323 TTATTAAA
1 TTATTAAA
13652331 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:13652470 original size:16 final size:16
Alignment explanation
Indices: 13652449--13652495 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13652439 ATGAATTAAA
13652449 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
13652465 TATTATTATAATGTAT
1 TATTATTATATTATAT
*
13652481 TATTACTAATATTAT
1 TATTA-TTATATTAT
13652496 TAACTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:13652481 original size:13 final size:12
Alignment explanation
Indices: 13652453--13652497 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
13652443 ATTAAATATT
13652453 ATTA-TATTAT-
1 ATTATTATTATA
13652463 ATTATTATTATA
1 ATTATTATTATA
13652475 ATGTATTATTACTA
1 AT-TATTATTA-TA
13652489 A-TATTATTA
1 ATTATTATTA
13652498 ACTAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.13
11 6 0.19
12 10 0.32
13 8 0.26
14 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:13657227 original size:47 final size:47
Alignment explanation
Indices: 13657164--13657514 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
13657154 CCCTTCGGGA
* * * *
13657164 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657211 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657258 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657305 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13657399 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
13657446 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13657495 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
13657515 GTACATCAAT
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:13658796 original size:85 final size:85
Alignment explanation
Indices: 13658667--13658845 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
13658657 TTTTTTATTG
*
13658667 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
13658732 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
13658752 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
13658817 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
13658837 CCCATGCTC
1 CCCATGCTC
13658846 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:13667303 original size:16 final size:16
Alignment explanation
Indices: 13667278--13667313 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13667268 AGCAAATCCT
13667278 GAAATACCGAAAAGCC
1 GAAATACCGAAAAGCC
* *
13667294 GAAATGCCGAAAAGCT
1 GAAATACCGAAAAGCC
13667310 GAAA
1 GAAA
13667314 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.19, G:0.22, T:0.08
Consensus pattern (16 bp):
GAAATACCGAAAAGCC
Found at i:13667634 original size:28 final size:29
Alignment explanation
Indices: 13667523--13667647 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
13667513 GAAAGCATGT
*
13667523 ATATGAATGTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
13667552 ATATGAATGTGATCTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
13667581 ATACGAATGTGATTTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
13667610 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
13667638 ATATGCATGT
1 ATATGAATGT
13667648 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 24 0.28
29 63 0.72
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:13667665 original size:57 final size:58
Alignment explanation
Indices: 13667547--13667656 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 58
13667537 TGGGCCTAAC
* * * *
13667547 GGGCCATATGAATGTGATCTGGGCCTAATGGGCCATACGAATGTGATTTGGGCCTAGT
1 GGGCCATATGAATGAGATCTGGGCCTAATGGGCCATACGAATGTGATGTGAGACTAGT
* * *
13667605 GGGCCATATGAATGAGAT-TGGGCCTAGTGGGCCATATGCATGT-ATGT-AGACT
1 GGGCCATATGAATGAGATCTGGGCCTAATGGGCCATACGAATGTGATGTGAGACT
13667657 TGTTTGGGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
55 3 0.07
56 3 0.07
57 22 0.49
58 17 0.38
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (58 bp):
GGGCCATATGAATGAGATCTGGGCCTAATGGGCCATACGAATGTGATGTGAGACTAGT
Found at i:13669067 original size:27 final size:27
Alignment explanation
Indices: 13669021--13669088 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
13669011 GAACAAATCT
* *
13669021 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
* *
13669048 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACA
13669075 GTCATTTTACCCTA
1 GTCATTTTACCCTA
13669089 TGAGGGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:13669095 original size:27 final size:26
Alignment explanation
Indices: 13669021--13669096 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
13669011 GAACAAATCT
*
13669021 GTCATTTTACCTTACCG-GGGTATTACA
1 GTCATTTTACCCTA--GAGGGTATTACA
* * *
13669048 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTAGA-GGGTATTACA
13669075 GTCATTTTACCCTATGAGGGTA
1 GTCATTTTACCCTA-GAGGGTA
13669097 AAATCCTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCCTAGAGGGTATTACA
Found at i:13669106 original size:27 final size:27
Alignment explanation
Indices: 13669088--13669256 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
13669078 ATTTTACCCT
* *
13669088 ATGAGGGTAAAATCCTCATTTTATCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
* ** *
13669115 ATAAGGGCAAAATTTTCATTTTAGCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
*
13669142 ATGAAGGCAAAATCATCATTTTATCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
13669169 ATGAGGGCAAAATCATCATTTTATCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
** *
13669196 ATGAGGGCAAAATTGTAATTTTATCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
* *
13669223 ATGAGGGAAAAATCGTCATTTTATCAC
1 ATGAGGGCAAAATCATCATTTTATCAC
13669250 ATGAGGG
1 ATGAGGG
13669257 TTCAGGTACG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (27 bp):
ATGAGGGCAAAATCATCATTTTATCAC
Found at i:13669164 original size:81 final size:81
Alignment explanation
Indices: 13669088--13669256 Score: 257
Period size: 81 Copynumber: 2.1 Consensus size: 81
13669078 ATTTTACCCT
* * * * *
13669088 ATGAGGGTAAAATCCTCATTTTATCACATAAGGGCAAAATTTTCATTTTAGCACATGAAGGCAAA
1 ATGAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATTGTAATTTTAGCACATGAAGGAAAA
13669153 ATCATCATTTTATCAC
66 ATCATCATTTTATCAC
* * *
13669169 ATGAGGGCAAAATCATCATTTTATCACATGAGGGCAAAATTGTAATTTTATCACATGAGGGAAAA
1 ATGAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATTGTAATTTTAGCACATGAAGGAAAA
*
13669234 ATCGTCATTTTATCAC
66 ATCATCATTTTATCAC
13669250 ATGAGGG
1 ATGAGGG
13669257 TTCAGGTACG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (81 bp):
ATGAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATTGTAATTTTAGCACATGAAGGAAAA
ATCATCATTTTATCAC
Found at i:13672556 original size:43 final size:42
Alignment explanation
Indices: 13672492--13672621 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
13672482 ACATTAGGTT
* * * *
13672492 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATATGATAACATGTAAGACCATATCTGGGACA-TGGC
** * * * *
13672535 ATCG-TATTATGATTTCGTGTAAGACCTTTTCTGGGGCAGTGGC
1 ATCGATA-TATGATAACATGTAAGACCATATCTGGGACA-TGGC
* *
13672578 ATCGATATGTGATAACATGTAAGACCATATCTGGGATATGGC
1 ATCGATATATGATAACATGTAAGACCATATCTGGGACATGGC
13672620 AT
1 AT
13672622 TGTGCGAGCT
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
42 7 0.10
43 60 0.87
44 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (42 bp):
ATCGATATATGATAACATGTAAGACCATATCTGGGACATGGC
Found at i:13681536 original size:28 final size:28
