Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008436.1 Hibiscus syriacus cultivar Beakdansim tig00111234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1066897
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 4 of 4
Found at i:915735 original size:59 final size:59
Alignment explanation
Indices: 915645--915807 Score: 254
Period size: 59 Copynumber: 2.7 Consensus size: 59
915635 CTTTCTTACG
* *
915645 TATTATTAAATCATTAGTATCAAATCATTAAATATTAATAATAAATTATTATTAGTAAT
1 TATTACTAAATCATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAAT
915704 TATTACTAAATCATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAAT
1 TATTACTAAATCATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAAT
* * * * *
915763 CATTACTAAATTATTAAATGTCAAAGCATTAAATATTAATAATAA
1 TATTACTAAATCATT-AGTATCAAATCATTAAATATTAATAATAA
915808 TAAAATTAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
59 70 0.73
60 26 0.27
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTACTAAATCATTAGTATCAAATCATTAAATATTAATAATAAATCATTATTAGTAAT
Found at i:915886 original size:37 final size:37
Alignment explanation
Indices: 915845--915937 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
915835 TAGATCTATT
915845 TAAAATTTGATCCGATATAATCGATTAACATATTAGA
1 TAAAATTTGATCCGATATAATCGATTAACATATTAGA
*
915882 TAAAATTCGATCCGATATAATCGATTAACATATTAGA
1 TAAAATTTGATCCGATATAATCGATTAACATATTAGA
*
915919 TAAAA-TTGATCTGATATAA
1 TAAAATTTGATCCGATATAA
915938 AGATCACTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 12 0.23
37 41 0.77
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (37 bp):
TAAAATTTGATCCGATATAATCGATTAACATATTAGA
Found at i:923727 original size:33 final size:33
Alignment explanation
Indices: 923690--923753 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
923680 GGCGATCTTC
* * *
923690 ACAGCATGTTTCGACAGCATCTTCTTCGTTTGA
1 ACAGCATGTTTAGACAACATCTCCTTCGTTTGA
* *
923723 ACAGCTTGTTTAGACAATATCTCCTTCGTTT
1 ACAGCATGTTTAGACAACATCTCCTTCGTTT
923754 TCGCTACTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (33 bp):
ACAGCATGTTTAGACAACATCTCCTTCGTTTGA
Found at i:926250 original size:20 final size:20
Alignment explanation
Indices: 926189--926557 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
926179 GATTTTCCAT
* ** *
926189 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
926209 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
926229 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
926249 AATCGCAACATGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
926269 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
926289 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
926309 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
926329 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
926349 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
926369 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
926389 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
926409 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
926429 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
926449 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
926469 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
926489 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
926509 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
926529 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
926549 AATCACAAC
1 AATCGCAAC
926558 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:927270 original size:24 final size:24
Alignment explanation
Indices: 927231--927277 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
927221 AAATTTGGTC
927231 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
927255 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
927278 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:927469 original size:12 final size:12
Alignment explanation
Indices: 927452--927476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
927442 ATATAATCCT
927452 GAAGAAGAAAAA
1 GAAGAAGAAAAA
927464 GAAGAAGAAAAA
1 GAAGAAGAAAAA
927476 G
1 G
927477 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:929805 original size:19 final size:19
Alignment explanation
Indices: 929783--930090 Score: 351
Period size: 19 Copynumber: 17.4 Consensus size: 19
929773 CGGAAAATAC
*
929783 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
929802 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
929816 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
929836 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
929850 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
929869 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
929888 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
929902 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
929921 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
929940 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
929954 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
929973 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
929992 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
930011 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
930030 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
930044 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
930064 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
930083 AATCGCAA
1 AATCGCAA
930091 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 54
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 12 0.05
17 18 0.07
18 6 0.02
19 140 0.56
20 24 0.10
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:929870 original size:33 final size:34
Alignment explanation
Indices: 929783--930112 Score: 276
Period size: 33 Copynumber: 9.5 Consensus size: 34
929773 CGGAAAATAC
* *
929783 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
929816 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
929850 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
