Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 70 of 74
Found at i:13714299 original size:15 final size:15
Alignment explanation
Indices: 13714279--13714331 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
13714269 CAAGGGAGAG
13714279 AAAAAAAGATTATGC
1 AAAAAAAGATTATGC
*
13714294 AAAAAAA-ACTCT-TGAT
1 AAAAAAAGA-T-TATG-C
13714310 AAAAAAAGATTATGC
1 AAAAAAAGATTATGC
13714325 AAAAAAA
1 AAAAAAA
13714332 ATCTTTAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
16 11 0.35
17 1 0.03
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (15 bp):
AAAAAAAGATTATGC
Found at i:13714300 original size:16 final size:16
Alignment explanation
Indices: 13714279--13714332 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
13714269 CAAGGGAGAG
13714279 AAAAAAAGATTATGCA
1 AAAAAAAGATTATGCA
*
13714295 AAAAAAA-CTCT-TG-A
1 AAAAAAAGAT-TATGCA
13714309 TAAAAAAAGATTATGCA
1 -AAAAAAAGATTATGCA
13714326 AAAAAAA
1 AAAAAAA
13714333 TCTTTAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 1 0.03
15 11 0.35
16 18 0.58
17 1 0.03
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.19
Consensus pattern (16 bp):
AAAAAAAGATTATGCA
Found at i:13714317 original size:31 final size:30
Alignment explanation
Indices: 13714276--13714346 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 30
13714266 AAGCAAGGGA
13714276 GAGAAAAAAAGATTATGCAAAAAAAACTCTT
1 GAGAAAAAAAGATTATGCAAAAAAAA-TCTT
*
13714307 GATAAAAAAAGATTATGCAAAAAAAATCTT
1 GAGAAAAAAAGATTATGCAAAAAAAATCTT
*
13714337 TAGAAAAAAA
1 GAGAAAAAAA
13714347 AATTGTGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.20
Consensus pattern (30 bp):
GAGAAAAAAAGATTATGCAAAAAAAATCTT
Found at i:13714996 original size:11 final size:12
Alignment explanation
Indices: 13714980--13715011 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
13714970 TAAAGTTTTC
13714980 AAAATAATT-AA
1 AAAATAATTAAA
13714991 AAAATAATTAAA
1 AAAATAATTAAA
13715003 AAAATAATT
1 AAAATAATT
13715012 TCAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATAATTAAA
Found at i:13716092 original size:28 final size:28
Alignment explanation
Indices: 13716060--13716121 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
13716050 TTTTAATTTT
13716060 TATTATATAACAT-TAATAAATAAATAAA
1 TATTAT-TAACATATAATAAATAAATAAA
** *
13716088 TATTATTATTATATAATAAATTAATAAA
1 TATTATTAACATATAATAAATAAATAAA
13716116 T-TTATT
1 TATTATT
13716122 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TATTATTAACATATAATAAATAAATAAA
Found at i:13720441 original size:13 final size:13
Alignment explanation
Indices: 13720423--13720452 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13720413 TGGCAAGCAG
*
13720423 ATATATATATTAT
1 ATATATATATAAT
13720436 ATATATATATAAT
1 ATATATATATAAT
13720449 ATAT
1 ATAT
13720453 TAATATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:13720458 original size:15 final size:15
Alignment explanation
Indices: 13720423--13720452 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13720413 TGGCAAGCAG
*
13720423 ATATATATATTATAT
1 ATATATATAATATAT
13720438 ATATATATAATATAT
1 ATATATATAATATAT
13720453 TAATATGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATAATATAT
Found at i:13720654 original size:2 final size:2
Alignment explanation
Indices: 13720647--13720674 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13720637 GATCCTGTTT
13720647 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
13720675 AAATAAAGAT
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):
TA
Found at i:13723596 original size:2 final size:2
Alignment explanation
Indices: 13723583--13723617 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
13723573 GCACGTACAC
* *
13723583 AT AT AC AT AT AT AT AT GT 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 A
13723618 ATCATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13724069 original size:2 final size:2
Alignment explanation
Indices: 13724064--13724090 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13724054 ATATATTGTA
13724064 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13724091 GGATTATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13724560 original size:17 final size:17
Alignment explanation
Indices: 13724534--13724566 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13724524 TACTTTGATC
*
13724534 ATTAAGATGATCTTATT
1 ATTAAAATGATCTTATT
13724551 ATTAAAATGATCTTAT
1 ATTAAAATGATCTTAT
13724567 CATTCGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTAAAATGATCTTATT
Found at i:13725866 original size:32 final size:32
Alignment explanation
Indices: 13725823--13725949 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 32
13725813 TGATTTTTTG
*
13725823 TTATTAGATAATAAATTAATAAATAAAATTTA
1 TTATTATATAATAAATTAATAAATAAAATTTA
* * ** *
13725855 TTATTATATAATAAATAAATAACTTCTATTTTA
1 TTATTATATAATAAATTAATAA-ATAAAATTTA
* *
13725888 TT-TTTTATTGTATAACATTAATAAATAAATAAATTTTA
1 TTATTATA-T-AATAA-ATTAATAAAT--A-AAA-TTTA
*
13725926 ATATTATATAATAAATTAATAAAT
1 TTATTATATAATAAATTAATAAAT
13725950 TATTTTATTT
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
32 24 0.34
33 9 0.13
34 5 0.07
35 7 0.10
36 10 0.14
37 5 0.07
38 6 0.09
39 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (32 bp):
TTATTATATAATAAATTAATAAATAAAATTTA
Found at i:13725951 original size:20 final size:20
Alignment explanation
Indices: 13725915--13725952 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13725905 TTAATAAATA
*
13725915 AATAAATTTTAATATTATAT
1 AATAAATTATAATATTATAT
13725935 AATAAATTAATAA-ATTAT
1 AATAAATT-ATAATATTAT
13725953 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAAATTATAATATTATAT
Found at i:13728603 original size:26 final size:26
Alignment explanation
Indices: 13728557--13728608 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
13728547 TTATTTATTA
13728557 TTTAAAAAAAAAAGACCAAAA-AAAAT
1 TTTAAAAAAAAAAGA-CAAAATAAAAT
13728583 TTTAAGAAAAAAGAAGA-AAAATAAAA
1 TTTAA-AAAAAA-AAGACAAAATAAAA
13728609 AAGGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 9 0.39
27 10 0.43
28 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (26 bp):
TTTAAAAAAAAAAGACAAAATAAAAT
Found at i:13728797 original size:39 final size:36
Alignment explanation
Indices: 13728752--13728825 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 36
13728742 ATTATATAAT
* *
13728752 AAATAAAATTTATTTTTTTATTATATAACATTAATAAAC
1 AAATAAAATTTATTATTATA-TA-ATAA-ATTAATAAAC
*
13728791 AAATAAATTTTATTATTATATAATAAATTAATAAA
1 AAATAAAATTTATTATTATATAATAAATTAATAAA
13728826 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.28
37 4 0.12
38 2 0.06
39 17 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (36 bp):
AAATAAAATTTATTATTATATAATAAATTAATAAAC
Found at i:13728833 original size:32 final size:32
Alignment explanation
Indices: 13728702--13728840 Score: 124
Period size: 32 Copynumber: 4.4 Consensus size: 32
13728692 TTTTCTTTTG
* * *
13728702 ATTTTTTTATTAGATAATAAATTAATGAATAA
1 ATTTTATTATTATATAATAAATTAATAAATAA
* * **
13728734 AATCTATTATTATATAATAAA-T-A-AAATTT
1 ATTTTATTATTATATAATAAATTAATAAATAA
* * * *
13728763 ATTTTTTTATTATATAACATTAATAAACAAATAA
1 ATTTTATTATTATAT-A-ATAAATTAATAAATAA
*
13728797 ATTTTATTATTATATAATAAATTAATAAATAT
1 ATTTTATTATTATATAATAAATTAATAAATAA
13728829 ATTTTATT-TTAT
1 ATTTTATTATTAT
13728841 TTTTTGTTAT
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
29 15 0.18
30 2 0.02
31 9 0.11
32 37 0.45
33 2 0.02
34 18 0.22
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (32 bp):
ATTTTATTATTATATAATAAATTAATAAATAA
Found at i:13728987 original size:15 final size:15
Alignment explanation
Indices: 13728950--13728994 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13728940 TACTGTTACA
* *
13728950 ATAATTAATTTTATT
1 ATAATTAATTTCATC
**
13728965 ATTTTTAATTTCATC
1 ATAATTAATTTCATC
13728980 ATAATTAATTTCATC
1 ATAATTAATTTCATC
13728995 GTTCGTCGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTAATTTCATC
Found at i:13731598 original size:26 final size:26
Alignment explanation
Indices: 13731560--13731609 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
13731550 AGATTTTGAT
13731560 TTAAATTTAAATAA-TTATCTAAAATA
1 TTAAATTTAAATAATTTAT-TAAAATA
*
13731586 TTAAATTTGAATAATTTATTAAAA
1 TTAAATTTAAATAATTTATTAAAA
13731610 AATTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAAATTTAAATAATTTATTAAAATA
Found at i:13731727 original size:2 final size:2
Alignment explanation
Indices: 13731722--13731746 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13731712 ATATATTGTA
13731722 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 A
13731747 AAAGATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13732545 original size:20 final size:19
Alignment explanation
Indices: 13732522--13732569 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13732512 TTTGAATTAA
*
13732522 AAAAATAAAACTAATATATT
1 AAAAATAAAA-GAATATATT
* *
13732542 AAAATTAAAAGATTATATT
1 AAAAATAAAAGAATATATT
*
13732561 ATAAATAAA
1 AAAAATAAA
13732570 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAATAAAAGAATATATT
Found at i:13733307 original size:23 final size:23
Alignment explanation
Indices: 13733262--13733316 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
13733252 TCAATTTTCT
* *
13733262 TTAATTTGTTTTATGCCTTTTGTC
1 TTAATTT-TTTTATGCCTCTTGTA
* *
13733286 TTAATTTTTTTCTTCCTCTTGTA
1 TTAATTTTTTTATGCCTCTTGTA
*
13733309 TTTATTTT
1 TTAATTTT
13733317 ACCTATTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (23 bp):
TTAATTTTTTTATGCCTCTTGTA
Found at i:13733380 original size:16 final size:16
Alignment explanation
Indices: 13733355--13733385 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13733345 TTAATTTTTC
*
13733355 AAAAATAAAAAAATAG
1 AAAAACAAAAAAATAG
13733371 AAAAACAAAAAAATA
1 AAAAACAAAAAAATA
13733386 TTTAAGAAAA