Alignment explanation
Indices: 13681496--13681557 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
13681486 TAACTTATCT
* *
13681496 CCAAAGTACTGATAT-CGTGGCCCGAAG
1 CCAAATTACTGATATGCATGGCCCGAAG
**
13681523 CCAAATTAGCTGATATGCATGGCTTGAAG
1 CCAAATTA-CTGATATGCATGGCCCGAAG
13681552 CCAAAT
1 CCAAAT
13681558 CGATATAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
CCAAATTACTGATATGCATGGCCCGAAG
Found at i:13683085 original size:19 final size:21
Alignment explanation
Indices: 13683061--13683102 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13683051 TGCAACCAAT
13683061 CACAGG-GGGT-ATGTCGCGA
1 CACAGGAGGGTCATGTCGCGA
*
13683080 CACAGGAGGGTCGTGTCGCGA
1 CACAGGAGGGTCATGTCGCGA
13683101 CA
1 CA
13683103 TCGAGGGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (21 bp):
CACAGGAGGGTCATGTCGCGA
Found at i:13683899 original size:20 final size:20
Alignment explanation
Indices: 13683862--13683899 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13683852 TTTGATATAT
**
13683862 CAAAATTTCTAATGAAATAA
1 CAAAATTTCTAAACAAATAA
13683882 CAAAATTTCTAAACAAAT
1 CAAAATTTCTAAACAAAT
13683900 TTATTAAAAA
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:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
CAAAATTTCTAAACAAATAA
Found at i:13683961 original size:21 final size:20
Alignment explanation
Indices: 13683937--13683980 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13683927 TTTGATTTAA
13683937 AATGGCAACAATAAAATTTCT
1 AATGG-AACAATAAAATTTCT
* * *
13683958 AATGGAATACTAAATTTTCT
1 AATGGAACAATAAAATTTCT
13683978 AAT
1 AAT
13683981 ATCATAGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
AATGGAACAATAAAATTTCT
Found at i:13689419 original size:30 final size:30
Alignment explanation
Indices: 13689383--13689445 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
13689373 ATTTATTTTA
13689383 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
13689413 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13689443 TTG
1 TTG
13689446 ATTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13689597 original size:12 final size:12
Alignment explanation
Indices: 13689568--13689599 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13689558 ATATATTATT
13689568 AAATT-ATATAA
1 AAATTAATATAA
13689579 AAA-TAATATAA
1 AAATTAATATAA
13689590 AAATTAATAT
1 AAATTAATAT
13689600 GGGCGGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 12 0.63
12 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:13692132 original size:49 final size:50
Alignment explanation
Indices: 13692039--13692136 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
13692029 ATGCCGGAAT
* *
13692039 TATTTAAGCAACTAAAGAAAATTCAAAACAATTTAATTAATTAAACTAAG
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
* *
13692089 TATTTAAGCAATTAAGGAAAATT-AAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAA
13692137 ACATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 23 0.52
50 21 0.48
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (50 bp):
TATTTAAGCAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
Found at i:13694137 original size:79 final size:81
Alignment explanation
Indices: 13694036--13694220 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
13694026 GCTACTCGTT
* * *
13694036 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13694099 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
13694116 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
13694180 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
13694196 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13694221 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:13694220 original size:40 final size:40
Alignment explanation
Indices: 13694036--13694220 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
13694026 GCTACTCGTT
* *
13694036 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
13694076 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
13694116 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
13694155 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
13694196 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13694221 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:13709462 original size:40 final size:39
Alignment explanation
Indices: 13709378--13709581 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 39
13709368 TTGAATGATG
* * *
13709378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACT-AAA
* * *
13709418 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
13709458 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13709497 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* ** * *
13709538 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
13709577 TCCGG
1 TCCGG
13709582 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 36 0.26
40 91 0.66
41 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13709514 original size:79 final size:79
Alignment explanation
Indices: 13709378--13709595 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
13709368 TTGAATGATG
* * ** *
13709378 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAACT-ATATCCGGGTTAAG-TCCGAAGGCAA
13709441 TTGTGCGAGATACTA-A
63 TTGTGCGAGATACTATA
* *
13709457 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTTAAGT-CCGAAGGCAAT
*
13709521 TGTGCGAGTTACTATA
64 TGTGCGAGATACTATA
* * ** *
13709537 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAACTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTT-AAGTCCGAAGG
13709596 TACGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 67 0.57
80 50 0.42
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCCGGGTTAAGTCCGAAGGCAATTG
TGCGAGATACTATA
Found at i:13712996 original size:96 final size:92
Alignment explanation
Indices: 13712805--13713114 Score: 303
Period size: 92 Copynumber: 3.3 Consensus size: 92
13712795 ATGCCGATAC
* **
13712805 CATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATCAAGTCGACTTTATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTC-TCACATATCGAGTCGA-TGCATGT-CCAGACATG
** *
13712867 GTCTTACACTGACTATCAAAATCGAGGCTGATG
62 GTCTTACACTGACTA-C-ATCTCGAGGCCGATG
* *
13712900 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGTCGATGCCATGTCCGAGACAT
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCACATATC-GAGTCGATG-CATGTCC-AGACAT
*
13712965 GGTCTTACACTGAC-ACATCTCGAAGCCGATG
61 GGTCTTACACTGACTACATCTCGAGGCCGATG
* *
13712996 CATGTCCCAGACATGTCTTACACTGGCT-T-ACATCTCGAGGTTGATGCATGTCTCAGACAT-GT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCACATATCGA-GTCGATGCATGTC-CAGACATGGT
* *
13713058 CTTACACT-AGCTTACATCTTGAGGCTGATG
64 CTTACACTGA-C-TACATCTCGAGGCCGATG
*
13713088 CATGTCCCAGACATGTCTTATACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
13713115 AACACAAATA
Statistics
Matches: 186, Mismatches: 17, Indels: 26
0.81 0.07 0.11
Matches are distributed among these distances:
89 1 0.01
90 11 0.06
91 13 0.07
92 53 0.28
93 1 0.01
94 13 0.07
95 16 0.09
96 41 0.22
97 1 0.01
98 7 0.04
99 29 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCACATATCGAGTCGATGCATGTCCAGACATGGTCT
TACACTGACTACATCTCGAGGCCGATG
Found at i:13713031 original size:46 final size:46
Alignment explanation
Indices: 13712805--13713114 Score: 256
Period size: 46 Copynumber: 6.6 Consensus size: 46
13712795 ATGCCGATAC