929888 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
929921 AATCGCAATGCGAAATGAAAATCG-AACCGA-CAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGATGAA
*
929954 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--ATGAA
929992 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
930030 AATCGCAA--CGAAA-G--AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--ATGAA
*
930064 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
930097 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
930113 TATAAACGCA
Statistics
Matches: 257, Mismatches: 14, Indels: 52
0.80 0.04 0.16
Matches are distributed among these distances:
33 108 0.42
34 48 0.19
35 9 0.04
36 17 0.07
37 8 0.03
38 59 0.23
39 8 0.03
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:929898 original size:52 final size:53
Alignment explanation
Indices: 929811--930090 Score: 351
Period size: 52 Copynumber: 5.2 Consensus size: 53
929801 AAATCCCAAC
*
929811 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
929864 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
929916 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
929968 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
930025 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-G--A-GAAAATCGCAATGCGAA
930078 ATGAAAATCGCAA
1 ATGAAAATCGCAA
930091 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 121 0.57
53 53 0.25
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:929934 original size:71 final size:71
Alignment explanation
Indices: 929850--930090 Score: 348
Period size: 71 Copynumber: 3.4 Consensus size: 71
929840 GCAACGAGAG
*
929850 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
929915 AATGAA
66 AATGAA
* * *
929921 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
929981 TACGAAATGAA
61 TGCGAAATGAA
929992 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC-G
930057 AAATGAA
65 AAATGAA
930064 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
930091 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 78 0.52
72 37 0.25
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:930228 original size:19 final size:19
Alignment explanation
Indices: 930119--930220 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
930109 AAATTATAAA
930119 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
930138 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
930158 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
930174 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
930191 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
930210 CGCATTGCGAT
1 CGCATTGCGAT
930221 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:930346 original size:14 final size:14
Alignment explanation
Indices: 930327--930363 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
930317 CATCAATTAC
930327 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
930341 ACAAATCATCTTTT
1 ACAAATCAACTTTT
930355 ACAAATCAA
1 ACAAATCAA
930364 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:930375 original size:12 final size:12
Alignment explanation
Indices: 930358--930430 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
930348 ATCTTTTACA
930358 AATCAATTAAAC
1 AATCAATTAAAC
*
930370 AATCAA--AAATTG
1 AATCAATTAAA--C
**
930382 AATCAACTTTTAC
1 AATCAA-TTAAAC
930395 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
930408 AATCAA-AAAAC
1 AATCAATTAAAC
930419 AATCAATTAAAC
1 AATCAATTAAAC
930431 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:930392 original size:38 final size:38
Alignment explanation
Indices: 930344--930416 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
930334 AACTTTTACA
*
930344 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
930382 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
930417 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:932272 original size:19 final size:19
Alignment explanation
Indices: 932232--932347 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
932222 TAGTTTACTT
* *
932232 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
932252 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
932271 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
932285 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
932304 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
932318 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
932337 TCGCAATGCGA
1 TCGCAACGCGA
932348 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 21
0.76 0.05 0.20
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 11 0.14
19 31 0.38
20 12 0.15
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:932288 original size:14 final size:14
Alignment explanation
Indices: 932269--932325 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
932259 GCGAAATGAA
*
932269 AATCGCAACGACAG
1 AATCGCAACGAAAG
932283 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
932300 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
932316 AATCGCAACG
1 AATCGCAACG
932326 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:932296 original size:33 final size:33
Alignment explanation
Indices: 932250--932342 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
932240 CGAAACTTAA
*
932250 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
932283 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
932316 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
932343 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:932365 original size:19 final size:19
Alignment explanation
Indices: 932343--932471 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
932333 AAAATCGCAA
932343 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
932362 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
932376 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
932395 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
932409 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