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:0.84, C:0.03, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAACAAAAAAATAG
Found at i:13741366 original size:20 final size:21
Alignment explanation
Indices: 13741321--13741366 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13741311 AGAGCATACC
* *
13741321 AAAATTGAGGAAGAACATGCT
1 AAAATGGAGCAAGAACATGCT
*
13741342 AAAATGGAGCAAGAGCATG-T
1 AAAATGGAGCAAGAACATGCT
13741362 AAAAT
1 AAAAT
13741367 TTTAATAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (21 bp):
AAAATGGAGCAAGAACATGCT
Found at i:13742005 original size:73 final size:72
Alignment explanation
Indices: 13741917--13742052 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 72
13741907 GCTCTTACTA
* * * *** * * *
13741917 AAAAATGTATTAAATTAATGATATTTTTTTGATATAAATGCTACTAAAGTAATGACGTTTTTTTT
1 AAAAATGTACTAAATTAATGACATCTTAAAGATACAAATGCTACTAAAATAATAACGTTTTTTTT
13741982 TTTATAT
66 TTTATAT
* *
13741989 AAAAATGTCACTAAATTAGTGACATCTTAAAGATACAAATGCTGCTAAAATAATAACGTTTTTT
1 AAAAATGT-ACTAAATTAATGACATCTTAAAGATACAAATGCTACTAAAATAATAACGTTTTTT
13742053 AGATACAAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
72 8 0.15
73 44 0.85
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (72 bp):
AAAAATGTACTAAATTAATGACATCTTAAAGATACAAATGCTACTAAAATAATAACGTTTTTTTT
TTTATAT
Found at i:13742086 original size:34 final size:33
Alignment explanation
Indices: 13742041--13742143 Score: 93
Period size: 34 Copynumber: 3.1 Consensus size: 33
13742031 TGCTAAAATA
* *
13742041 ATAAC-GT-TTTTTAGATACAAACGTTACTAAT
1 ATAACGGTATTTTTAGATACAAACATCACTAAT
* *
13742072 ATAACGGTACTTTTTAGATTCAAACATCGCTAAT
1 ATAACGGTA-TTTTTAGATACAAACATCACTAAT
* * * * *
13742106 ATAATGGTATTTTTCATATACAAATACCATTAAT
1 ATAACGGTATTTTT-AGATACAAACATCACTAAT
13742140 ATAA
1 ATAA
13742144 TAATGTTTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
31 5 0.09
32 2 0.04
33 5 0.09
34 45 0.79
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (33 bp):
ATAACGGTATTTTTAGATACAAACATCACTAAT
Found at i:13744280 original size:17 final size:17
Alignment explanation
Indices: 13744242--13744298 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
13744232 TTATTTTAAA
*
13744242 TATTATC-ATAATAATAT
1 TATTATCTA-AATAATTT
*
13744259 AATTATCTAAATAATTT
1 TATTATCTAAATAATTT
*
13744276 TATTAT-TAAAATGATTT
1 TATTATCT-AAATAATTT
13744293 TATTAT
1 TATTAT
13744299 TCGTGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 32 0.94
18 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTATCTAAATAATTT
Found at i:13744299 original size:17 final size:17
Alignment explanation
Indices: 13744267--13744299 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13744257 ATAATTATCT
13744267 AAATAATTTTATTATTA
1 AAATAATTTTATTATTA
*
13744284 AAATGATTTTATTATT
1 AAATAATTTTATTATT
13744300 CGTGATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
AAATAATTTTATTATTA
Found at i:13744402 original size:22 final size:22
Alignment explanation
Indices: 13744368--13744417 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13744358 TATTTGATTA
* * *
13744368 ATATGATTAAAAATTAAAAATT
1 ATATTATTAAAAAATAAAAAAT
*
13744390 ATATTATTTAAAAATAAAAAAT
1 ATATTATTAAAAAATAAAAAAT
13744412 A-ATTAT
1 ATATTAT
13744418 ATATATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATTATTAAAAAATAAAAAAT
Found at i:13744442 original size:27 final size:25
Alignment explanation
Indices: 13744383--13744443 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
13744373 ATTAAAAATT
13744383 AAAAATTATATTATTTAAAAATAAA
1 AAAAATTATATTATTTAAAAATAAA
* *
13744408 AAATAATTATATATATTTTAATAATTAA
1 AAA-AATTATAT-TA-TTTAAAAATAAA
*
13744436 ACAAATTA
1 AAAAATTA
13744444 ATGATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 8 0.27
27 7 0.23
28 12 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAAATTATATTATTTAAAAATAAA
Found at i:13745647 original size:31 final size:33
Alignment explanation
Indices: 13745601--13745669 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 33
13745591 TATAAAATTA
*
13745601 AAAGTAAATAATGAAATTT-AAAATGATAATAC
1 AAAGTAAACAATGAAATTTAAAAATGATAATAC
*
13745633 AAAGT-AACAATGAAATTTAAAAATGGTAATAC
1 AAAGTAAACAATGAAATTTAAAAATGATAATAC
13745665 AAAGT
1 AAAGT
13745670 TAAAATTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 12 0.35
32 22 0.65
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (33 bp):
AAAGTAAACAATGAAATTTAAAAATGATAATAC
Found at i:13751798 original size:32 final size:32
Alignment explanation
Indices: 13751759--13751892 Score: 83
Period size: 32 Copynumber: 4.0 Consensus size: 32
13751749 TTGTATTGGG
13751759 TAATAAATTAATAAATAAAATTTATTATTATA
1 TAATAAATTAATAAATAAAATTTATTATTATA
* * *** *
13751791 TAATAAATAAATAACTTCTATTT-TTATTTTTTA
1 TAATAAATTAATAAATAAAATTTATTA--TTATA
* *
13751824 TTGTATAACATTAATAAATAAATAAATTTTAATATTATA
1 -T-AATAA-ATTAATAAAT--A-AAA-TTTATTATTATA
* *
13751863 TAATAAATTAATAAATATATTTTATT-TTAT
1 TAATAAATTAATAAATAAAATTTATTATTAT
13751893 TTTTTTATTA
Statistics
Matches: 74, Mismatches: 18, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
31 7 0.09
32 23 0.31
33 5 0.07
34 2 0.03
35 4 0.05
36 18 0.24
37 4 0.05
38 1 0.01
39 5 0.07
40 3 0.04
41 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.49
Consensus pattern (32 bp):
TAATAAATTAATAAATAAAATTTATTATTATA
Found at i:13765262 original size:26 final size:26
Alignment explanation
Indices: 13765205--13765273 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
13765195 CAGGATTTCA
* * *
13765205 AACACAATATGAATAATCTTGACATG
1 AACACGATATGGATAATCTCGACATG
*
13765231 AACACGATATGGATAATCTCGATATG
1 AACACGATATGGATAATCTCGACATG
* *
13765257 AACACGACACGGATAAT
1 AACACGATATGGATAAT
13765274 TAAATAACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.23
Consensus pattern (26 bp):
AACACGATATGGATAATCTCGACATG
Found at i:13765511 original size:30 final size:30
Alignment explanation
Indices: 13765447--13765512 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
13765437 TTAGTCTATT
* * *
13765447 TATTTAAATAAAAAATATCATTTAAATTAG
1 TATTTAAACAAAAAATATCATTAAAATTAA
13765477 TATTTAAACAAAAAAT-T-ATTAAAAATTGAA
1 TATTTAAACAAAAAATATCATT-AAAATT-AA
13765507 TATTTA
1 TATTTA
13765513 TAATTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 3 0.10
29 6 0.19
30 22 0.71
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TATTTAAACAAAAAATATCATTAAAATTAA
Found at i:13766073 original size:2 final size:2
Alignment explanation
Indices: 13766066--13766133 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
13766056 AAAAGTTATG
* * *
13766066 TA TA TA TA TA TG TA TG TA TA TA TA TA TA TA TT 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
13766108 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
13766134 AAATGCGTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13766929 original size:16 final size:17
Alignment explanation
Indices: 13766910--13766947 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
13766900 ATTATTAATT
13766910 ATTTTAATTAACATAG-
1 ATTTTAATTAACATAGA
13766926 ATTTTAATTAACATAGA
1 ATTTTAATTAACATAGA
13766943 ATTTT
1 ATTTT
13766948 TTTATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTTTAATTAACATAGA
Found at i:13766951 original size:20 final size:19
Alignment explanation
Indices: 13766906--13766949 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 19
13766896 ATTAATTATT
13766906 AATTATTTTAATTAACATAG
1 AATT-TTTTAATTAACATAG
13766926 -A--TTTTAATTAACATAG
1 AATTTTTTAATTAACATAG
13766942 AATTTTTT
1 AATTTTTT
13766950 TATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
16 15 0.71
17 1 0.05
19 5 0.24
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
AATTTTTTAATTAACATAG
Found at i:13771215 original size:11 final size:11
Alignment explanation
Indices: 13771199--13771224 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13771189 TATCATTTTC
13771199 ATGAATATTTA
1 ATGAATATTTA
13771210 ATGAATATTTA
1 ATGAATATTTA
13771221 ATGA
1 ATGA
13771225 CCCACGAGAC
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:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (11 bp):
ATGAATATTTA
Found at i:13772376 original size:40 final size:40
Alignment explanation
Indices: 13772331--13772478 Score: 125
Period size: 40 Copynumber: 3.7 Consensus size: 40
13772321 TGGGAAAAGC
*
13772331 ATCAAATAAGGCATTTGTAGGAAGAAACACCTTAATTGAT
1 ATCAAATAAGGCATTTCTAGGAAGAAACACCTTAATTGAT
* * *** * **
13772371 ATCAAATAAGGCGTATCTTCCAACAAATGCCTTAATTGAT
1 ATCAAATAAGGCATTTCTAGGAAGAAACACCTTAATTGAT
* * * * **
13772411 ATAAAATAAAGCGTTTCTAAGAAGAAACATTTTAATTGAT
1 ATCAAATAAGGCATTTCTAGGAAGAAACACCTTAATTGAT
* * * *
13772451 ATTAATTAAGGCATTTGTAGGATGAAAC
1 ATCAAATAAGGCATTTCTAGGAAGAAAC
13772479 GCCTACAAAC
Statistics
Matches: 81, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (40 bp):
ATCAAATAAGGCATTTCTAGGAAGAAACACCTTAATTGAT
Found at i:13773697 original size:10 final size:10
Alignment explanation
Indices: 13773656--13773700 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
13773646 GGAATTTGCA
*
13773656 AAAAAAAAAA
1 AAAAAAAAAG
13773666 AAAAAAAAAG
1 AAAAAAAAAG
*
13773676 AAAAAATAAG
1 AAAAAAAAAG
*
13773686 AAAAAAATAG
1 AAAAAAAAAG
13773696 AAAAA
1 AAAAA
13773701 TTTGGAGAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.89, C:0.00, G:0.07, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:13774708 original size:19 final size:19
Alignment explanation
Indices: 13774686--13774729 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13774676 ATCAACATCC
13774686 AAACCTTAAACCAACCATG
1 AAACCTTAAACCAACCATG
* *
13774705 AAACCCTAAACCACCCATG
1 AAACCTTAAACCAACCATG
13774724 AAACCT
1 AAACCT
13774730 GTAGACACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.36, G:0.05, T:0.14
Consensus pattern (19 bp):
AAACCTTAAACCAACCATG
Found at i:13774834 original size:19 final size:20
Alignment explanation
Indices: 13774810--13774863 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