* * *
13712805 CATGTCCCAGACATGGTCTTACACTGGCT-CATCCATC-AAGTCGACTT
1 CATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TCGAGGCCGA-TG
* * ** *
13712852 TATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTA-C-ATCTCGAGGCCGATG
* * * *
13712900 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG-TGTCGATG
1 -CATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCTC-GAGGCCGATG
* * *
13712950 CCATGTCCGAGACATGGTCTTACACTGAC-ACATCTCGAAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAGGCCGATG
**
13712996 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAGGCCGATG
* * * *
13713042 CATGTCTCAGACAT-GTCTTACACTAGCTTACATCTTGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAGGCCGATG
*
13713088 CATGTCCCAGACAT-GTCTTATACTGGC
1 CATGTCCCAGACATGGTCTTACACTGGC
13713115 AACACAAATA
Statistics
Matches: 220, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 92 0.42
47 27 0.12
48 4 0.02
49 30 0.14
50 36 0.16
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAGGCCGATG
Found at i:13716468 original size:50 final size:50
Alignment explanation
Indices: 13716347--13716482 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 50
13716337 TAGGGTATAA
13716347 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAG
* * * * *
13716397 -GCCGACGCCATGTCCCCGACATGGTCTTACACT-AGCTCTCACATATC-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-AAATCAAG
**
13716446 TGCCGATGCCATGTCTTAGACATGGTCTTACACTGAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
13716483 ACATCTCGAG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 37 0.51
50 34 0.47
51 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAG
Found at i:13716533 original size:46 final size:44
Alignment explanation
Indices: 13716465--13716572 Score: 144
Period size: 46 Copynumber: 2.4 Consensus size: 44
13716455 CATGTCTTAG
* *
13716465 ACATGGTCTTACACTGACACATCTCGAGGCCGATACATGTCCCAA
1 ACAT-GTCTTACACTGGCACATCTCGAGGCCGATACATATCCCAA
* *
13716510 ACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATATCCCAG
1 ACATGTCTTACACTGGC--ACATCTCGAGGCCGATACATATCCCAA
*
13716556 GCATGTCTTACACTGGC
1 ACATGTCTTACACTGGC
13716573 CACACAAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
44 12 0.21
45 4 0.07
46 40 0.71
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (44 bp):
ACATGTCTTACACTGGCACATCTCGAGGCCGATACATATCCCAA
Found at i:13720021 original size:27 final size:27
Alignment explanation
Indices: 13719951--13720023 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
13719941 AAAATGATAG
* *
13719951 GAAAGAATAGCCTTCGTGGCGAGTTAT
1 GAAAGAATAACCTTTGTGGCGAGTTAT
* *
13719978 GAAAGAACAACCATTGTGGC-AGATTAT
1 GAAAGAATAACCTTTGTGGCGAG-TTAT
*
13720005 GAAAGAATAATCTTTGTGG
1 GAAAGAATAACCTTTGTGG
13720024 TGATTTCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (27 bp):
GAAAGAATAACCTTTGTGGCGAGTTAT
Found at i:13725313 original size:21 final size:21
Alignment explanation
Indices: 13725289--13725330 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13725279 GTTTTTGGCA
*
13725289 TGTTTCGAGCTGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
*
13725310 TGTTTTGAGCAGGTTTAATTT
1 TGTTTCGAGCAGGTTTAATTT
13725331 CTGGTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.52
Consensus pattern (21 bp):
TGTTTCGAGCAGGTTTAATTT
Found at i:13728418 original size:46 final size:45
Alignment explanation
Indices: 13728368--13728543 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
13728358 TGTTTGGGCA
13728368 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
13728414 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
13728461 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
13728507 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13728544 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:13728523 original size:93 final size:93
Alignment explanation
Indices: 13728364--13728536 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
13728354 AGGATGTTTG
* *
13728364 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13728429 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
13728457 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
13728521 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
13728537 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13731529 original size:15 final size:15
Alignment explanation
Indices: 13731509--13731573 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
13731499 ATATCTTGGG
13731509 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
13731524 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
13731539 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13731554 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13731568 TTTCTT
1 TTTCTT
13731574 GTTATCTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.23
15 31 0.72
16 2 0.05
ACGTcount: A:0.09, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13731539 original size:30 final size:30
Alignment explanation
Indices: 13731505--13731573 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
13731495 TATCATATCT
13731505 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTCTTTATTC
*
13731535 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTTATCTTGGATTTCTTTATTC
*
13731565 -GGTTTTCTT
1 TGGGTTTCTT
13731574 GTTATCTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.59
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:13733315 original size:46 final size:45
Alignment explanation
Indices: 13733265--13733440 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
13733255 TGTTTGGGCA
13733265 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
13733311 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
13733358 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
13733404 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13733441 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:13733420 original size:93 final size:93
Alignment explanation
Indices: 13733261--13733433 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
13733251 AGGATGTTTG
* *
13733261 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
13733326 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
13733354 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13733419 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
13733434 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:13739343 original size:94 final size:94
Alignment explanation
Indices: 13739202--13739389 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 94
13739192 TTGTTTGACA
*
13739202 TAATTTATTGTCAATGTTTGATTGCTACAACAAGAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTGTCAATGTTTGATTGCTACAACAAAAGTACCGCTTACTATTAATATTACTGTCCAA
13739267 AGACTGGATATTAATGTTGTGTTTGCTAT
66 AGACTGGATATTAATGTTGTGTTTGCTAT
*
13739296 TAATTTATTGTCAATGTTTGATTGCTACAATAAAAGTACCGCTTACTATTAATATTACTGTCCAA
1 TAATTTATTGTCAATGTTTGATTGCTACAACAAAAGTACCGCTTACTATTAATATTACTGTCCAA
*
13739361 AGACTTGATATTAATGTTGTGTTTGCTAT
66 AGACTGGATATTAATGTTGTGTTTGCTAT
13739390 CTTGAGATGG
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (94 bp):
TAATTTATTGTCAATGTTTGATTGCTACAACAAAAGTACCGCTTACTATTAATATTACTGTCCAA
AGACTGGATATTAATGTTGTGTTTGCTAT
Found at i:13742701 original size:40 final size:40
Alignment explanation
Indices: 13742656--13743120 Score: 770