932428 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
932447 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
932467 TGCGA
1 TGCGA
932472 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:932385 original size:33 final size:33
Alignment explanation
Indices: 932343--932434 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
932333 AAAATCGCAA
932343 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
932376 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
932409 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
932435 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:932674 original size:93 final size:93
Alignment explanation
Indices: 932515--932894 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
932505 TTGAATGGAT
932515 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932580 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
932608 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932673 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
932701 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932765 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
932793 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932858 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
932886 AAATTTACT
1 AAATTTACT
932895 AAGCAATCTA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:932828 original size:185 final size:186
Alignment explanation
Indices: 932515--932894 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
932505 TTGAATGGAT
932515 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932580 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
932645 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
932701 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
932765 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
932830 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
932886 AAATTTACT
1 AAATTTACT
932895 AAGCAATCTA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:934619 original size:14 final size:14
Alignment explanation
Indices: 934600--934689 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
934590 TTGAAATGAA
934600 AATCGCAACGAGAG
1 AATCGCAACGAGAG
934614 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
934631 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
934647 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
934666 AATCGCAACGAGAG
1 AATCGCAACGAGAG
934680 AATCGCAACG
1 AATCGCAACG
934690 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:934637 original size:33 final size:33
Alignment explanation
Indices: 934592--934706 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
934582 TCTTTTGGTT
934592 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
934625 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
934658 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
934691 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
934707 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:934638 original size:19 final size:18
Alignment explanation
Indices: 934599--934711 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
934589 GTTGAAATGA
934599 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
934614 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
934631 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
934647 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
934664 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
934680 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
934697 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
934712 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:934742 original size:14 final size:14
Alignment explanation
Indices: 934723--934777 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
934713 TTTGGTTTCG
934723 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
934737 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
934756 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
934770 CGTTGCGA
1 CGTTGCGA
934778 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:934940 original size:33 final size:33
Alignment explanation
Indices: 934898--934968 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
934888 AATACTAACT
*
934898 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
934931 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
934964 TGAAA
1 TGAAA
934969 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:935201 original size:22 final size:22
Alignment explanation
Indices: 935149--935203 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
935139 TGGTTGTGAG
**
935149 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
935171 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
935193 GGATTTCTTCG
1 GGATTTCTTCG
935204 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:935374 original size:20 final size:20
Alignment explanation
Indices: 935349--935541 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
935339 CTTTAAATAT
935349 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
935369 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
935391 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
935410 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
935430 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
935450 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
935470 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
935490 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
935510 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
935530 CGCGTTGCGATT
1 CGCGTTGCGATT
935542 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:935536 original size:60 final size:60
Alignment explanation
Indices: 935349--935541 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
935339 CTTTAAATAT
**
935349 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
935410 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