13774800 TTATTTGGGA
13774810 TTATTTTTATTTTATTTT-T
1 TTATTTTTATTTTATTTTAT
13774829 TTATTTTT-TTTGTATTTTAT
1 TTATTTTTATTT-TATTTTAT
*
13774849 GTA-TTTTA-TTTATTT
1 TTATTTTTATTTTATTT
13774864 ATTATTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.26
19 20 0.65
20 3 0.10
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.80
Consensus pattern (20 bp):
TTATTTTTATTTTATTTTAT
Found at i:13774847 original size:24 final size:24
Alignment explanation
Indices: 13774813--13774879 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
13774803 TTTGGGATTA
*
13774813 TTTTTATTTTAT-TTTTTTATTTT
1 TTTTTATTTTATGTATTTTATTTT
13774836 TTTTGTATTTTATGTATTTTATTTAT
1 TTTT-TATTTTATGTATTTTATTT-T
* *
13774862 TTATTATTACTATGTATT
1 TTTTTATT-TTATGTATT
13774880 AATATCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 13 0.35
26 12 0.32
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTATTTTATGTATTTTATTTT
Found at i:13774862 original size:4 final size:4
Alignment explanation
Indices: 13774815--13774974 Score: 69
Period size: 4 Copynumber: 37.8 Consensus size: 4
13774805 TGGGATTATT
* *
13774815 TTTA TTTTA TTTT TTTA TTT- TTT- TTGTA TTTTA TGTA TTTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TT-TA -TTTA TTTA -TTTA TTTA
* * * *
13774861 TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA TTTA TTAATA
1 TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
* * *
13774912 TTTA TATGTA TTTTA TTTA TATA GTTA TATA TTTA -TTA TTATA TTATAA
1 TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT-T-A
*
13774961 TTTA TGTA -TTA TTT
1 TTTA TTTA TTTA TTT
13774975 TTTTTCTTGT
Statistics
Matches: 119, Mismatches: 20, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
3 13 0.11
4 71 0.60
5 19 0.16
6 15 0.13
7 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:13774942 original size:25 final size:23
Alignment explanation
Indices: 13774850--13774975 Score: 64
Period size: 25 Copynumber: 5.3 Consensus size: 23
13774840 GTATTTTATG
* *
13774850 TATTTTATTTATTTATTAT-TAC
1 TATTTTATTTATATATTATATAT
* * * *
13774872 TA-TGTATTAATATCTTTATTTAT
1 TATTTTATTTATAT-ATTATATAT
13774895 T-TATTTATTTATTAATATT-TATAT
1 TAT-TTTATTTA-T-ATATTATATAT
13774919 GTATTTTATTTATATAGTTATATATT
1 -TATTTTATTTATATA-TTATATA-T
*
13774945 TATTATTATATTATA-ATTTATGTAT
1 TATT-TTAT-TTATATA-TTATATAT
13774970 TATTTT
1 TATTTT
13774976 TTTTCTTGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
21 8 0.10
22 6 0.08
23 6 0.08
24 15 0.19
25 25 0.31
26 15 0.19
27 5 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (23 bp):
TATTTTATTTATATATTATATAT
Found at i:13774954 original size:37 final size:34
Alignment explanation
Indices: 13774817--13774955 Score: 108
Period size: 33 Copynumber: 4.0 Consensus size: 34
13774807 GGATTATTTT
* * *
13774817 TATTTTATTTTTTTATT-TT-TTTTGTATTTTATG
1 TATTTTATTTATTTATTATTATTAT-TATTATATG
*
13774850 TATTTTATTTATTTATTATTACTATGTATTA-A--
1 TATTTTATTTATTTATTATTATTAT-TATTATATG
*
13774882 TATCTTTATTTATTTATTTATTTATTAATATTTATATG
1 TAT-TTTATTTATTTA-TTA-TTATTATTA-TTATATG
*
13774920 TATTTTATTTATATAGTTATATATTTATTATTATAT
1 TATTTTATTTATTTA-TTAT-TA-TTATTATTATAT
13774956 TATAATTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
32 3 0.03
33 28 0.33
34 8 0.09
35 15 0.17
36 2 0.02
37 22 0.26
38 8 0.09
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (34 bp):
TATTTTATTTATTTATTATTATTATTATTATATG
Found at i:13775047 original size:16 final size:16
Alignment explanation
Indices: 13775026--13775059 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13775016 AATATTTTTT
*
13775026 TTTTTCGTTTATTTGA
1 TTTTTCGTTTATCTGA
13775042 TTTTTCGTTTATCTGA
1 TTTTTCGTTTATCTGA
13775058 TT
1 TT
13775060 ATTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTTTCGTTTATCTGA
Found at i:13775916 original size:22 final size:21
Alignment explanation
Indices: 13775888--13775991 Score: 61
Period size: 25 Copynumber: 4.6 Consensus size: 21
13775878 AGCCAGATTA
13775888 TTTATTTATTTATTTGTTTTTT
1 TTTATTTATTTATTT-TTTTTT
*
13775910 TTTATTTATTAGATTATGTTTATTT
1 TTTATTTATT-TATT-T-TTT-TTT
**
13775935 AATATTCT-TCTTATCTTTATTTTAT
1 TTTATT-TAT-TTAT-TTT-TTTT-T
*
13775960 TTTATTT-TTTATTTTTTTTA
1 TTTATTTATTTATTTTTTTTT
13775980 TTT-TTTATTTAT
1 TTTATTTATTTAT
13775992 GTTCACTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
19 3 0.05
20 8 0.12
21 4 0.06
22 13 0.20
23 7 0.11
24 10 0.15
25 18 0.27
26 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTATTTTTTTTT
Found at i:13775958 original size:5 final size:5
Alignment explanation
Indices: 13775945--13776014 Score: 52
Period size: 5 Copynumber: 13.0 Consensus size: 5
13775935 AATATTCTTC
*
13775945 TTATCT TTATT TTATT TTATTTT TTATT TT-TT TTATT TTTTAT TTATGT
1 TTAT-T TTATT TTATT TTA--TT TTATT TTATT TTATT TTAT-T TTAT-T
* *
13775994 TCACTT TTATT TTGTT TTATT
1 TTA-TT TTATT TTATT TTATT
13776015 ATTCTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.08
5 28 0.54
6 14 0.27
7 6 0.12
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:13775971 original size:23 final size:21
Alignment explanation
Indices: 13775951--13776024 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 21
13775941 CTTCTTATCT
13775951 TTATTTTATTTTATTTTTTATT
1 TTATTTTATTTT-TTTTTTATT
*
13775973 TT-TTTTATTTTTTATTTATGT
1 TTATTTTATTTTTTTTTTAT-T
*
13775994 TCACTTTTATTTTGTTTTATTATT
1 TTA-TTTTATTTT-TTTT-TTATT
*
13776018 CTATTTT
1 TTATTTT
13776025 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 7 0.17
21 11 0.26
22 2 0.05
23 13 0.31
24 5 0.12
25 4 0.10
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (21 bp):
TTATTTTATTTTTTTTTTATT
Found at i:13775981 original size:16 final size:16
Alignment explanation
Indices: 13775950--13776029 Score: 72
Period size: 16 Copynumber: 4.8 Consensus size: 16
13775940 TCTTCTTATC
13775950 TTTATTTTATTTTATTT
1 TTTATTTT-TTTTATTT
13775967 TTTATTTTTTTTATTT
1 TTTATTTTTTTTATTT
* * *
13775983 TTTATTTATGTTCA-CT
1 TTTATTT-TTTTTATTT
13775999 TTTATTTTGTTTTATTAT
1 TTTATTTT-TTTTATT-T
* *
13776017 TCTATTTTCTTTA
1 TTTATTTTTTTTA
13776030 AATAAAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.02
16 26 0.51
17 16 0.31
18 8 0.16
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTATTTTTTTTATTT
Found at i:13776259 original size:59 final size:59
Alignment explanation
Indices: 13776029--13776441 Score: 459
Period size: 60 Copynumber: 6.9 Consensus size: 59
13776019 TATTTTCTTT
* *
13776029 AAATAAAAATT-AAAAAAAA-TATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTTCTTAA
1 AAATAAAATTTCAAAAAAAAGGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTT-TTAA
* * *
13776087 AAATAAATTTTC--AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGA
1 AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTAA
**
13776145 AAATCAAAATTT-AAAAAAAAATATTTTT-AGGCAAAAGTTGAAAGTATCAATTTTTTTTAA
1 AAAT-AAAATTTCAAAAAAAAGGATTTTTGAGG-AAAAGTTGAAAGTATCAA-TTTTTTTAA
*
13776205 AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTAA
1 AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAA
* * *
13776265 AAATCAAAATTTCCAAAAAAAA-AATATTTT-AGGGAAAAGTTGAAAATATCAATTTTCCTTAA
1 AAAT-AAAATTT-CAAAAAAAAGGAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTT-TTTAA
* * * * * *
13776327 AAATATATTTTCAAAAAAAAGGTTTTTTGGGGAAAAATTGAAAGTATCAATTTTCCTTAA
1 AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTAA
***
13776387 AAAT-AAATTTCAAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTT
1 AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTT
13776442 CTGCACAAAA
Statistics
Matches: 303, Mismatches: 33, Indels: 38
0.81 0.09 0.10
Matches are distributed among these distances:
57 6 0.02
58 46 0.15
59 64 0.21
60 121 0.40
61 23 0.08
62 43 0.14
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (59 bp):
AAATAAAATTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAA
Found at i:13786880 original size:8 final size:8
Alignment explanation
Indices: 13786860--13786918 Score: 75
Period size: 9 Copynumber: 7.0 Consensus size: 8
13786850 ATACTATGCT
13786860 TGAAAAAA
1 TGAAAAAA
13786868 T-AAAAAA
1 TGAAAAAA
13786875 TGAAAAAAA
1 TG-AAAAAA
13786884 TGAAAAAAA
1 TG-AAAAAA
13786893 TGAAAAATGA
1 TGAAAAA--A
13786903 TGAAAAAA
1 TGAAAAAA
13786911 TGAAAAAA
1 TGAAAAAA
13786919 AAAAAAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.15
8 15 0.32
9 17 0.36
10 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (8 bp):
TGAAAAAA
Found at i:13786881 original size:9 final size:9
Alignment explanation
Indices: 13786869--13786933 Score: 78
Period size: 9 Copynumber: 7.1 Consensus size: 9
13786859 TTGAAAAAAT
13786869 AAAAAATGA
1 AAAAAATGA
13786878 AAAAAATGA
1 AAAAAATGA
13786887 AAAAAATGA
1 AAAAAATGA
*
13786896 AAAATGATG-
1 AAAA-AATGA
13786905 AAAAAATGA
1 AAAAAATGA
**
13786914 AAAAAAAAA
1 AAAAAATGA
13786923 AAAAAAGTGA
1 AAAAAA-TGA
13786933 A
1 A
13786934 TGAAGGACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
8 3 0.06
9 39 0.83
10 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (9 bp):
AAAAAATGA
Found at i:13787996 original size:44 final size:44
Alignment explanation
Indices: 13787937--13788201 Score: 352
Period size: 44 Copynumber: 6.2 Consensus size: 44
13787927 GACATGATTG
* *
13787937 TTAG-GGAGTAATTTACTTTTTCTAAAAGTCGTGGTGCCTCTGT
1 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
13787980 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
1 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
* *
13788024 TTAAAGGAGCAATTTAC-TTTTCCAAAA---GT--TGCCTTTGT
1 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
* *
13788062 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTACCTTTGT
1 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
* *
13788106 TTAGAGGAGCAATTTACTTTTT-CAAAAGTCGTGGTACCTCTAT
1 TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
* * *