Period size: 40 Copynumber: 11.6 Consensus size: 40
13742646 CAAGCTCAAT
* * * * *
13742656 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
13742696 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
13742736 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
13742776 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
13742816 TGCCTTCGGGTCTTATCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
13742856 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
13742896 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
13742936 TGCCTTCGGGTCTTATCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
13742976 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
13743016 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
13743056 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
13743096 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
13743121 CATTCAAATG
Statistics
Matches: 398, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 395 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:13757068 original size:39 final size:39
Alignment explanation
Indices: 13757014--13757093 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
13757004 GTCTGCAAGC
*
13757014 ATTGCCCGTTATTGATTCGAGATATCTGTTTTCCTGCTG
1 ATTGCCCGTTATTGATTCGAGATATCTGTTATCCTGCTG
13757053 ATTGCCCGTTATTGATTCGAGATATCTGTTATCCTGCTG
1 ATTGCCCGTTATTGATTCGAGATATCTGTTATCCTGCTG
13757092 AT
1 AT
13757094 CTGATGCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (39 bp):
ATTGCCCGTTATTGATTCGAGATATCTGTTATCCTGCTG
Found at i:13774325 original size:13 final size:13
Alignment explanation
Indices: 13774307--13774331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13774297 TGTGGGTGAA
13774307 CACGGCCGTGTCG
1 CACGGCCGTGTCG
13774320 CACGGCCGTGTC
1 CACGGCCGTGTC
13774332 TGTCTTCGTT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:13782898 original size:29 final size:30
Alignment explanation
Indices: 13782851--13782918 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
13782841 TGGCCCAAGA
* * * *
13782851 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TAAAAAGTTGAAGGACTAATAGT
13782881 GTAAATATAAAAAGTTGAAGGACTAATAGT
1 GTAAATATAAAAAGTTGAAGGACTAATAGT
*
13782911 GCAAATAT
1 GTAAATAT
13782919 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATAAAAAGTTGAAGGACTAATAGT
Found at i:13783179 original size:29 final size:31
Alignment explanation
Indices: 13783131--13783194 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
13783121 TTTATAGTTA
*
13783131 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
13783162 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
13783191 TTTA
1 TTTA
13783195 TTTAATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:13783183 original size:8 final size:8
Alignment explanation
Indices: 13783172--13783196 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13783162 TTTAATAAGA
13783172 TATTTTAT
1 TATTTTAT
13783180 TATTTTAT
1 TATTTTAT
13783188 TATTTTAT
1 TATTTTAT
13783196 T
1 T
13783197 TAATCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:13783313 original size:12 final size:12
Alignment explanation
Indices: 13783298--13783322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13783288 AGAGAGAAAG
13783298 AAAGAAAGTTTT
1 AAAGAAAGTTTT
13783310 AAAGAAAGTTTT
1 AAAGAAAGTTTT
13783322 A
1 A
13783323 CTTTCTTTAC
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:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
AAAGAAAGTTTT
Found at i:13784443 original size:46 final size:47
Alignment explanation
Indices: 13784329--13784447 Score: 168
Period size: 47 Copynumber: 2.6 Consensus size: 47
13784319 ACGAGACATG
* * *
13784329 AAATGAATAAGACCATGGTTGAAAGATACCACGGCAACATGACGGGG
1 AAATGAATAAGACCATGGTTGAAAGATACCACGGAAACATGACGCGA
* *
13784376 AAATGAATAAGACCATGGTTGAAAGATACCATGGAAACCTGAC-CGA
1 AAATGAATAAGACCATGGTTGAAAGATACCACGGAAACATGACGCGA
* *
13784422 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAATAAGACCATGGTTGAAAGA
13784448 CACTATGGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 25 0.38
47 40 0.62
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (47 bp):
AAATGAATAAGACCATGGTTGAAAGATACCACGGAAACATGACGCGA
Found at i:13786944 original size:29 final size:30
Alignment explanation
Indices: 13786897--13786965 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
13786887 TGGCCCAAGA
* * *
13786897 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
13786927 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
13786957 GCAAATATC
1 GTAAATATC
13786966 TTAAGGGTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:13787223 original size:29 final size:31
Alignment explanation
Indices: 13787175--13787238 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
13787165 TTTATAGTTA
*
13787175 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
13787206 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
13787235 TTTA
1 TTTA
13787239 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:13787227 original size:8 final size:8
Alignment explanation
Indices: 13787216--13787240 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13787206 TTTAATAAGA
13787216 TATTTTAT
1 TATTTTAT
13787224 TATTTTAT
1 TATTTTAT
13787232 TATTTTAT
1 TATTTTAT
13787240 T
1 T
13787241 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:13790377 original size:30 final size:30
Alignment explanation
Indices: 13790343--13790417 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
13790333 CACGGGTAAA
* *
13790343 CCACATGCCCGTGTGAGACACACCGGTAGG
1 CCACACGCCCGTGTGAGACACACCGGCAGG
*
13790373 CCACACGCCCGTGTGAGACACACGGGCAGG
1 CCACACGCCCGTGTGAGACACACCGGCAGG
*
13790403 CCACGCGCCCGTGTG
1 CCACACGCCCGTGTG
13790418 GGATGGTCGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.11
Consensus pattern (30 bp):
CCACACGCCCGTGTGAGACACACCGGCAGG
Found at i:13829286 original size:53 final size:53
Alignment explanation
Indices: 13829208--13829312 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
13829198 ATAAACTACT
* * ** *
13829208 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGAAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAATGGTAAGTTC
* * **
13829261 ATAAGGTAAGGATACCACGTAAGACCATGTTAAGAAATGGAAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAATGGTAAGTT
13829313 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCATGCCAAGAAATGGAAATGGTAAGTTC
Found at i:13833991 original size:48 final size:48
Alignment explanation
Indices: 13833931--13834200 Score: 290
Period size: 48 Copynumber: 5.6 Consensus size: 48
13833921 AAATCCTGTA
* * * * *
13833931 TAAGACCATATCTGAGATATGGAATCAGCATCAATATGAGATCCCTTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
* * * * * *
13833979 AAAGACCGTATCTGGGATATAGCATTGGCATCGAGATGAGATCCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
*
13834027 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAAATCCCATG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
* * *
13834075 TAAGACCATAT-TGGGGATATGGCATTGGCATCCACATGAGATCCCATG
1 TAAGACCATATCT-GGGATATGGCATCGGCATCGATATGAGATCCCATG
* * * * * * * *
13834123 GAAGACCATATCTGGGACATGGCATTGGCATTGATATGAGGTCTCGTA
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
* * *
13834171 TAAGACCATGTCTGAGACATGGCATCGGCA
1 TAAGACCATATCTGGGATATGGCATCGGCA
13834201 ATGTTATGAG
Statistics