935470 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
935530 CGCGTTGCGATT
1 CGCGTTGCGATT
935542 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:935622 original size:20 final size:20
Alignment explanation
Indices: 935597--935648 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
935587 AAGAATCGCG
*
935597 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
935617 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
935637 TTGCGATTCTGG
1 TTGCGATTCTGG
935649 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:966999 original size:29 final size:29
Alignment explanation
Indices: 966965--967023 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
966955 CCTAAATTAA
966965 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
966994 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
967023 T
1 T
967024 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:970942 original size:2 final size:2
Alignment explanation
Indices: 970929--970978 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
970919 AAATCATAAC
*
970929 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
970971 AT AT AT AT
1 AT AT AT AT
970979 TCCATCTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:972647 original size:35 final size:35
Alignment explanation
Indices: 972569--972648 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
972559 ATTTAAATAC
* *
972569 AACAAACTTACAATAAGAATTAAATGGTAAATGAT
1 AACAAAATTACAATAAGAATTAAATGGTAAATCAT
*
972604 AACCAAATTACAATAACTGATATTAAATGGT-AA-CA-
1 AACAAAATTACAATAA--GA-ATTAAATGGTAAATCAT
972639 AACAAAATTA
1 AACAAAATTA
972649 ACTAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
35 23 0.61
36 1 0.03
37 4 0.11
38 10 0.26
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (35 bp):
AACAAAATTACAATAAGAATTAAATGGTAAATCAT
Found at i:972888 original size:18 final size:19
Alignment explanation
Indices: 972862--972902 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
972852 ACTCCTCGCT
* *
972862 GTCATCATCGTCGTCG-TC
1 GTCACCATCGTCATCGTTC
972880 GTCACCATCGTCATCGTTC
1 GTCACCATCGTCATCGTTC
972899 GTCA
1 GTCA
972903 TCGTCGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.15, C:0.34, G:0.20, T:0.32
Consensus pattern (19 bp):
GTCACCATCGTCATCGTTC
Found at i:972909 original size:9 final size:9
Alignment explanation
Indices: 972862--972909 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
972852 ACTCCTCGCT
*
972862 GTCATCATC
1 GTCATCGTC
*
972871 GTCGTCGTC
1 GTCATCGTC
* *
972880 GTCACCATC
1 GTCATCGTC
972889 GTCATCGTTC
1 GTCATCG-TC
972899 GTCATCGTC
1 GTCATCGTC
972908 GT
1 GT
972910 TGTCCTGAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.12, C:0.33, G:0.21, T:0.33
Consensus pattern (9 bp):
GTCATCGTC
Found at i:974557 original size:50 final size:50
Alignment explanation
Indices: 974453--974558 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
974443 CTACAATGAT
* * * * * *
974453 CAGGGGGCGCGCTATACCCACGTGGCGCCAGATCACCGTATATCGCGGGG
1 CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAACATATAACGCGAGA
* * *
974503 CAGGGGGCGCGTTATACCCACGTGGCGCTAAATCAACATATAACGCGATA
1 CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAACATATAACGCGAGA
974553 CAGGGG
1 CAGGGG
974559 TGTGCTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.28, G:0.33, T:0.15
Consensus pattern (50 bp):
CAGGGGGCGCGCTATACCCACGTGGCGCCAAATCAACATATAACGCGAGA
Found at i:976440 original size:2 final size:2
Alignment explanation
Indices: 976433--976481 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
976423 GGTGCTTAAC
976433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
976475 TA TA TA T
1 TA TA TA T
976482 CAGATTCTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:978316 original size:2 final size:2
Alignment explanation
Indices: 978309--978345 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
978299 GGTGCTTAAC
978309 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
978346 CAGATTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:979867 original size:2 final size:2
Alignment explanation
Indices: 979862--979947 Score: 140
Period size: 2 Copynumber: 44.0 Consensus size: 2
979852 GAAATTTTGA
979862 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
979904 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT TT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
979944 AT AT
1 AT AT
979948 CAATATCGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
1 2 0.03
2 76 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:984927 original size:3 final size:3
Alignment explanation
Indices: 984919--984964 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
984909 AATATAAATT
*
984919 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
984965 GGATAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:989882 original size:32 final size:31
Alignment explanation
Indices: 989846--989907 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
989836 AGTAATACAT
* * * *
989846 TTTGATAAGTTTACGGATTATTTTCATAATAA
1 TTTGATAAATTTAAGGACTAATTT-ATAATAA
989878 TTTGATAAATTTAAGGACTAATTTATAATA
1 TTTGATAAATTTAAGGACTAATTTATAATA
989908 TTTAAAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTGATAAATTTAAGGACTAATTTATAATAA
Found at i:1003040 original size:17 final size:17
Alignment explanation
Indices: 1003016--1003048 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1003006 AAATTTTGGA
1003016 ATATTTATA-TAAATTT
1 ATATTTATATTAAATTT
1003032 ATATATTATATTAAATT
1 ATAT-TTATATTAAATT
1003049 AAAATTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTATATTAAATTT
Found at i:1010267 original size:2 final size:2
Alignment explanation
Indices: 1010260--1010284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1010250 GAAAATCCAA
1010260 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
1010285 ACTCACACGG
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:1031941 original size:31 final size:31
Alignment explanation
Indices: 1031900--1031970 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