13788149 TTAAAGGAGCAATTTA-TTTTGTTC-AAAGTCGTGGTGCCTTTGT
1 TTAGAGGAGCAATTTACTTTT-TCCAAAAGTCGTGGTGCCTCTGT
13788192 TTAGAGGAGC
1 TTAGAGGAGC
13788202 TTTGGAAAAA
Statistics
Matches: 200, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
38 24 0.12
39 10 0.05
40 2 0.01
42 6 0.03
43 74 0.37
44 84 0.42
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (44 bp):
TTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGT
Found at i:13788064 original size:82 final size:83
Alignment explanation
Indices: 13787971--13788201 Score: 324
Period size: 82 Copynumber: 2.8 Consensus size: 83
13787961 AAAGTCGTGG
* *
13787971 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTCTGTTTAAAGGAGCAA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAA
13788036 TTTACTTTTCCAAAAGT-
66 TTTACTTTTCCAAAAGTC
* *
13788053 TGCCTTTGTTTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTACCTTTGTTTAGAGGAGCAA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAA
*
13788118 TTTACTTTTTCAAAAGTC
66 TTTACTTTTCCAAAAGTC
* * *
13788136 GTGGTACCTCTATTTAAAGGAGCAATTTA-TTTTGTTC-AAAGTCGTGGTGCCTTTGTTTAGAGG
1 -T-G--CCTCTGTTTAGAGGAGCAATTTACTTTT-TCCAAAAGTCGTGGTGCCTTTGTTTAGAGG
13788199 AGC
61 AGC
13788202 TTTGGAAAAA
Statistics
Matches: 133, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
82 77 0.58
84 1 0.01
85 1 0.01
86 32 0.24
87 22 0.17
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (83 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAA
TTTACTTTTCCAAAAGTC
Found at i:13788213 original size:1 final size:1
Alignment explanation
Indices: 13788207--13788268 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
13788197 GGAGCTTTGG
* * * ** * *
13788207 AAAAAAAAAAAAAACAAAAACAAAAACAAAAGCAAAAAAAAAAAACAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13788269 TGAAAATGTT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:13788243 original size:25 final size:24
Alignment explanation
Indices: 13788210--13788268 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 24
13788200 GCTTTGGAAA
*
13788210 AAAAA-AAAAAACAAAAACAAAAA
1 AAAAACAAAAAAAAAAAACAAAAA
*
13788233 CAAAAGCAAAAAAAAAAAACAAAAA
1 -AAAAACAAAAAAAAAAAACAAAAA
13788258 AAAAACAAAAA
1 AAAAACAAAAA
13788269 TGAAAATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAACAAAAAAAAAAAACAAAAA
Found at i:13788247 original size:31 final size:30
Alignment explanation
Indices: 13788209--13788267 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 30
13788199 AGCTTTGGAA
13788209 AAAAAAAAAAAACAAAAACAAAAACAAAAGC
1 AAAAAAAAAAAACAAAAA-AAAAACAAAAGC
13788240 AAAAAAAAAAAACAAAAAAAAAACAAAA
1 AAAAAAAAAAAACAAAAAAAAAACAAAA
13788268 ATGAAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAACAAAAAAAAAACAAAAGC
Found at i:13788486 original size:4 final size:4
Alignment explanation
Indices: 13788477--13788598 Score: 61
Period size: 4 Copynumber: 28.8 Consensus size: 4
13788467 TTTTATGTAT
* * * *
13788477 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
13788526 TTTA TTAATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA TTTA -TTA
1 TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
13788574 TTATA TTATAA TTTA TGTA -TTA TTT
1 TT-TA TT-T-A TTTA TTTA TTTA TTT
13788599 TTTTTCTTGT
Statistics
Matches: 90, Mismatches: 16, Indels: 24
0.69 0.12 0.18
Matches are distributed among these distances:
3 8 0.09
4 58 0.64
5 10 0.11
6 13 0.14
7 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:13788566 original size:25 final size:23
Alignment explanation
Indices: 13788474--13788599 Score: 64
Period size: 25 Copynumber: 5.3 Consensus size: 23
13788464 GTATTTTATG
* *
13788474 TATTTTATTTATTTATTAT-TAC
1 TATTTTATTTATATATTATATAT
* * * *
13788496 TA-TGTATTAATATCTTTATTTAT
1 TATTTTATTTATAT-ATTATATAT
13788519 T-TATTTATTTATTAATATT-TATAT
1 TAT-TTTATTTA-T-ATATTATATAT
13788543 GTATTTTATTTATATAGTTATATATT
1 -TATTTTATTTATATA-TTATATA-T
*
13788569 TATTATTATATTATA-ATTTATGTAT
1 TATT-TTAT-TTATATA-TTATATAT
13788594 TATTTT
1 TATTTT
13788600 TTTTCTTGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
21 8 0.10
22 6 0.08
23 6 0.08
24 15 0.19
25 25 0.31
26 15 0.19
27 5 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (23 bp):
TATTTTATTTATATATTATATAT
Found at i:13788578 original size:37 final size:34
Alignment explanation
Indices: 13788465--13788579 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 34
13788455 CTTTCTTTTG
* *
13788465 TATTTTATGTATTTTATTTATTTATTATTACTAT
1 TATTATATGTATTTTATTTATTTATTATTATTAT
*
13788499 GTATTA-A--TATCTTTATTTATTTATTTATTTATTAA
1 -TATTATATGTAT-TTTATTTATTTA-TTA-TTATTAT
*
13788534 TATTTATATGTATTTTATTTATATAGTTATATATTTAT
1 TA-TTATATGTATTTTATTTATTTA-TTAT-TA-TTAT
13788572 TATTATAT
1 TATTATAT
13788580 TATAATTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
32 3 0.05
33 12 0.18
34 6 0.09
35 12 0.18
36 2 0.03
37 22 0.34
38 8 0.12
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (34 bp):
TATTATATGTATTTTATTTATTTATTATTATTAT
Found at i:13788674 original size:16 final size:16
Alignment explanation
Indices: 13788653--13788686 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13788643 TTTTTTTTCT
*
13788653 TTTTTCGTTTATTTGA
1 TTTTTCGTTTATCTGA
13788669 TTTTTCGTTTATCTGA
1 TTTTTCGTTTATCTGA
13788685 TT
1 TT
13788687 ATTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTTTCGTTTATCTGA
Found at i:13789522 original size:12 final size:12
Alignment explanation
Indices: 13789505--13789530 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13789495 GAGCCAGGTT
13789505 TTTTTTTATTTA
1 TTTTTTTATTTA
13789517 TTTTTTTATTTA
1 TTTTTTTATTTA
13789529 TT
1 TT
13789531 AGATTAGGTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:13789585 original size:19 final size:19
Alignment explanation
Indices: 13789561--13789598 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13789551 TCTTCTTATC
13789561 TTTATTTTATT-TTTATGTT
1 TTTATTTT-TTATTTATGTT
13789580 TTTATTTTTTATTTATGTT
1 TTTATTTTTTATTTATGTT
13789599 CACTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTATTTTTTATTTATGTT
Found at i:13789708 original size:61 final size:59
Alignment explanation
Indices: 13789643--13790105 Score: 582
Period size: 61 Copynumber: 7.7 Consensus size: 59
13789633 AAATAAAAAT
*
13789643 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
1 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
*
13789704 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
13789763 AAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAATTTTC
1 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
** *
13789822 ---AAAAA-GGTTTTTGAGGAAAAGTTGAAAGTATCAATATTT-CTTGAAAATCAAAATTTTC
1 AAAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAAT-TTTCCTTAAAAAT--AAATTTTC
* * *
13789880 AAAAAAAAAAAAATTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 --AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * * *
13789941 AAAAAAAA-AGTTTTTTTAGGGAAAAATTGAAAGTATCAATTTTTCTTAAAAACAAAATTTC
1 AAAAAAAATA--TTTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13790002 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC
1 -AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
13790061 -AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAAAAAAT-ATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
13790106 GCATAAAAAC
Statistics
Matches: 356, Mismatches: 28, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
55 5 0.01
56 32 0.09
57 11 0.03
58 15 0.04
59 99 0.28
60 42 0.12
61 101 0.28
62 11 0.03
63 35 0.10
64 5 0.01
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:13790717 original size:13 final size:13
Alignment explanation
Indices: 13790701--13790812 Score: 90
Period size: 13 Copynumber: 8.7 Consensus size: 13
13790691 ACCTAACGCA
*
13790701 AAACCTTAACCTT
1 AAACCCTAACCTT
*
13790714 AAACCCTATACATT
1 AAACCCTA-ACCTT
13790728 -AACCCTAAACCTT
1 AAACCCT-AACCTT
13790741 AAA-CCTATACC-T
1 AAACCCTA-ACCTT
13790753 AAACCCTAACCTT
1 AAACCCTAACCTT
*
13790766 AAACCCTAAACCCT
1 AAACCCT-AACCTT
* *
13790780 -AACCCAAACCCT
1 AAACCCTAACCTT
*
13790792 AAAACCT-ACCTT
1 AAACCCTAACCTT
*
13790804 TAACCCTAA
1 AAACCCTAA
13790813 ACCAAACCTC
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
12 23 0.29
13 45 0.56
14 12 0.15
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (13 bp):
AAACCCTAACCTT
Found at i:13790731 original size:26 final size:26
Alignment explanation
Indices: 13790701--13790773 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
13790691 ACCTAACGCA
13790701 AAACCTTAACCTTAAACCCTATACATT
1 AAACCTTAACCTTAAACCCTATACA-T
* * *
13790728 AACCCTAAACCTTAAA-CCTATACCT
1 AAACCTTAACCTTAAACCCTATACAT
*
13790753 AAACCCTAACCTTAAACCCTA
1 AAACCTTAACCTTAAACCCTA
13790774 AACCCTAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 14 0.36
26 11 0.28
27 14 0.36
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (26 bp):
AAACCTTAACCTTAAACCCTATACAT
Found at i:13790783 original size:26 final size:26
Alignment explanation
Indices: 13790702--13790799 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
13790692 CCTAACGCAA
* **
13790702 AACCTTAACCTTAAACCCTATACATT
1 AACCCTAACCTTAAACCCTATACCCT
13790728 AACCCTAAACCTTAAA-CCTATA-CCT
1 AACCCT-AACCTTAAACCCTATACCCT
*
13790753 AAACCCTAACCTTAAACCCTAAACCCT
1 -AACCCTAACCTTAAACCCTATACCCT
* * *
13790780 AACCCAAACCCTAAAACCTA
1 AACCCTAACCTTAAACCCTA
13790800 CCTTTAACCC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 10 0.16
26 39 0.64
27 12 0.20
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (26 bp):
AACCCTAACCTTAAACCCTATACCCT
Found at i:13790790 original size:12 final size:13
Alignment explanation
Indices: 13790629--13790812 Score: 76
Period size: 13 Copynumber: 14.2 Consensus size: 13
13790619 ATAAACCTTA
13790629 AACCCTAAACCCT
1 AACCCTAAACCCT
**
13790642 ATA-CCTTCACCCT
1 A-ACCCTAAACCCT
*
13790655 AAACCCTAAA-CTT
1 -AACCCTAAACCCT
* * **
13790668 AAACCTCAATTCT