Matches: 186, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 184 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCATG
Found at i:13834209 original size:144 final size:144
Alignment explanation
Indices: 13833931--13834200 Score: 353
Period size: 144 Copynumber: 1.9 Consensus size: 144
13833921 AAATCCTGTA
* * *
13833931 TAAGACCATATCTGAGATATGGAATCAGCATCAATATGAGATCCCTTGAAAGACCGTATCTGGGA
1 TAAGACCATATCTGAGATATGGAATCAGCATCAACATGAGATCCCATGAAAGACCATATCTGGGA
* * * *
13833996 TATAGCATTGGCATCGAGATGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA
66 CATAGCATTGGCATCGAGATGAGATCCCGTATAAGACCATATCTGAGACATGGCATCGGCATCGA
13834061 TATGAAATCCCATG
131 TATGAAATCCCATG
* * ** * *
13834075 TAAGACCATAT-TGGGGATATGGCATTGGCATCCACATGAGATCCCATGGAAGACCATATCTGGG
1 TAAGACCATATCT-GAGATATGGAATCAGCATCAACATGAGATCCCATGAAAGACCATATCTGGG
* * * * * *
13834139 ACATGGCATTGGCATTGATATGAGGTCTCGTATAAGACCATGTCTGAGACATGGCATCGGCA
65 ACATAGCATTGGCATCGAGATGAGATCCCGTATAAGACCATATCTGAGACATGGCATCGGCA
13834201 ATGTTATGAG
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
143 1 0.01
144 105 0.99
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (144 bp):
TAAGACCATATCTGAGATATGGAATCAGCATCAACATGAGATCCCATGAAAGACCATATCTGGGA
CATAGCATTGGCATCGAGATGAGATCCCGTATAAGACCATATCTGAGACATGGCATCGGCATCGA
TATGAAATCCCATG
Found at i:13836978 original size:39 final size:39
Alignment explanation
Indices: 13836883--13837261 Score: 561
Period size: 39 Copynumber: 9.6 Consensus size: 39
13836873 TTGAATGATG
*
13836883 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
13836921 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
13836962 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
13837001 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
13837040 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
13837079 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
13837118 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
13837157 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
13837196 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
13837235 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
13837262 AACGAGTAGC
Statistics
Matches: 319, Mismatches: 15, Indels: 11
0.92 0.04 0.03
Matches are distributed among these distances:
39 249 0.78
40 58 0.18
41 11 0.03
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:13847929 original size:40 final size:40
Alignment explanation
Indices: 13847651--13847915 Score: 335
Period size: 40 Copynumber: 6.7 Consensus size: 40
13847641 TTGAATGATG
* * *
13847651 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** *
13847690 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
13847729 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
13847770 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
13847810 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
13847850 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
13847891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
13847916 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 19 0.09
40 175 0.85
41 11 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13847933 original size:80 final size:80
Alignment explanation
Indices: 13847651--13847948 Score: 285
Period size: 80 Copynumber: 3.8 Consensus size: 80
13847641 TTGAATGATG
* **
13847651 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGGGTTAAG-TCCCGAAGGC
13847711 ATTTGTGCGAGA-TAC-AAA
62 ATTTGTGCGA-ATTACTAAA
* * * **
13847729 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCAT
*
13847793 TTGTGCGAGTTACTAAA
64 TTGTGCGAATTACTAAA
* ** *
13847810 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTT
13847875 GTGCGAATTACTATAA
66 GTGCGAATTACTA-AA
* * * *
13847891 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
13847949 TACGTGATTT
Statistics
Matches: 191, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
79 38 0.20
80 144 0.75
81 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAATTACTAAA
Found at i:13847933 original size:120 final size:119
Alignment explanation
Indices: 13847651--13847948 Score: 326
Period size: 120 Copynumber: 2.5 Consensus size: 119
13847641 TTGAATGATG
* *
13847651 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
13847711 ATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
61 ATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACTAAA
* ** * *
13847770 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
13847835 GTGCGAGTTACTAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
65 GTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGA-TACTA-AA
* * *
13847891 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
13847949 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
119 39 0.25
120 104 0.68
121 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:13857625 original size:30 final size:30
Alignment explanation
Indices: 13857584--13857643 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13857574 AGACCGTACT
*
13857584 TAGATAGATTTGTTTTTGTATTTATCGATG
1 TAGACAGATTTGTTTTTGTATTTATCGATG
13857614 TAGACAGATTTGTTTTTGTATTTATCGATG
1 TAGACAGATTTGTTTTTGTATTTATCGATG
13857644 AAATTCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (30 bp):
TAGACAGATTTGTTTTTGTATTTATCGATG
Found at i:13861532 original size:12 final size:12
Alignment explanation
Indices: 13861515--13861540 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13861505 GCCTTGTAGT
13861515 TAAATTGAATTG
1 TAAATTGAATTG
13861527 TAAATTGAATTG
1 TAAATTGAATTG
13861539 TA
1 TA
13861541 GTGTACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (12 bp):
TAAATTGAATTG
Found at i:13875384 original size:28 final size:29
Alignment explanation
Indices: 13875314--13875389 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
13875304 CATTTACCGA
* *
13875314 ATATATGGAAGCCTTTGTGGCTATTATCAT
1 ATATATGGAAGCCTTTGT-GATATTATCAG
* *
13875344 ATATATGGAAGCCTTTGT-ATGTTCTCAG
1 ATATATGGAAGCCTTTGTGATATTATCAG
13875372 ATATATGGAAGCCTTTGT
1 ATATATGGAAGCCTTTGT
13875390 TTCTATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 24 0.57
30 18 0.43
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (29 bp):
ATATATGGAAGCCTTTGTGATATTATCAG
Found at i:13875605 original size:29 final size:29
Alignment explanation
Indices: 13875527--13875595 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
13875517 AAAGTGGATG
* * *
13875527 CCTTGCTGGATAATTTTGTCATATGAGAGC
1 CCTTG-TGGCTAACTTTGTTATATGAGAGC
13875557 CCTTGTGGCTAACTTTGTTATATGAGAGC
1 CCTTGTGGCTAACTTTGTTATATGAGAGC
*
13875586 CTTTGTGGCT
1 CCTTGTGGCT
13875596 GGTTCTGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 30 0.86
30 5 0.14
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (29 bp):
CCTTGTGGCTAACTTTGTTATATGAGAGC
Found at i:13876616 original size:27 final size:27
Alignment explanation
Indices: 13876585--13876642 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
13876575 ACAATCATAC
* *
13876585 ATCACATAGGGGCATAACAGTTATTTT
1 ATCACACAGGGGCATAACAGTCATTTT
13876612 ATCACACAGGGGCATAACAGTCATTTT
1 ATCACACAGGGGCATAACAGTCATTTT
13876639 ATCA
1 ATCA
13876643 ATTAGAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
ATCACACAGGGGCATAACAGTCATTTT
Found at i:13881677 original size:47 final size:47
Alignment explanation
Indices: 13881558--13881824 Score: 151
Period size: 46 Copynumber: 5.7 Consensus size: 47