1031890 TAAGTAATAT
* *
1031900 AAAATAGTCAATAAATTTAAGAAATTATTAC
1 AAAATGGTCAATAAATCTAAGAAATTATTAC
* *
1031931 AAAATGGTCAATAAATCTATGAAATTTTTAC
1 AAAATGGTCAATAAATCTAAGAAATTATTAC
1031962 AAAATGGTC
1 AAAATGGTC
1031971 CTTCAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (31 bp):
AAAATGGTCAATAAATCTAAGAAATTATTAC
Found at i:1033018 original size:13 final size:15
Alignment explanation
Indices: 1032986--1033018 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1032976 CTTTGATTAT
1032986 TTTTAACTATTTTGA
1 TTTTAACTATTTTGA
1033001 TTTTAAC-ATTTT-A
1 TTTTAACTATTTTGA
1033014 TTTTA
1 TTTTA
1033019 TGATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 5 0.28
15 7 0.39
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (15 bp):
TTTTAACTATTTTGA
Found at i:1039309 original size:2 final size:2
Alignment explanation
Indices: 1039302--1039329 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1039292 AATAGAGCGA
1039302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1039330 TTATTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1039822 original size:23 final size:23
Alignment explanation
Indices: 1039796--1039843 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1039786 ATAAAGTACA
*
1039796 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1039819 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1039842 AT
1 AT
1039844 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1040588 original size:18 final size:18
Alignment explanation
Indices: 1040565--1040601 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1040555 CGAAATATAT
1040565 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1040583 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1040601 A
1 A
1040602 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1040831 original size:23 final size:23
Alignment explanation
Indices: 1040805--1040869 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
1040795 ATGCGAGATA
1040805 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
1040828 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
1040851 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
1040870 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:1041246 original size:21 final size:20
Alignment explanation
Indices: 1041221--1041274 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1041211 GATAGACACT
1041221 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
1041242 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
1041265 TTACATTATA
1 TTACAATATA
1041275 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:1041262 original size:23 final size:23
Alignment explanation
Indices: 1041236--1041298 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1041226 ATATAACCAT
1041236 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1041259 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1041282 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1041299 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1044517 original size:367 final size:368
Alignment explanation
Indices: 1043844--1044697 Score: 1631
Period size: 367 Copynumber: 2.3 Consensus size: 368
1043834 TTTTAAATGG
* *
1043844 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1043909 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAA-TATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1043973 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
1044038 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
1044103 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
*
1044168 TGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044211 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1044276 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1044341 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAATA-GGACATAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
1044405 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
196 AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
1044470 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
261 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
1044535 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
326 TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044578 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
1044643 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1044698 ATGTTGAAAG
Statistics
Matches: 479, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
367 414 0.86
368 65 0.14
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (368 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
AGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTA
TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
TGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:1044522 original size:183 final size:184
Alignment explanation
Indices: 1043844--1044697 Score: 1631
Period size: 184 Copynumber: 4.7 Consensus size: 184
1043834 TTTTAAATGG
* *
1043844 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1043909 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAA-TATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1043973 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044027 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1044092 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1044157 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044211 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1044276 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
1044341 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044395 TA-GGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1044459 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1044524 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
1044578 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
1044643 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1044698 ATGTTGAAAG
Statistics