1 AACCCTAAACCCT
*
13790681 AAACCCTAAAACCT
1 -AACCCTAAACCCT
* * *
13790695 AACGCAAAACCTT
1 AACCCTAAACCCT
*
13790708 AACCTTAAACCCT
1 AACCCTAAACCCT
* *
13790721 ATA-CATTAACCCT
1 A-ACCCTAAACCCT
*
13790734 AAACCTTAAA-CCT
1 -AACCCTAAACCCT
13790747 ATA-CCTAAACCCT
1 A-ACCCTAAACCCT
*
13790760 AACCTTAAACCCT
1 AACCCTAAACCCT
*
13790773 AAACCCT-AACCCA
1 -AACCCTAAACCCT
*
13790786 AACCCTAAAACCT
1 AACCCTAAACCCT
* *
13790799 -ACCTTTAACCCT
1 AACCCTAAACCCT
13790811 AA
1 AA
13790813 ACCAAACCTC
Statistics
Matches: 123, Mismatches: 34, Indels: 28
0.66 0.18 0.15
Matches are distributed among these distances:
12 29 0.24
13 68 0.55
14 26 0.21
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.22
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:13790808 original size:19 final size:20
Alignment explanation
Indices: 13790622--13790815 Score: 136
Period size: 20 Copynumber: 9.9 Consensus size: 20
13790612 TTTAAGCATA
13790622 AACCTTAAACCCTAAACCCT
1 AACCTTAAACCCTAAACCCT
*
13790642 ATACCTT-CACCCTAAACCCT
1 A-ACCTTAAACCCTAAACCCT
* * **
13790662 AAACTTAAA-CCTCAATTCT
1 AACCTTAAACCCTAAACCCT
* * **
13790681 AAACCCTAAAACCT-AACGCAA
1 -AACCTTAAACCCTAAAC-CCT
*
13790702 AACCTT-AACCTTAAACCCT
1 AACCTTAAACCCTAAACCCT
* *
13790721 ATACATT-AACCCTAAACCTT
1 A-ACCTTAAACCCTAAACCCT
*
13790741 AAACC-TATA-CCTAAACCCT
1 -AACCTTAAACCCTAAACCCT
13790760 AACCTTAAACCCTAAACCCT
1 AACCTTAAACCCTAAACCCT
* *
13790780 AACC-CAAACCCTAAAACCT
1 AACCTTAAACCCTAAACCCT
*
13790799 -ACCTTTAACCCTAAACC
1 AACCTTAAACCCTAAACC
13790816 AAACCTCAAA
Statistics
Matches: 133, Mismatches: 29, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
18 7 0.05
19 53 0.40
20 64 0.48
21 9 0.07
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.22
Consensus pattern (20 bp):
AACCTTAAACCCTAAACCCT
Found at i:13790815 original size:7 final size:7
Alignment explanation
Indices: 13790620--13790799 Score: 103
Period size: 7 Copynumber: 27.3 Consensus size: 7
13790610 ACTTTAAGCA
*
13790620 TAAACCT
1 TAAACCC
13790627 TAAACCC
1 TAAACCC
13790634 TAAACCC
1 TAAACCC
*
13790641 TATA-CC
1 TAAACCC
**
13790647 TTCACCC
1 TAAACCC
13790654 TAAACCC
1 TAAACCC
*
13790661 TAAA-CT
1 TAAACCC
13790667 TAAA-CC
1 TAAACCC
* **
13790673 TCAATTC
1 TAAACCC
13790680 TAAACCC
1 TAAACCC
*
13790687 TAAAACC
1 TAAACCC
*
13790694 T-AACGC
1 TAAACCC
*
13790700 -AAAACC
1 TAAACCC
* *
13790706 TTAACCT
1 TAAACCC
13790713 TAAACCC
1 TAAACCC
* *
13790720 TATA-CA
1 TAAACCC
*
13790726 TTAACCC
1 TAAACCC
*
13790733 TAAACCT
1 TAAACCC
13790740 TAAA-CC
1 TAAACCC
*
13790746 TATA-CC
1 TAAACCC
13790752 TAAACCC
1 TAAACCC
*
13790759 T-AACCT
1 TAAACCC
13790765 TAAACCC
1 TAAACCC
13790772 TAAACCC
1 TAAACCC
13790779 T-AACCC
1 TAAACCC
13790785 -AAACCC
1 TAAACCC
*
13790791 TAAAACC
1 TAAACCC
13790798 TA
1 TA
13790800 CCTTTAACCC
Statistics
Matches: 128, Mismatches: 36, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
6 46 0.36
7 82 0.64
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:13790821 original size:19 final size:19
Alignment explanation
Indices: 13790726--13790821 Score: 56
Period size: 19 Copynumber: 5.0 Consensus size: 19
13790716 ACCCTATACA
13790726 TTAACCCTAAACCTTAAACCT
1 TTAACCCTAAACC--AAACCT
* *
13790747 AT-A-CCTAAACCCTAACCT
1 TTAACCCTAAA-CCAAACCT
* *
13790765 TAAACCCTAAACCCTAACC-
1 TTAACCCTAAA-CCAAACCT
** *
13790784 CAAACCCTAAAACC-TACCT
1 TTAACCCT-AAACCAAACCT
13790803 TTAACCCTAAACCAAACCT
1 TTAACCCTAAACCAAACCT
13790822 CAAAATCCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
18 13 0.22
19 26 0.43
20 20 0.33
21 1 0.02
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.21
Consensus pattern (19 bp):
TTAACCCTAAACCAAACCT
Found at i:13793043 original size:37 final size:37
Alignment explanation
Indices: 13793002--13793073 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
13792992 CATTTAAATA
* *
13793002 GATAATACATGCT-GTCCATCTCATGCATATCATAATT
1 GATAATACATG-TAGTCCATCCCATGCACATCATAATT
*
13793039 GATAATACATGTAGTCCATCCCATGTACATCATAA
1 GATAATACATGTAGTCCATCCCATGCACATCATAA
13793074 GAGATGTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (37 bp):
GATAATACATGTAGTCCATCCCATGCACATCATAATT
Found at i:13793834 original size:221 final size:221
Alignment explanation
Indices: 13793451--13793886 Score: 635
Period size: 221 Copynumber: 2.0 Consensus size: 221
13793441 TCACTTCAGG
* *
13793451 AGTATTCATGGAGACTAGTGTCTCACCCTAAAGAAGCTTCGTCATTGGATTTATTAAAGTATTTT
1 AGTATTCATGGAGACTAGTGTCTCACCCTAAAGAAGCTTCGTCATTAGATTTATTAAAATATTTT
* ** * * *
13793516 ACTTAAAAAAATAATTAGTAAAGTTTTTCAATAGTTTGGCAGGATTTACTTTGATGTAAATCCCC
66 ACTCAAAAAAATAATTAGTAAAGTCCTCCAATAGTTTGGCAGAATTTACTTTGATGTAAATACCC
* * * *
13793581 TATTAGTTTGGTGAGATTTTATTATAAAAATATTTATGAAATTTTATTTTTGAGAAAATTCATTA
131 TAATAATTTGATGAGATTTTATTATAAAAATATTTATAAAATTTTATTTTTGAGAAAATTCATTA
13793646 AA-CATTCCAATAGTTTGATATTAAAT
196 AATC-TTCCAATAGTTTGATATTAAAT
* * * * * **
13793672 AGTATTCATGGAGACTAGTGTCTTATCTTGAA-AAGGTTCCGTTGTTAGATTTATTAAAATATTT
1 AGTATTCATGGAGACTAGTGTCTCACCCTAAAGAAGCTT-CGTCATTAGATTTATTAAAATATTT
*
13793736 TACTCAAAAAAATAATTAGTAAAGTCCTCCAATAGTTTGGCAGAATTTACTTTGATGTAGATTAC
65 TACTCAAAAAAATAATTAGTAAAGTCCTCCAATAGTTTGGCAGAATTTACTTTGATGTA-AATAC
*
13793801 CC-AATAATTTGATGAGATTTTATTATAAAAATATTTATAAAATTTTTTTTTTGAGAAAATTCAT
129 CCTAATAATTTGATGAGATTTTATTATAAAAATATTTATAAAATTTTATTTTTGAGAAAATTCAT
13793865 TAAATCTTCCAATAGTTTGATA
194 TAAATCTTCCAATAGTTTGATA
13793887 ATATTTAACT
Statistics
Matches: 191, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
220 5 0.03
221 180 0.94
222 6 0.03
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (221 bp):
AGTATTCATGGAGACTAGTGTCTCACCCTAAAGAAGCTTCGTCATTAGATTTATTAAAATATTTT
ACTCAAAAAAATAATTAGTAAAGTCCTCCAATAGTTTGGCAGAATTTACTTTGATGTAAATACCC
TAATAATTTGATGAGATTTTATTATAAAAATATTTATAAAATTTTATTTTTGAGAAAATTCATTA
AATCTTCCAATAGTTTGATATTAAAT
Found at i:13794241 original size:20 final size:20
Alignment explanation
Indices: 13794227--13794264 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13794217 AAAAAAGAAT
13794227 AAAATAAAATCAAAAAAACA
1 AAAATAAAATCAAAAAAACA
*
13794247 AAAATAAAATGAAAAAAA
1 AAAATAAAATCAAAAAAA
13794265 AAATTGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAATAAAATCAAAAAAACA
Found at i:13794266 original size:25 final size:24
Alignment explanation
Indices: 13794216--13794267 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
13794206 AAAAAAACTT
*
13794216 AAAAAAAGAATAAAATAAAATCAAA
1 AAAAAAAAAATAAAATAAAAT-AAA
* *
13794241 AAAACAAAAATAAAATGAAA-AAA
1 AAAAAAAAAATAAAATAAAATAAA
13794264 AAAA
1 AAAA
13794268 TTGTGACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.29
25 17 0.71
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.10
Consensus pattern (24 bp):
AAAAAAAAAATAAAATAAAATAAA
Found at i:13794268 original size:32 final size:32
Alignment explanation
Indices: 13794174--13794268 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 32
13794164 ATAAATTAGT
*
13794174 AACACAAAATAAAAATGAAAATAAAATAAAGCAAAAA
1 AACA-AAAAT-AAAATG-AAA-AAAA-AAATCAAAAA
**
13794211 AACTTAAA-AAAA-GAATAAAATAAAATCAAAAA
1 AACAAAAATAAAATGAA-AAAA-AAAATCAAAAA
13794243 AACAAAAATAAAATGAAAAAAAAAAT
1 AACAAAAATAAAATGAAAAAAAAAAT
13794269 TGTGACTGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
32 25 0.51
33 11 0.22
34 7 0.14
36 3 0.06
37 3 0.06
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (32 bp):
AACAAAAATAAAATGAAAAAAAAAATCAAAAA
Found at i:13794678 original size:20 final size:20
Alignment explanation
Indices: 13794626--13794706 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 20
13794616 AAACTCCAAT
*
13794626 CCTAGAACTTCAAATCCAAA
1 CCTAGAACTTCAAATCTAAA
*
13794646 TCCTAGCACTTCAAATCTAAA
1 -CCTAGAACTTCAAATCTAAA
13794667 -CTAGAAACTTCAAA-CTAAA
1 CCTAG-AACTTCAAATCTAAA
* *
13794686 CCTAGAATTTGTAAATCTAAA
1 CCTAGAACTT-CAAATCTAAA
13794707 ACCTTTAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 13 0.25
20 15 0.29
21 23 0.45
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (20 bp):
CCTAGAACTTCAAATCTAAA
Found at i:13795080 original size:3 final size:3
Alignment explanation
Indices: 13795074--13795243 Score: 158
Period size: 3 Copynumber: 58.3 Consensus size: 3
13795064 AAAATAAAGT
13795074 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAGCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA
* * * *
13795120 TAG T-A TAG T-A TAA T-A TAA T-A TAA T-A TAA TAA TAC TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
13795163 TAA CAA TAA TAG CAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
13795211 TAA TAA CAA -AGA AAA TAA TAG TAA TAA -AA TAA T
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T
13795244 CAACATCGAT
Statistics
Matches: 137, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
2 13 0.09
3 120 0.88
4 1 0.01
5 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13795339 original size:37 final size:37
Alignment explanation
Indices: 13795289--13795439 Score: 187
Period size: 37 Copynumber: 4.1 Consensus size: 37
13795279 ACAATAAACA
13795289 TACATGCATTCTATCTCATGCACATCTTAATAGATAG
1 TACATGCATTCTATCTCATGCACATCTTAATAGATAG
* * *
13795326 TACATGCATTCTATCTCATACACATATTAATAGATAA
1 TACATGCATTCTATCTCATGCACATCTTAATAGATAG
* * **
13795363 TACATGCATTCCATTTCATGCACATCCCAATAGATAG
1 TACATGCATTCTATCTCATGCACATCTTAATAGATAG
* * * *
13795400 TACATGCATTC-ATTTTTATGCACATTTTAATAGCTAG
1 TACATGCATTCTA-TCTCATGCACATCTTAATAGATAG
13795437 TAC
1 TAC
13795440 TTGTATTCCA
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
36 1 0.01
37 97 0.99
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (37 bp):
TACATGCATTCTATCTCATGCACATCTTAATAGATAG
Found at i:13798350 original size:326 final size:327
Alignment explanation
Indices: 13797758--13798389 Score: 896
Period size: 326 Copynumber: 1.9 Consensus size: 327
13797748 AAAAGAATAA
* *