13881548 ATTTGTGTGT
* ** *** *
13881558 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGAAACCTTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-ACTCGAGACGA
** *
13881604 GAGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCGTTGAGACGA
1 GAGCTAGTGTAAGACCATGTC-TGGGACATGGCATCAAC-TCGAGACGA
* *
13881652 GAGCTAGTGTAAGA-CATGTCTGGGACAT-ACATCAACCTCAAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAA-CTCGAGACG-A
* * * * *
13881699 -AGCCAGTGTAAGA-GAT-ACTGGGGACAT-GCATCAGCTACGAGATGA
1 GAGCTAGTGTAAGACCATGTCT-GGGACATGGCATCAACT-CGAGACGA
* * * * *
13881744 TAG-TCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGA
* * *
13881790 TGAGCCATTGTAAGACCATGTCTAGGACATGGCAT
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
13881825 TGATACCTTA
Statistics
Matches: 171, Mismatches: 34, Indels: 31
0.72 0.14 0.13
Matches are distributed among these distances:
45 5 0.03
46 67 0.39
47 67 0.39
48 32 0.19
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGAGACGA
Found at i:13884826 original size:37 final size:37
Alignment explanation
Indices: 13884528--13884820 Score: 505
Period size: 37 Copynumber: 7.9 Consensus size: 37
13884518 GAAATATATT
* *
13884528 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
* *
13884565 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
13884602 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
13884639 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
13884676 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
13884713 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
*
13884750 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
* * * *
13884787 CTGGGTAAGACCCGCTAACTTCGTGTGGAGATTT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTT
13884821 CGTCTGAGCT
Statistics
Matches: 249, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 249 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTGC
Found at i:13885065 original size:150 final size:150
Alignment explanation
Indices: 13884794--13885094 Score: 566
Period size: 150 Copynumber: 2.0 Consensus size: 150
13884784 TGTCTGGGTA
* *
13884794 AGACCCGCTAACTTCGTGTGGAGATTTCGTCTGAGCTAAAGGTCTCACCGATAATCCGAGTAGAG
1 AGACCCGATAACTTCGTGTAGAGATTTCGTCTGAGCTAAAGGTCTCACCGATAATCCGAGTAGAG
13884859 GTTAAAGCTATAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAAGGGTTAAACA
66 GTTAAAGCTATAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAAGGGTTAAACA
13884924 GGAATGTACTCCAAGTTTAT
131 GGAATGTACTCCAAGTTTAT
*
13884944 AGACCCGATAACTTCGTGTAGAGATTTCGTCTGAGCTAAAGGTCTCGCCGATAATCCGAGTAGAG
1 AGACCCGATAACTTCGTGTAGAGATTTCGTCTGAGCTAAAGGTCTCACCGATAATCCGAGTAGAG
13885009 GTTAAAGCTATAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAAGGGTTAAACA
66 GTTAAAGCTATAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAAGGGTTAAACA
*
13885074 GGTATGTACTCCAAGTTTAT
131 GGAATGTACTCCAAGTTTAT
13885094 A
1 A
13885095 TGTGAGCTTG
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (150 bp):
AGACCCGATAACTTCGTGTAGAGATTTCGTCTGAGCTAAAGGTCTCACCGATAATCCGAGTAGAG
GTTAAAGCTATAAGACTTCGTAATAAGAATTGCTTATAAATATATTCAATGCGAAGGGTTAAACA
GGAATGTACTCCAAGTTTAT
Found at i:13886400 original size:40 final size:40
Alignment explanation
Indices: 13886239--13886390 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
13886229 GAGAATTGAG
*
13886239 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
13886279 AGTAATT-TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGT-GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * ** *
13886319 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
13886359 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGTTATATCCGGGCTAAGTCCCGAAGAGCA
13886391 ATCATGCTGG
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 91 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:13888330 original size:47 final size:47
Alignment explanation
Indices: 13888288--13889278 Score: 1758
Period size: 47 Copynumber: 21.3 Consensus size: 47
13888278 TATACACTTC
* * *
13888288 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
13888335 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888382 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888429 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888476 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888523 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888570 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888617 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888664 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888711 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888758 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888805 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888852 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888899 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888946 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13888993 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13889040 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
13889087 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
* *
13889134 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
* *
13889181 CACATTCATCACATCGGCCATTAGG-C----CT--TATA--C-T-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
* * * *
13889217 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTT
13889264 CACATTCATCACATT
1 CACATTCATCACATT
13889279 CCAATGAATA
Statistics
Matches: 921, Mismatches: 10, Indels: 26
0.96 0.01 0.03
Matches are distributed among these distances:
36 28 0.03
37 1 0.00
38 1 0.00
40 4 0.00
41 1 0.00
42 1 0.00
43 4 0.00
45 1 0.00
46 2 0.00
47 877 0.95
48 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
Found at i:13889223 original size:36 final size:36
Alignment explanation
Indices: 13889176--13889247 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13889166 ACATATATAC
13889176 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
13889212 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
13889248 CACATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (36 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:13890728 original size:56 final size:56
Alignment explanation
Indices: 13890659--13890778 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
13890649 TATTAGTTTA
13890659 TTGCCCATACTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATACTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
13890715 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATACTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
13890771 TTGCCCAT
1 TTGCCCAT
13890779 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATACTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:13894190 original size:47 final size:47
Alignment explanation
Indices: 13894136--13894328 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
13894126 TTAGGATTTT
* * *
13894136 ATGTGATGAATGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
13894183 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
13894230 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
13894277 ATGTGATGAATATGAGATATGC--ATACGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
13894323 ATGTGA
1 ATGTGA
13894329 AATATATATA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 25 0.19
47 103 0.78
48 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:13894236 original size:22 final size:22
Alignment explanation
Indices: 13894165--13894283 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
13894155 GTATATATGA
13894165 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
13894187 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
13894212 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
13894234 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
13894259 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
13894281 GAT
1 GAT
13894284 GAATATGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:13894357 original size:50 final size:50
Alignment explanation
Indices: 13894286--13894382 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
13894276 AATGTGATGA
13894286 ATATGAGATATGCATACGTGGTAAAGCCGAATGG-TCAATGTGAAATATAT
1 ATATGAGATATGCATACGTGGTAAAGCCGAATGGCT-AATGTGAAATATAT
* * *
13894336 ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATATGAGATATGCATACGTGGTAAAGCCGAATGGCTAATGTGAAATA
13894383 CGTAGGCGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (50 bp):
ATATGAGATATGCATACGTGGTAAAGCCGAATGGCTAATGTGAAATATAT
Found at i:13894583 original size:37 final size:37
Alignment explanation
Indices: 13894533--13894641 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
13894523 GGAAATATAT
13894533 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
13894570 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
13894607 TCTGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
13894642 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:13894647 original size:37 final size:37
Alignment explanation
Indices: 13894538--13894654 Score: 171
Period size: 37 Copynumber: 3.1 Consensus size: 37
13894528 TATATTCCGG
* *
13894538 GTAAGACCCGATGACTACGTGTGGAGATTTTGTCCGG
1 GTAAGACCCGATGACTACGTGTGGAGATTTTGTCTGA
*
13894575 GTGAGACCCGATGACTACGTGTGGAGATTTTGTCTGA
1 GTAAGACCCGATGACTACGTGTGGAGATTTTGTCTGA
* * *
13894612 GTAAGACCCGATAACTTCGTGTGGAGATTTCGTCTGA
1 GTAAGACCCGATGACTACGTGTGGAGATTTTGTCTGA
13894649 GCTAAG
1 G-TAAG
13894655 GGTCTCGCCG
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 68 0.94
38 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
GTAAGACCCGATGACTACGTGTGGAGATTTTGTCTGA
Found at i:13899020 original size:14 final size:14
Alignment explanation
Indices: 13898974--13899020 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
13898964 ACAGAAATAT
13898974 TTAATTTTATATACTG
1 TTAATTTT-T-TACTG
* *
13898990 -TAATTTTTTTCTT
1 TTAATTTTTTACTG
13899003 TTAATTTTTTACTG
1 TTAATTTTTTACTG
13899017 TTAA
1 TTAA
13899021 ATCGTTCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.12
14 16 0.62
15 7 0.27
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (14 bp):
TTAATTTTTTACTG
Found at i:13902511 original size:44 final size:44
Alignment explanation
Indices: 13902446--13902533 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
13902436 ATAAAAAGAA
*
13902446 AGAACCCAAAGCTAGGATTCAGCCAATTTGGAGCTTAATTAAGG
1 AGAACACAAAGCTAGGATTCAGCCAATTTGGAGCTTAATTAAGG
*
13902490 AGAACACAAAGCTAGGGTTCAGCCAATTTGGAGCTTAATTAAGG
1 AGAACACAAAGCTAGGATTCAGCCAATTTGGAGCTTAATTAAGG
13902534 TATGAGTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (44 bp):
AGAACACAAAGCTAGGATTCAGCCAATTTGGAGCTTAATTAAGG
Found at i:13909077 original size:6 final size:6
Alignment explanation
Indices: 13909066--13909104 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
13909056 AGGCTTCCAA
* * *
13909066 AAATGG AAATGG AAATAG AAATAG AAATAG AAATGG AAA
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAATAG AAA
13909105 CTTACAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAATAG
Found at i:13909086 original size:12 final size:12
Alignment explanation
Indices: 13909066--13909104 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
13909056 AGGCTTCCAA
*
13909066 AAATGGAAATGG
1 AAATAGAAATGG
*
13909078 AAATAGAAATAG
1 AAATAGAAATGG
13909090 AAATAGAAATGG
1 AAATAGAAATGG
13909102 AAA
1 AAA
13909105 CTTACAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AAATAGAAATGG
Found at i:13912358 original size:22 final size:23
Alignment explanation
Indices: 13912333--13912378 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13912323 CAACCAAATC
13912333 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
13912355 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13912378 A
1 A
13912379 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13912384 original size:23 final size:24
Alignment explanation
Indices: 13912339--13912391 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
13912329 AATCAATTCA
*
13912339 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTTCAAGATAAAGTCATC
*
13912362 ACATATTTAT-AAGATAACGTCATC
1 ACATATTT-TCAAGATAAAGTCATC
13912386 ACATAT
1 ACATAT
13912392 CTAAAACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (24 bp):
ACATATTTTCAAGATAAAGTCATC
Found at i:13915711 original size:27 final size:28
Alignment explanation
Indices: 13915627--13915724 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
13915617 CATGAGATTG
* * * *
13915627 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
13915656 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13915684 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13915711 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13915725 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13915735 original size:27 final size:27
Alignment explanation
Indices: 13915655--13915737 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
13915645 TAAATTGTAC
* *
13915655 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
13915683 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
13915710 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
13915737 A
1 A
13915738 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:13922155 original size:22 final size:23
Alignment explanation
Indices: 13922130--13922175 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13922120 CAACCAAATC
13922130 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
13922152 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13922175 A
1 A
13922176 CGTCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13922181 original size:23 final size:24
Alignment explanation
Indices: 13922136--13922188 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
13922126 AATCAATTCA
*
13922136 ACATATTTTCAAGATAAATTCAT-
1 ACATATTTTCAAGATAAAGTCATC
*
13922159 ACATATTTAT-AAGATAACGTCATC
1 ACATATTT-TCAAGATAAAGTCATC
13922183 ACATAT
1 ACATAT
13922189 CTAAAACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (24 bp):
ACATATTTTCAAGATAAAGTCATC
Found at i:13928946 original size:17 final size:17
Alignment explanation
Indices: 13928924--13928964 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
13928914 ATATAACTTT
13928924 TGCATGTTAATGAGCAA
1 TGCATGTTAATGAGCAA
13928941 TGCATGTTAATGAGCAA
1 TGCATGTTAATGAGCAA
13928958 TGCATGT
1 TGCATGT
13928965 GTTAAATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (17 bp):
TGCATGTTAATGAGCAA
Found at i:13934261 original size:40 final size:40
Alignment explanation
Indices: 13934178--13934320 Score: 205
Period size: 41 Copynumber: 3.5 Consensus size: 40
13934168 TTTGGACAAA
*