13797758 AATAAAATAAAAAATTTTTTATTATGACATCATACACTCGAGGCTTTGAATGAATCCAAAAATGA
1 AATAAAATAAAAAATTTTTGATTATGACATCATACACTCGAGGCTTTGAATGAATCAAAAAATGA
* * * * *
13797823 AAAGATCTCAATAAATTTATGAAAAACTAATGAGAGAAAATTGAAGAGTTTAAAAAGAATGAAAG
66 AAAAATCTCAATAAATTTAGGAAAAACCAATGAGAGAAAATAGAAGAGTTCAAAAAGAATGAAAG
* * *
13797888 TAAAAAAAAAACCCAAAAAAAGAAAAAAAAAACCTTTCTTCAAACCTTTTTTCTAAAAAGAATTG
131 TAAAAAAAAAACCCAAAAAAAGAAAAAAAAAACCTTTCTTCAAAACTTGTTTCTAAAAAGAATTA
* * * * ***
13797953 CTCTTCAAATTTGAATAATTATAATTGAGTTGATAAATGGCCATCTTTCATTACTCCTTCACAAA
196 CTCTTCAAATTTGAATAACTATAATTGAGATGATAAATGGACATCTTTCATCACTCAACCACAAA
13798018 TATAAGAAATTTATCCCTTATTATCCTTTTGAGCCTAATAAAATTCTTTCAAAGAAAAAGAATAA
261 TATAAGAAATTTATCCCTTA--ATCC-TTTGAGCCTAATAAAATTCTTTCAAAGAAAAAGAATAA
13798083 AAAGC
323 AAAGC
* * * *
13798088 AATAAAA-AGAAAA-TTTTGATTATGACATTATGCACTCGAGGCTTTGAATGAATCAAAAAATTA
1 AATAAAATAAAAAATTTTTGATTATGACATCATACACTCGAGGCTTTGAATGAATCAAAAAATGA
* * *
13798151 AAAAATCTCAATAAATTTAGGAAAAACCAATGAGAGAAAATCAG-AGAGTTCAAAAAGAGTTAAG
66 AAAAATCTCAATAAATTTAGGAAAAACCAATGAGAGAAAAT-AGAAGAGTTCAAAAAGAATGAAA
13798215 GT-AAAAAAAAA-CCAAAAAAAGAAAAAAAAAACCTTTCTTCAAAACTTGTTTCTAAAAAGAATT
130 GTAAAAAAAAAACCCAAAAAAAGAAAAAAAAAACCTTTCTTCAAAACTTGTTTCTAAAAAGAATT
* ** *
13798278 ACTCTTCAAATTTGAGTAACTATGCTTGAGATGATAAATGGACATCTTTTATCACTCAACCACAA
195 ACTCTTCAAATTTGAATAACTATAATTGAGATGATAAATGGACATCTTTCATCACTCAACCACAA
* * * * *
13798343 GTATAAGAAATTTATTCCTTACTCCTTTGAGCTTGATAAAATTCTTT
260 ATATAAGAAATTTATCCCTTAATCCTTTGAGCCTAATAAAATTCTTT
13798390 TGGAGTACAT
Statistics
Matches: 268, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
323 20 0.07
324 3 0.01
326 122 0.46
327 9 0.03
328 101 0.38
329 6 0.02
330 7 0.03
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (327 bp):
AATAAAATAAAAAATTTTTGATTATGACATCATACACTCGAGGCTTTGAATGAATCAAAAAATGA
AAAAATCTCAATAAATTTAGGAAAAACCAATGAGAGAAAATAGAAGAGTTCAAAAAGAATGAAAG
TAAAAAAAAAACCCAAAAAAAGAAAAAAAAAACCTTTCTTCAAAACTTGTTTCTAAAAAGAATTA
CTCTTCAAATTTGAATAACTATAATTGAGATGATAAATGGACATCTTTCATCACTCAACCACAAA
TATAAGAAATTTATCCCTTAATCCTTTGAGCCTAATAAAATTCTTTCAAAGAAAAAGAATAAAAA
GC
Found at i:13798574 original size:18 final size:18
Alignment explanation
Indices: 13798553--13798610 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
13798543 AAAATGAAAA
13798553 AAAAAATGAAAGAAAGAG
1 AAAAAATGAAAGAAAGAG
* *
13798571 AAAATATG-AA-AAAGGG
1 AAAAAATGAAAGAAAGAG
*
13798587 AAAAAATGAAAGAAATAG
1 AAAAAATGAAAGAAAGAG
13798605 AAAAAA
1 AAAAAA
13798611 AAGAATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 12 0.36
17 4 0.12
18 17 0.52
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAAATGAAAGAAAGAG
Found at i:13798574 original size:28 final size:29
Alignment explanation
Indices: 13798542--13798648 Score: 87
Period size: 34 Copynumber: 3.6 Consensus size: 29
13798532 TCAACTTAAG
13798542 GAAAATGAAAA-AAAAAATGAAAGAAAGA
1 GAAAATGAAAAGAAAAAATGAAAGAAAGA
*
13798570 GAAAATATGAAAAAGGGAAAAAATGAAAGAAATA
1 G-AAA-ATG-AAAA--GAAAAAATGAAAGAAAGA
* *
13798604 GAAAA--AAAAGAATAAAATAAAAGAAGGA
1 GAAAATGAAAAGAA-AAAATGAAAGAAAGA
*
13798632 GAAGAAAGAAAA-AAAAA
1 GAA-AATGAAAAGAAAAA
13798649 GAAATGAATG
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
27 3 0.05
28 16 0.25
29 12 0.18
30 5 0.08
31 8 0.12
32 1 0.02
33 3 0.05
34 17 0.26
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (29 bp):
GAAAATGAAAAGAAAAAATGAAAGAAAGA
Found at i:13798652 original size:45 final size:44
Alignment explanation
Indices: 13798543--13798652 Score: 107
Period size: 45 Copynumber: 2.4 Consensus size: 44
13798533 CAACTTAAGG
* * *
13798543 AAAATGAAAAAAAAAATGAAAGAAAGAGAAAATATGAAAAAGGGAA
1 AAAATG-AAAAAAAAA-GAAAGAAAAAGAAAAAATAAAAAAGGGAA
* *
13798589 AAAATGAAAGAAATAGAAA-AAAAAGAATAAAATAAAAGAAGGAGAA
1 AAAATGAAAAAAAAAGAAAGAAAAAGAA-AAAATAAAA-AAGG-GAA
*
13798635 GAAA-GAAAAAAAAAGAAA
1 AAAATGAAAAAAAAAGAAA
13798653 TGAATGATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
43 7 0.13
44 11 0.21
45 23 0.43
46 12 0.23
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (44 bp):
AAAATGAAAAAAAAAGAAAGAAAAAGAAAAAATAAAAAAGGGAA
Found at i:13800675 original size:31 final size:31
Alignment explanation
Indices: 13800640--13800761 Score: 122
Period size: 31 Copynumber: 3.9 Consensus size: 31
13800630 AAATCCAATC
*
13800640 TAGCTAGCATTGAGAAGAATTAAGCCTAGGT
1 TAGCTAGCATTGAGAAGAATTAAGCCTAGAT
* * *
13800671 TAGCTAGCACTGAGAAGAATTAAGCCAAGTT
1 TAGCTAGCATTGAGAAGAATTAAGCCTAGAT
* * * *
13800702 TAACTGGCATCGATGAA-AATTAAGCCCA-AT
1 TAGCTAGCATTGA-GAAGAATTAAGCCTAGAT
* *
13800732 CTAGCTGGCATTGAGAAAAATTAAGCCTAG
1 -TAGCTAGCATTGAGAAGAATTAAGCCTAG
13800762 CCTAATTGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
30 4 0.05
31 68 0.91
32 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
TAGCTAGCATTGAGAAGAATTAAGCCTAGAT
Found at i:13800797 original size:62 final size:61
Alignment explanation
Indices: 13800650--13800804 Score: 152
Period size: 62 Copynumber: 2.5 Consensus size: 61
13800640 TAGCTAGCAT
* * ** *
13800650 TGAGAAGAATTAAGCCTAGGT-TAGCTAGCACTGAGAAGAATTAAGCCAAGTTTAACTGGCA
1 TGAGAAGAATTAAGCCTA-GTCTAGCTGGCACTGAGAAAAATTAAGCCAAGCCTAACTGACA
* * * * *
13800711 TCGATGAA-AATTAAGCCCAATCTAGCTGGCATTGAGAAAAATTAAGCCTAGCCTAATTGACA
1 T-GA-GAAGAATTAAGCCTAGTCTAGCTGGCACTGAGAAAAATTAAGCCAAGCCTAACTGACA
* *
13800773 GTGAGAAGAATTAAGCTTAGTCTAGTTGGCAC
1 -TGAGAAGAATTAAGCCTAGTCTAGCTGGCAC
13800805 CAAAGAGACT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
61 5 0.07
62 65 0.88
63 4 0.05
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (61 bp):
TGAGAAGAATTAAGCCTAGTCTAGCTGGCACTGAGAAAAATTAAGCCAAGCCTAACTGACA
Found at i:13800818 original size:93 final size:93
Alignment explanation
Indices: 13800634--13800819 Score: 203
Period size: 93 Copynumber: 2.0 Consensus size: 93
13800624 GAAAATAAAT
* ** *
13800634 CCAATCTAGCTAGCATTGAGAAGAATTAAGCCTAGGTTAGCTAGCACTGAGAAGAATTAAGCCAA
1 CCAATCTAGCTAGCATTGAGAAAAATTAAGCCTAGCCTAACTAGCACTGAGAAGAATTAAGCCAA
* * * *
13800699 GTTTAACTGGCATCGATGAAAATTAAGC
66 GTCTAACTGGCACCAAAGAAAATTAAGC
* * * **
13800727 CCAATCTAGCTGGCATTGAGAAAAATTAAGCCTAGCCTAA-TTGACAGTGAGAAGAATTAAGCTT
1 CCAATCTAGCTAGCATTGAGAAAAATTAAGCCTAGCCTAACTAG-CACTGAGAAGAATTAAGCCA
** * *
13800791 AGTCTAGTTGGCACCAAAGAGACTTAAGC
65 AGTCTAACTGGCACCAAAGAAAATTAAGC
13800820 TTAGTTTAGC
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (93 bp):
CCAATCTAGCTAGCATTGAGAAAAATTAAGCCTAGCCTAACTAGCACTGAGAAGAATTAAGCCAA
GTCTAACTGGCACCAAAGAAAATTAAGC
Found at i:13800849 original size:31 final size:32
Alignment explanation
Indices: 13800781--13800931 Score: 121
Period size: 31 Copynumber: 4.8 Consensus size: 32
13800771 CAGTGAGAAG
* *
13800781 AATTAAGCTTAGTCTAGTTGGCACCAAA-GAG
1 AATTAAGCTTAGTTTAGTTGGCACCAAAGGAA
* * *
13800812 ACTTAAGCTTAGTTTAGCTGCCA-CAAAGGAA
1 AATTAAGCTTAGTTTAGTTGGCACCAAAGGAA
** * ** *
13800843 AATTAAGCCCAATTTAAATGGCATC-AAGGAA
1 AATTAAGCTTAGTTTAGTTGGCACCAAAGGAA
* * * *
13800874 AATTAAGCCTAATTTAGTTGGCA-CTAAGGAG
1 AATTAAGCTTAGTTTAGTTGGCACCAAAGGAA
**
13800905 AATTAAGCTTAGTTTACCTGGCACCAA
1 AATTAAGCTTAGTTTAGTTGGCACCAA
13800932 TGAGGATTAA
Statistics
Matches: 95, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
30 5 0.05
31 87 0.92
32 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (32 bp):
AATTAAGCTTAGTTTAGTTGGCACCAAAGGAA
Found at i:13800927 original size:62 final size:62
Alignment explanation
Indices: 13800779--13800931 Score: 144
Period size: 62 Copynumber: 2.5 Consensus size: 62
13800769 GACAGTGAGA
* ** * * * *
13800779 AGAATTAAGCTTAGTCTAGTTGGCACCAAAGAGACTTAAGCTTAGTTTAGCTGCCACAAAGG
1 AGAATTAAGCTTAGTTTAAATGGCACCAAAGAAAATTAAGCCTAATTTAGCTGCCACAAAGG
* ** * * * * * *
13800841 AAAATTAAGCCCAATTTAAATGGCATCAAGGAAAATTAAGCCTAATTTAGTTGGCACTAAGG
1 AGAATTAAGCTTAGTTTAAATGGCACCAAAGAAAATTAAGCCTAATTTAGCTGCCACAAAGG
**
13800903 AGAATTAAGCTTAGTTTACCTGGCACCAA
1 AGAATTAAGCTTAGTTTAAATGGCACCAA
13800932 TGAGGATTAA
Statistics
Matches: 68, Mismatches: 23, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
62 68 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (62 bp):
AGAATTAAGCTTAGTTTAAATGGCACCAAAGAAAATTAAGCCTAATTTAGCTGCCACAAAGG
Found at i:13801175 original size:20 final size:20
Alignment explanation
Indices: 13801150--13801192 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13801140 GAATGAAGTA
*
13801150 AAAATG-ATGAAAAAAATGGG
1 AAAATGAAT-AAAAAAATAGG
13801170 AAAATGAATAAAAAAATAGG
1 AAAATGAATAAAAAAATAGG
13801190 AAA
1 AAA
13801193 TGGAGGATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (20 bp):
AAAATGAATAAAAAAATAGG
Found at i:13801747 original size:49 final size:49
Alignment explanation
Indices: 13801694--13801982 Score: 208
Period size: 48 Copynumber: 5.8 Consensus size: 49
13801684 AAAAATTGAT
* *
13801694 ATTTTTAAAGTCACTTACCTTTGTCTATAGGAACACTTTCCAAAAAGAG
1 ATTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTTCCAAAAAGAG
* * ** *
13801743 ATTTTTAAAGTCACTTGCCTATGTTTATAAGAGTACTTTTC-AAAAGAG
1 ATTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTTCCAAAAAGAG
* * * * **
13801791 ATTTTTAAAGTCATTTGCCTATGTTTATAGGAGCACTTTTCAAATTGAG
1 ATTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTTCCAAAAAGAG
* * **
13801840 ATTTTTTAAAGTCACTTTG-TTATGTCTATA-AAAGCACTTTCCAAATTGAG
1 A-TTTTTAAAGTCAC-TTGCCTATGTCTATAGGAA-CACTTTCCAAAAAGAG
* * * * * **
13801890 ATTTTTTTAAAAGTGAAC-TGCTTATATCTATAGGAATACTTTTCAAATTGAG
1 A--TTTTT-AAAGT-CACTTGCCTATGTCTATAGGAACACTTTCCAAAAAGAG
* * * * *
13801942 ATTTTTTTAAAGTCGCCTGTCTAGGTTTATAGGAACACTTT
1 A--TTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTT
13801983 TTCCCATTAA
Statistics
Matches: 199, Mismatches: 31, Indels: 18
0.80 0.12 0.07
Matches are distributed among these distances:
48 45 0.23
49 41 0.21
50 38 0.19
51 34 0.17
52 37 0.19
53 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (49 bp):
ATTTTTAAAGTCACTTGCCTATGTCTATAGGAACACTTTCCAAAAAGAG
Found at i:13801876 original size:50 final size:50
Alignment explanation
Indices: 13801686--13801947 Score: 220
Period size: 48 Copynumber: 5.3 Consensus size: 50
13801676 TCAAGTCAAA
* ** *
13801686 AAATTGATATTTTTAAAGTCACTTACCTT-TGTCTATAGGAA-CACTTTCC
1 AAATTGAGATTTTTAAAGTCACTTTGCTTATGTCTATA-GAAGCACTTTTC
** * * *
13801735 AAAAAGAGATTTTTAAAGTCAC-TTGCCTATGTTTATA-AGAGTACTTTTC
1 AAATTGAGATTTTTAAAGTCACTTTGCTTATGTCTATAGA-AGCACTTTTC
* * * *
13801784 AAA-AGAGATTTTTAAAGTCA-TTTGCCTATGTTTATAGGAGCACTTTTC
1 AAATTGAGATTTTTAAAGTCACTTTGCTTATGTCTATAGAAGCACTTTTC
* *
13801832 AAATTGAGATTTTTTAAAGTCACTTTG-TTATGTCTATAAAAGCACTTTCC
1 AAATTGAGA-TTTTTAAAGTCACTTTGCTTATGTCTATAGAAGCACTTTTC
* * *
13801882 AAATTGAGATTTTTTTAAAAGTGAAC--TGCTTATATCTATAGGAA-TACTTTTC
1 AAATTGAGA--TTTTT-AAAGT-CACTTTGCTTATGTCTATA-GAAGCACTTTTC
13801934 AAATTGAGATTTTT
1 AAATTGAGATTTTT
13801948 TTAAAGTCGC
Statistics
Matches: 178, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
47 1 0.01
48 48 0.27
49 39 0.22
50 44 0.25
51 12 0.07
52 30 0.17
53 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (50 bp):
AAATTGAGATTTTTAAAGTCACTTTGCTTATGTCTATAGAAGCACTTTTC
Found at i:13801921 original size:52 final size:52
Alignment explanation
Indices: 13801822--13801952 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 52
13801812 TGTTTATAGG
* *
13801822 AGCACTTTTCAAATTGAGA-TTTTTT-AAAGTCACTTTGTTATGTCTATA-AA
1 AGCACTTTTCAAATTGAGATTTTTTTAAAAGTAAC-TTGTTATATCTATAGAA
* *
13801872 AGCACTTTCCAAATTGAGATTTTTTTAAAAGTGAAC-TGCTTATATCTATAGGA
1 AGCACTTTTCAAATTGAGATTTTTTTAAAAGT-AACTTG-TTATATCTATAGAA
*
13801925 A-TACTTTTCAAATTGAGATTTTTTTAAA
1 AGCACTTTTCAAATTGAGATTTTTTTAAA
13801953 GTCGCCTGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
50 18 0.26
51 8 0.11
52 40 0.57
53 4 0.06
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (52 bp):
AGCACTTTTCAAATTGAGATTTTTTTAAAAGTAACTTGTTATATCTATAGAA
Found at i:13801973 original size:51 final size:50
Alignment explanation
Indices: 13801686--13801983 Score: 259
Period size: 49 Copynumber: 6.0 Consensus size: 50
13801676 TCAAGTCAAA
* * * * *
13801686 AAATTGATA-TTTTTAAAGTCACTTACCTTTGTCTATAGGAACACTTTCC
1 AAATTGAGATTTTTTAAAGTCACTTGCCTATGTTTATAGGAACACTTTTC
** * **
13801735 AAAAAGAGA-TTTTTAAAGTCACTTGCCTATGTTTATAAGAGTACTTTTC
1 AAATTGAGATTTTTTAAAGTCACTTGCCTATGTTTATAGGAACACTTTTC
* * *
13801784 AAA-AGAGA-TTTTTAAAGTCATTTGCCTATGTTTATAGGAGCACTTTTC
1 AAATTGAGATTTTTTAAAGTCACTTGCCTATGTTTATAGGAACACTTTTC
* * * *
13801832 AAATTGAGATTTTTTAAAGTCACTTTG-TTATGTCTATA-AAAGCACTTTCC
1 AAATTGAGATTTTTTAAAGTCAC-TTGCCTATGTTTATAGGAA-CACTTTTC
* * * * *
13801882 AAATTGAGATTTTTTTAAAAGTGAAC-TGCTTATATCTATAGGAATACTTTTC
1 AAATTGAGA-TTTTTT-AAAGT-CACTTGCCTATGTTTATAGGAACACTTTTC
* * * *
13801934 AAATTGAGATTTTTTTAAAGTCGCCTGTCTAGGTTTATAGGAACACTTTT
1 AAATTGAGA-TTTTTTAAAGTCACTTGCCTATGTTTATAGGAACACTTTT
13801984 TCCCATTAAG
Statistics
Matches: 206, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
48 45 0.22
49 47 0.23
50 38 0.18
51 35 0.17
52 37 0.18
53 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (50 bp):
AAATTGAGATTTTTTAAAGTCACTTGCCTATGTTTATAGGAACACTTTTC
Found at i:13802408 original size:30 final size:30
Alignment explanation
Indices: 13802318--13802398 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
13802308 CCTAAATGCC
* *
13802318 CAAATGTCAAACTTGGTCAAATGTTGTCAAA
1 CAAA-GTCAAATTTGGTCAAATCTTGTCAAA
13802349 CAAAGTCAAATTTGGTCAAATCTTGTCAAA
1 CAAAGTCAAATTTGGTCAAATCTTGTCAAA
13802379 CAAAGTCAAATTTGGTCAAA
1 CAAAGTCAAATTTGGTCAAA
13802399 ATTAATCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 44 0.92
31 4 0.08
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (30 bp):
CAAAGTCAAATTTGGTCAAATCTTGTCAAA
Found at i:13803463 original size:21 final size:22
Alignment explanation
Indices: 13803439--13803485 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
13803429 TTTCTAGTTT
*
13803439 TTTTTCTTGCA-TTTCATAGCA
1 TTTTTATTGCATTTTCATAGCA
*
13803460 TTTTTATTGCATTTTCATATCA
1 TTTTTATTGCATTTTCATAGCA
13803482 TTTT
1 TTTT
13803486 CATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (22 bp):
TTTTTATTGCATTTTCATAGCA
Found at i:13803497 original size:11 final size:11
Alignment explanation
Indices: 13803450--13803495 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
13803440 TTTTCTTGCA
*
13803450 TTTCATAGCAT
1 TTTCATATCAT
*
13803461 TTTTAT-TGCAT
1 TTTCATAT-CAT
13803472 TTTCATATCAT
1 TTTCATATCAT
13803483 TTTCATAT-AT
1 TTTCATATCAT
13803493 TTT
1 TTT
13803496 TCTATTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 5 0.17
11 24 0.80
12 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.59
Consensus pattern (11 bp):
TTTCATATCAT
Found at i:13804376 original size:49 final size:49
Alignment explanation
Indices: 13804304--13804399 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
13804294 AAGCATTTTT
*
13804304 CATGCATCAATGTTTACATTTTTACAAATGATATTTTTGTTATTTGTCA
1 CATGCATCAATATTTACATTTTTACAAATGATATTTTTGTTATTTGTCA
* *
13804353 CATGCATCAATATTTACATTTTTACCAATGGTATTTTTGTTATTTGT
1 CATGCATCAATATTTACATTTTTACAAATGATATTTTTGTTATTTGT
13804400 TTTTATCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (49 bp):
CATGCATCAATATTTACATTTTTACAAATGATATTTTTGTTATTTGTCA
Found at i:13804529 original size:20 final size:20
Alignment explanation
Indices: 13804486--13804570 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
13804476 AACCCTCAAC
* * **
13804486 TAAACCCCAAACTTTAACCC
1 TAAACCCCAAACCTAAACTA
13804506 TAAACCCCAAACCTAAACTA
1 TAAACCCCAAACCTAAACTA
* * * *
13804526 TAAACCCTATACCTTAACTT
1 TAAACCCCAAACCTAAACTA
*
13804546 TAAACCCTAAATCCTAAAC-A
1 TAAACCCCAAA-CCTAAACTA
13804566 TAAAC
1 TAAAC
13804571 TAGGGGTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.89
21 6 0.11
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (20 bp):
TAAACCCCAAACCTAAACTA
Found at i:13805115 original size:26 final size:26
Alignment explanation
Indices: 13805085--13805161 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
13805075 TATGAACACC
13805085 CCTAACCTAAACCCTAAA-CGCTAAGA-
1 CCTAACCTAAACCCTAAATC-CTAA-AT
13805111 CCTAATCCTAAA-CCTAAATCCTAAAT
1 CCTAA-CCTAAACCCTAAATCCTAAAT
*
13805137 CCTAAATCTAAACCCT-AATCCTAAA
1 CCT-AACCTAAACCCTAAATCCTAAA
13805162 CCCTTAAACC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
25 1 0.02
26 32 0.71
27 12 0.27
ACGTcount: A:0.43, C:0.32, G:0.03, T:0.22
Consensus pattern (26 bp):
CCTAACCTAAACCCTAAATCCTAAAT
Found at i:13805126 original size:33 final size:32
Alignment explanation
Indices: 13805084--13805188 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 32
13805074 ATATGAACAC
13805084 CCCT-AACCTAAACCCTAAACGCTAAGACCT-AA
1 CCCTAAACCTAAACCCTAAAC-CTAA-ACCTAAA
* * *
13805116 TCCTAAACCTAAATCCTAAATCCTAAATCTAAA
1 CCCTAAACCTAAACCCTAAA-CCTAAACCTAAA
*
13805149 CCCTAATCCTAAACCCTTAAACCCTAAA-CTAAA
1 CCCTAAACCTAAACCC-TAAA-CCTAAACCTAAA
13805182 CCCTAAA
1 CCCTAAA
13805189 ACCCTAACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
32 6 0.10
33 44 0.72
34 11 0.18
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (32 bp):
CCCTAAACCTAAACCCTAAACCTAAACCTAAA
Found at i:13805182 original size:20 final size:20
Alignment explanation
Indices: 13805145--13805199 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13805135 ATCCTAAATC
*
13805145 TAAACCCTAATCCTAAACCCT
1 TAAACCCTAA-ACTAAACCCT
13805166 TAAACCCTAAACTAAACCCT
1 TAAACCCTAAACTAAACCCT
*
13805186 AAAACCCT-AACTAA
1 TAAACCCTAAACTAA
13805200 GACCTCAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.19
20 16 0.50
21 10 0.31
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACTAAACCCT
Found at i:13805194 original size:8 final size:7
Alignment explanation
Indices: 13805090--13805195 Score: 82
Period size: 7 Copynumber: 15.7 Consensus size: 7
13805080 ACACCCCTAA
13805090 CCTAAAC
1 CCTAAAC
13805097 CCTAAAC
1 CCTAAAC
*
13805104 GCTAAGA-
1 CCTAA-AC
*
13805111 CCT-AAT
1 CCTAAAC
13805117 CCTAAA-
1 CCTAAAC
*
13805123 CCTAAAT
1 CCTAAAC
*
13805130 CCTAAAT
1 CCTAAAC
13805137 CCTAAA-
1 CCTAAAC
*
13805143 TCTAAAC
1 CCTAAAC
*
13805150 CCT-AAT
1 CCTAAAC
13805156 CCTAAAC
1 CCTAAAC
13805163 CCTTAAAC
1 CC-TAAAC
13805171 CCTAAA-
1 CCTAAAC
13805177 -CTAAAC
1 CCTAAAC
13805183 CCTAAAAC
1 CCT-AAAC
13805191 CCTAA
1 CCTAA
13805196 CTAAGACCTC
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
5 6 0.07
6 20 0.24
7 42 0.51
8 15 0.18
ACGTcount: A:0.43, C:0.34, G:0.02, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:13809781 original size:37 final size:37
Alignment explanation
Indices: 13809717--13809787 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
13809707 AATTTTATAA
** *
13809717 GTAATAATATTAAATAAATGTATTTTATATTTTAAGT
1 GTAATAATATTAAATAAAAATACTTTATATTTTAAGT
* *
13809754 GTAATAATATTAAGTAAAAATACTTTATGTTTTA
1 GTAATAATATTAAATAAAAATACTTTATATTTTA
13809788 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (37 bp):
GTAATAATATTAAATAAAAATACTTTATATTTTAAGT
Found at i:13809906 original size:71 final size:70
Alignment explanation
Indices: 13809831--13810019 Score: 182
Period size: 72 Copynumber: 2.6 Consensus size: 70
13809821 TTTTTTATTT
* * * * *
13809831 TAAAAGAACGATCTTTGTTAAAATTTTAAATTTTGAAAATAAAGTTTCAACATCCATTGCGTTTC
1 TAAAA-AATGATCTTTGTTAAAATTTTAAATTTTGAAAATAAAGTTTCAACATCCACTACATATC
**
13809896 TTGTCA
65 TTAACA
* * * * * *
13809902 TAAAAATGTGTTTTTTATTTAAAATTTTGAATTTTTAAAATAAAGTTTCAACATCCACTACATAT
1 TAAAAA-ATGATCTTT-GTTAAAATTTTAAATTTTGAAAATAAAGTTTCAACATCCACTACATAT
*
13809967 CTTAACT
64 CTTAACA
* *
13809974 TAAAAAATGATCTTTGTTAGAGTTTTAGAA-TTTGAAAAATAAAGTT
1 TAAAAAATGATCTTTGTTAAAATTTTA-AATTTTG-AAAATAAAGTT
13810020 GAATGTGGGT
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
70 12 0.13
71 29 0.32
72 51 0.55
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (70 bp):
TAAAAAATGATCTTTGTTAAAATTTTAAATTTTGAAAATAAAGTTTCAACATCCACTACATATCT
TAACA