13934178 GGCGTGTCATAGCCGTGTGAGGGACATGGGACATAGACACG
1 GGCGTGTCATAGCCGTGTGAGGGACA-CGGACATAGACACG
* * *
13934219 GGCGTGTCATGGTCGTGTGAGGAACACGGACATAGACACG
1 GGCGTGTCATAGCCGTGTGAGGGACACGGACATAGACACG
13934259 GGCGTGTCATAGCCGTGTGAGGGACACGGGACATAGACACG
1 GGCGTGTCATAGCCGTGTGAGGGACAC-GGACATAGACACG
**
13934300 GGCGTGTTTTAGGCCGTGTGA
1 GGCGTGTCATA-GCCGTGTGA
13934321 AAACCCCTGT
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 37 0.41
41 45 0.49
42 9 0.10
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.19
Consensus pattern (40 bp):
GGCGTGTCATAGCCGTGTGAGGGACACGGACATAGACACG
Found at i:13965290 original size:18 final size:18
Alignment explanation
Indices: 13965267--13965303 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13965257 ATATATATTG
13965267 ACCCAATTACCCAACCCA
1 ACCCAATTACCCAACCCA
*
13965285 ACCCAATTACTCAACCCA
1 ACCCAATTACCCAACCCA
13965303 A
1 A
13965304 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.14
Consensus pattern (18 bp):
ACCCAATTACCCAACCCA
Found at i:13965340 original size:6 final size:6
Alignment explanation
Indices: 13965329--13965393 Score: 94
Period size: 6 Copynumber: 10.5 Consensus size: 6
13965319 ATAATTTAAT
* *
13965329 AAATAA AAATAA AAATAA AAATAA AAATAA AAATCTAA AACTAA AACTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA
13965379 AAATAA AAATAA AAA
1 AAATAA AAATAA AAA
13965394 AACATATAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
6 50 0.91
8 5 0.09
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:13965374 original size:32 final size:32
Alignment explanation
Indices: 13965332--13965393 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
13965322 ATTTAATAAA
13965332 TAAAAATAAAAATAAAAATAAAAATAAAAATC
1 TAAAAATAAAAATAAAAATAAAAATAAAAATC
* *
13965364 TAAAACTAAAACTAAAAATAAAAATAAAAA
1 TAAAAATAAAAATAAAAATAAAAATAAAAA
13965394 AACATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (32 bp):
TAAAAATAAAAATAAAAATAAAAATAAAAATC
Found at i:13965402 original size:18 final size:18
Alignment explanation
Indices: 13965329--13965402 Score: 64
Period size: 18 Copynumber: 4.0 Consensus size: 18
13965319 ATAATTTAAT
13965329 AAATAAAAATAAAA-ATAA
1 AAAT-AAAATAAAATATAA
*
13965347 AAATAAAAATAAAAATCTAA
1 AAAT-AAAAT-AAAATATAA
*
13965367 AACTAAAACTAAAA-ATAA
1 AAATAAAA-TAAAATATAA
13965385 AAATAAAA-AAACATATAA
1 AAATAAAATAAA-ATATAA
13965403 TTTTATACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
16 3 0.06
17 1 0.02
18 24 0.51
19 12 0.26
20 7 0.15
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAAAATAAAATATAA
Found at i:13965432 original size:9 final size:9
Alignment explanation
Indices: 13965414--13965463 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
13965404 TTTATACAAA
*
13965414 TAATTTGGT
1 TAATTCGGT
13965423 TAATTCGGT
1 TAATTCGGT
*
13965432 TAATTCGAT
1 TAATTCGGT
13965441 TAATTCGGT
1 TAATTCGGT
13965450 TAATTCGGT
1 TAATTCGGT
13965459 TAATT
1 TAATT
13965464 TTATATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (9 bp):
TAATTCGGT
Found at i:13967771 original size:16 final size:16
Alignment explanation
Indices: 13967750--13967786 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
13967740 GGAATAAGAT
13967750 TGATTAATTGTAATCA
1 TGATTAATTGTAATCA
13967766 TGATTAATTGTAATCA
1 TGATTAATTGTAATCA
13967782 TGATT
1 TGATT
13967787 GAATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (16 bp):
TGATTAATTGTAATCA
Found at i:13973520 original size:32 final size:33
Alignment explanation
Indices: 13973484--13973556 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 33
13973474 CAAGAGATCA
13973484 CAAT-AGATTTCTATCCTTAATTATAGGGATTC
1 CAATCAGATTTCTATCCTTAATTATAGGGATTC
13973516 CAATACCATCAGATTTCTATCCTTAATTATAGGGATTC
1 C---A--ATCAGATTTCTATCCTTAATTATAGGGATTC
13973554 CAA
1 CAA
13973557 CACTCCCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
32 1 0.03
33 1 0.03
35 2 0.06
37 2 0.06
38 29 0.83
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (33 bp):
CAATCAGATTTCTATCCTTAATTATAGGGATTC
Found at i:13985258 original size:41 final size:42
Alignment explanation
Indices: 13985164--13985320 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
13985154 AGCTCATACA
* * *
13985164 ATGCC-ATATCCCAGATATGGTCTTACATGTTA-TCATATATCG
1 ATGCCAATGTCCCAGAAATGGTCTTACACG--AGTCATATATCG
* *
13985206 ATGCCACTGTCCCGGACAA-GGTCTTACACGAGTCATATA-CG
1 ATGCCAATGTCCCAGA-AATGGTCTTACACGAGTCATATATCG
** *
13985247 ATGCCAATGTCCCAGAAATGGTCTTACAC-A-TTTTATCACTTTG
1 ATGCCAATGTCCCAGAAATGGTCTTACACGAGTCATAT-A--TCG
**
13985290 ATGCCAATGTCCCAGACTTGGTCTTACACGA
1 ATGCCAATGTCCCAGAAATGGTCTTACACGA
13985321 ATTCACACAT
Statistics
Matches: 94, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
39 4 0.04
40 4 0.04
41 27 0.29
42 12 0.13
43 45 0.48
44 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAAATGGTCTTACACGAGTCATATATCG
Found at i:13985313 original size:84 final size:83
Alignment explanation
Indices: 13985159--13985320 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 83
13985149 CAAATAGCTC
* * *
13985159 ATACAATGCCATATCCCAGATATGGTCTTACATGTTATCATATATCGATGCCACTGTCCCGGACA
1 ATACAATGCCATATCCCAGAAATGGTCTTACATGTTATCATATATCGATGCCAATGTCCCAGACA
13985224 AGGTCTTACACGAGTCAT
66 AGGTCTTACACGAGTCAT
* * *
13985242 ATACGATGCCAATGTCCCAGAAATGGTCTTACACATTTTATCACT-T-T-GATGCCAATGTCCCA
1 ATACAATGCC-ATATCCCAGAAATGGTCTT--ACATGTTATCA-TATATCGATGCCAATGTCCCA
**
13985304 GACTTGGTCTTACACGA
62 GACAAGGTCTTACACGA
13985321 ATTCACACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
83 9 0.13
84 45 0.67
85 1 0.01
86 11 0.16
87 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (83 bp):
ATACAATGCCATATCCCAGAAATGGTCTTACATGTTATCATATATCGATGCCAATGTCCCAGACA
AGGTCTTACACGAGTCAT
Found at i:13990506 original size:45 final size:45
Alignment explanation
Indices: 13990437--13990523 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
13990427 CCAAAACATG
* *
13990437 TGTCGCATATATCACGAACTCAGACTACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* *
13990482 TGTCACATATATCATGAACTCAGACCACAACTCAATGGGTTC
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
13990524 AGATTACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:14000024 original size:16 final size:18
Alignment explanation
Indices: 13999998--14000030 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13999988 TTAATTTATA
13999998 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
14000015 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
14000031 CCCAATTCCA
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:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:14002938 original size:13 final size:13
Alignment explanation
Indices: 14002919--14002950 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
14002909 AGTGTCATGC
14002919 CAAAAATCCAAAA
1 CAAAAATCCAAAA
*
14002932 TAAAAATCCAAAA
1 CAAAAATCCAAAA
14002945 CAAAAA
1 CAAAAA
14002951 CAGCCCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (13 bp):
CAAAAATCCAAAA
Found at i:14007414 original size:20 final size:19
Alignment explanation
Indices: 14007391--14007436 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
14007381 AAGAAGAGGA
*
14007391 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
14007411 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
14007430 GGGAGAG
1 GGGAGAG
14007437 CTAAAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Done.