Found at i:13810161 original size:72 final size:73
Alignment explanation
Indices: 13810055--13810247 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 73
13810045 ACATTTATTA
* * * *
13810055 CATTTTTTATCTTAAAAACACAATCTTTATTAAAATTTTAGAAATTT-GAAAATAAAGTTTCAAC
1 CATTTATTATCTTAAAAACACGATATTTGTTAAAATTTTAGAAATTTCGAAAATAAAGTTTCAAC
13810119 AT-TCACTG
66 ATCT-ACTG
* *
13810127 CATTTGTTATCTTAAAAACGCGATATTTGTTAAAATTTTAG-AATTTCGAAAATAAAGTTTCAAC
1 CATTTATTATCTTAAAAACACGATATTTGTTAAAATTTTAGAAATTTCGAAAATAAAGTTTCAAC
13810191 ATCTACTG
66 ATCTACTG
** * * * *
13810199 TGTTTATTATTTTAAAAACATGATATTTGCTAAAATTTCAG-AATTTCGA
1 CATTTATTATCTTAAAAACACGATATTTGTTAAAATTTTAGAAATTTCGA
13810248 TATTATAGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
71 5 0.05
72 100 0.94
73 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (73 bp):
CATTTATTATCTTAAAAACACGATATTTGTTAAAATTTTAGAAATTTCGAAAATAAAGTTTCAAC
ATCTACTG
Found at i:13810758 original size:12 final size:13
Alignment explanation
Indices: 13810740--13810769 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
13810730 TAATAAAAAT
13810740 TAATATTAAATAA
1 TAATATTAAATAA
13810753 -AATATTAAATAA
1 TAATATTAAATAA
13810765 TAATA
1 TAATA
13810770 CATTAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TAATATTAAATAA
Found at i:13812290 original size:3 final size:3
Alignment explanation
Indices: 13812278--13812337 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
13812268 AATAAAACTT
13812278 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13812325 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
13812338 AGATGAAAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13813803 original size:24 final size:24
Alignment explanation
Indices: 13813776--13813826 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
13813766 TCATGAGGTG
* *
13813776 ATAACCTCCACAATGGCAAGTGAA
1 ATAACCTCCACAATGACAAGCGAA
**
13813800 ATAACCTCCGTAATGACAAGCGAA
1 ATAACCTCCACAATGACAAGCGAA
13813824 ATA
1 ATA
13813827 CTTCTACTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (24 bp):
ATAACCTCCACAATGACAAGCGAA
Found at i:13816711 original size:15 final size:17
Alignment explanation
Indices: 13816691--13816725 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
13816681 ATTTTGCCTA
13816691 TTTTTC-TTTCTTT-TT
1 TTTTTCTTTTCTTTGTT
13816706 TTTTTCTTTTCTTTGTT
1 TTTTTCTTTTCTTTGTT
13816723 TTT
1 TTT
13816726 CCTCCACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 7 0.39
17 5 0.28
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTCTTTTCTTTGTT
Found at i:13826593 original size:44 final size:44
Alignment explanation
Indices: 13826522--13826606 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
13826512 TGCCGCATAA
* * * * *
13826522 AAAGTTGGTGTATGAATAGTGATTATGATGCCAAAATAAAGTAT
1 AAAGCTGGTGTATGAACAGTAAATATGATGCCAAAACAAAGTAT
*
13826566 AAAGCTGGTGTGTGAACAGTAAATATGATGCCAAAACAAAG
1 AAAGCTGGTGTATGAACAGTAAATATGATGCCAAAACAAAG
13826607 CATTCTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (44 bp):
AAAGCTGGTGTATGAACAGTAAATATGATGCCAAAACAAAGTAT
Found at i:13832486 original size:12 final size:12
Alignment explanation
Indices: 13832469--13832510 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
13832459 AGTGCTTTGC
*
13832469 AAAAAAAATACA
1 AAAAAAAATAGA
13832481 AAAAAAAA-AGA
1 AAAAAAAATAGA
* *
13832492 TAAAAAGATAGA
1 AAAAAAAATAGA
13832504 AAAAAAA
1 AAAAAAA
13832511 TTTCTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAAATAGA
Found at i:13834712 original size:32 final size:31
Alignment explanation
Indices: 13834658--13834731 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
13834648 GTATCACTTG
* *
13834658 CATTCGCACTTACATGTGCATCATGAGAA-AGA
1 CATTCGCA-TTACATCTACATCATGA-AAGAGA
13834690 CATTCGCATTGACATCTACATCATGAAAGAGA
1 CATTCGCATT-ACATCTACATCATGAAAGAGA
*
13834722 CATTTGCATT
1 CATTCGCATT
13834732 TGCATCACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (31 bp):
CATTCGCATTACATCTACATCATGAAAGAGA
Found at i:13835442 original size:104 final size:104
Alignment explanation
Indices: 13835321--13835561 Score: 261
Period size: 104 Copynumber: 2.3 Consensus size: 104
13835311 CTCAAATCTT
* * * * * *
13835321 TAAGACCTCCATGCATAATTTGTAAGA-CTTTCAAACAAAATATTTTAAATTTTTAAAGTTTTAA
1 TAAGACCTCTATGCATAATTTCTAAGACCTCT-AAACAAAACATTTTAAATTTTCAAAGTTTCAA
* * *
13835385 CACCTTTTATATGAGGAACATTCAAAGATATTGAGATTTA
65 CACCTCTAATATGAGGAACACTCAAAGATATTGAGATTTA
* * ** * *
13835425 TAAGACCTCTA-GACATAATTTTTAATACCTCTAGGCATAACATTTTAAGTTTTCAAAGTTTCAA
1 TAAGACCTCTATG-CATAATTTCTAAGACCTCTAAACAAAACATTTTAAATTTTCAAAGTTTCAA
** * *
13835489 TTCCTCTAATATGAGGAGCACTCAAAGATGTTGAGATTTA
65 CACCTCTAATATGAGGAACACTCAAAGATATTGAGATTTA
* *
13835529 TAAAACCTCTATGCATAATCTCTAAGACCTCTA
1 TAAGACCTCTATGCATAATTTCTAAGACCTCTA
13835562 GGCATAATTA
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
103 1 0.01
104 107 0.96
105 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (104 bp):
TAAGACCTCTATGCATAATTTCTAAGACCTCTAAACAAAACATTTTAAATTTTCAAAGTTTCAAC
ACCTCTAATATGAGGAACACTCAAAGATATTGAGATTTA
Found at i:13835469 original size:24 final size:22
Alignment explanation
Indices: 13835420--13835473 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
13835410 AGATATTGAG
*
13835420 ATTTATAAGACCTCTAGACATA
1 ATTTTTAAGACCTCTAGACATA
* *
13835442 ATTTTTAATACCTCTAGGCATA
1 ATTTTTAAGACCTCTAGACATA
*
13835464 ACATTTTAAG
1 A-TTTTTAAG
13835474 TTTTCAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (22 bp):
ATTTTTAAGACCTCTAGACATA
Found at i:13835576 original size:22 final size:22
Alignment explanation
Indices: 13835533--13835587 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
13835523 GATTTATAAA
*
13835533 ACCTCTATGCATAATCTCTAAG
1 ACCTCTAGGCATAATCTCTAAG
*
13835555 ACCTCTAGGCATAAT-TATTAAG
1 ACCTCTAGGCATAATCT-CTAAG
*
13835577 ACCTCCAGGCA
1 ACCTCTAGGCA
13835588 AAACATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (22 bp):
ACCTCTAGGCATAATCTCTAAG
Found at i:13835598 original size:126 final size:126
Alignment explanation
Indices: 13835425--13835663 Score: 352
Period size: 126 Copynumber: 1.9 Consensus size: 126
13835415 TTGAGATTTA
* * * *
13835425 TAAGACCTCTAGACATAATTTTTAATACCTCTAGGCATAACATTTTAAGTTTTCAAAGTTTCAAT
1 TAAGACCTCTAGACATAATTATTAAGACCTCCAGGCAAAACATTTTAAGTTTTCAAAGTTTCAAT
* * * *
13835490 TCCTCTAATATGAGGAGCACTCAAAGATGTTGAGATTTATAAAACCTCTATGCATAATCTC
66 GCCTCTAAGATGAGAAGCACTCAAAAATGTTGAGATTTATAAAACCTCTATGCATAATCTC
* *
13835551 TAAGACCTCTAGGCATAATTATTAAGACCTCCAGGCAAAACATTTTAAGTTTTCAAAGTTTTAAT
1 TAAGACCTCTAGACATAATTATTAAGACCTCCAGGCAAAACATTTTAAGTTTTCAAAGTTTCAAT
* * * *
13835616 GCCTCTGAGATGAGAAGCATTCAAAAATGTTGAGATTTGTAAGACCTC
66 GCCTCTAAGATGAGAAGCACTCAAAAATGTTGAGATTTATAAAACCTC
13835664 CGGATGTAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 99 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (126 bp):
TAAGACCTCTAGACATAATTATTAAGACCTCCAGGCAAAACATTTTAAGTTTTCAAAGTTTCAAT
GCCTCTAAGATGAGAAGCACTCAAAAATGTTGAGATTTATAAAACCTCTATGCATAATCTC
Found at i:13837273 original size:14 final size:14
Alignment explanation
Indices: 13837254--13837287 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13837244 TCAGGTAAAT
*
13837254 TTTTTATTTTTTTA
1 TTTTTATTTTATTA
13837268 TTTTTATTTTATTA
1 TTTTTATTTTATTA
13837282 TTTTTA
1 TTTTTA
13837288 GAATTTATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTTATTA
Found at i:13837974 original size:208 final size:206
Alignment explanation
Indices: 13837615--13837998 Score: 448
Period size: 208 Copynumber: 1.9 Consensus size: 206
13837605 AAAAATATAA
* * *
13837615 GAAAAAAAATTTTTATCTAATGACAAGATACAAAAGTATTCTGAGTAGTAATGCTTATGAAATCT
1 GAAAAAAAATTTTTATCCAATGACAAGATACAAAAGTATTCTAAGTAGTAATGCTTACGAAATCT
* * * * * * *
13837680 TTAGGTGAAAAGATTTTTTTTAAATACTATCAATGTATTTGAGTATTTACAAAAGGTTTTTAATG
66 TTAGATGAAAAGATTTTTTTTAAATACTACCAATGTATTGGACTATTTACAAAAAGTTTTCAATA
* * ** *
13837745 CAGTTAAATTTTCTTTTTTTTTTCTATAAA-AATAAAAATAAAAATTAACTAATTTGTCAAAAAT
131 CAATAAAAACTTC-TCTTTTTTTC-A-AAACAATAAAAATAAAAATTAACTAATTTGTCAAAAAT
13837809 AATGAAATATGAGG
193 AATGAAATATGAGG
* * * *** * * *
13837823 GAAAAAAATTTTTTATCCGATGACGAGATTTTAAAGTATTTTAAGTAGTGATGCTTTACGAAATT
1 GAAAAAAAATTTTTATCCAATGACAAGATACAAAAGTATTCTAAGTAGTAATGC-TTACGAAATC
* * * *
13837888 TTTAGATGAGAAGA-TTTTTTTAAATACTACCAGTGTATTGGACTTTTTATAAAAAGTTTTCAAT
65 TTTAGATGAAAAGATTTTTTTTAAATACTACCAATGTATTGGACTATTTACAAAAAGTTTTCAAT
* *
13837952 ATAATAAAAACTTCTCTTTTTTTCAAAACAATAACAATAAAAATTAA
130 ACAATAAAAACTTCTCTTTTTTTCAAAACAATAAAAATAAAAATTAA
13837999 AAAAAAAAAC
Statistics
Matches: 144, Mismatches: 30, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
205 3 0.02
206 18 0.12
207 9 0.06
208 94 0.65
209 20 0.14
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (206 bp):
GAAAAAAAATTTTTATCCAATGACAAGATACAAAAGTATTCTAAGTAGTAATGCTTACGAAATCT
TTAGATGAAAAGATTTTTTTTAAATACTACCAATGTATTGGACTATTTACAAAAAGTTTTCAATA
CAATAAAAACTTCTCTTTTTTTCAAAACAATAAAAATAAAAATTAACTAATTTGTCAAAAATAAT
GAAATATGAGG
Found at i:13843922 original size:40 final size:40
Alignment explanation
Indices: 13843752--13843918 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 40
13843742 TTTTTTTTTG
* **
13843752 TTTTTAAC-AAAACTATGTTTTTATCTTTA-AAATTTTC-TC
1 TTTTCAACAAAAACTATGTTTTTATC-TTAGAAA-CATCGTC
* * *
13843791 TTTTCAACAAAAATTATATTTTTATCTTAGAAACATTGTC
1 TTTTCAACAAAAACTATGTTTTTATCTTAGAAACATCGTC
* ** *** *
13843831 TTTTCAACAAATACTGCAT-TTTCCATCTTAGAAGTGTCGTT
1 TTTTCAACAAAAACT--ATGTTTTTATCTTAGAAACATCGTC
* *
13843872 TTTTCAATAAAAACTATGTTTTTATCTTAGAAACATCATC
1 TTTTCAACAAAAACTATGTTTTTATCTTAGAAACATCGTC
13843912 TTTTCAA
1 TTTTCAA
13843919 TAAAGATTGC
Statistics
Matches: 98, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
39 13 0.13
40 55 0.56
41 28 0.29
42 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (40 bp):
TTTTCAACAAAAACTATGTTTTTATCTTAGAAACATCGTC
Done.