Matches: 662, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
183 298 0.45
184 364 0.55
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:1046061 original size:3 final size:3
Alignment explanation
Indices: 1046053--1046139 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
1046043 ACTTGTTTGG
* * * **
1046053 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
1046101 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1046140 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1046076 original size:18 final size:18
Alignment explanation
Indices: 1046053--1046154 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
1046043 ACTTGTTTGG
1046053 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
1046071 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
1046089 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
1046107 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
1046125 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
1046143 AGCTTCATCTTC
1 ATCATCATCTTC
1046155 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:1046120 original size:42 final size:42
Alignment explanation
Indices: 1046061--1046151 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
1046051 GGATCATCAT
*
1046061 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
1046103 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
1046145 CTTCATC
1 CTTCATC
1046152 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:1048006 original size:198 final size:197
Alignment explanation
Indices: 1047616--1048037 Score: 751
Period size: 198 Copynumber: 2.1 Consensus size: 197
1047606 TTTAAATTAG
*
1047616 TATCGACACAAA-ATATTAGTGTCGACACATTATTTAGACATATCTCTCATAAAACCGGTATTAT
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACATATCTCTCATAAAACCGGTATAAT
1047680 TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
66 TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
*
1047745 ACACGTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-AAAAA
131 ACACGTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGGAAAAAA
1047809 AA
196 AA
1047811 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACATA-TCTCTCATAAAACCGGTATA
1047876 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1047941 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAA
129 CGACAC-GTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGGAAA
1048005 AAAAA
193 AAAAA
*
1048010 TATCGACACAAACATATTAGTATCGACA
1 TATCGACACAAACATATTAGTGTCGACA
1048038 TGACCCTTAA
Statistics
Matches: 217, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
195 12 0.06
197 30 0.14
198 106 0.49
199 69 0.32
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACATATTAGTGTCGACACATTATTTAGACATATCTCTCATAAAACCGGTATAAT
TGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
ACACGTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGGAAAAAA
AA
Found at i:1048142 original size:19 final size:19
Alignment explanation
Indices: 1048115--1048159 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1048105 ATTCACATAA
*
1048115 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
1048134 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
1048153 AAAATTA
1 AAAATTA
1048160 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1049977 original size:33 final size:33
Alignment explanation
Indices: 1049940--1050005 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1049930 CATCTTAATA
*
1049940 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
1049973 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
1050006 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:1052145 original size:24 final size:24
Alignment explanation
Indices: 1052108--1052160 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1052098 CCGTTCTATC
1052108 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1052132 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1052156 TATTT
1 TATTT
1052161 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1052497 original size:20 final size:20
Alignment explanation
Indices: 1052470--1052516 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1052460 ACACTTTTAA
1052470 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1052489 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1052510 TTTTACC
1 TTTTACC
1052517 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1057142 original size:16 final size:16
Alignment explanation
Indices: 1057121--1057170 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
1057111 TTATAGACTG
*
1057121 AAAGTTAAAATCTATA
1 AAAGTTGAAATCTATA
1057137 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
1057153 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
1057169 AA
1 AA
1057171 CATTAGTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (16 bp):
AAAGTTGAAATCTATA
Found at i:1058454 original size:80 final size:78
Alignment explanation
Indices: 1058315--1058492 Score: 284
Period size: 80 Copynumber: 2.2 Consensus size: 78
1058305 TTGAATATAA
* *
1058315 TCGAACTCGAATGTCTTTAGCAGATAGCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTT
1 TCGAACTC-AAGGTCTTTGGCAGATAGCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTT
1058380 GGAGCTGAGCGTAG
65 GGAGCTGAGCGTAG
** *
1058394 TCGAACTCATAGGTCTTTGGCAGATAGCCCTTCTCGACTTATTCTATGCTGCAAATGATGTGCCT
1 TCGAACTCA-AGGTCTTTGGCAGATAG-CCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
1058459 TGGAGCTGAGCGTAG
64 TGGAGCTGAGCGTAG
1058474 TCGAACTCAAGGTCTTTGG
1 TCGAACTCAAGGTCTTTGG
1058493 TTGGGCACGA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 33 0.36
80 58 0.63
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (78 bp):
TCGAACTCAAGGTCTTTGGCAGATAGCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTG
GAGCTGAGCGTAG
Found at i:1058986 original size:104 final size:106
Alignment explanation
Indices: 1058546--1059714 Score: 1753
Period size: 103 Copynumber: 11.3 Consensus size: 106
1058536 CCCATTCTTT
* * * * * * **
1058546 GTGAGGTTGAACTTGCGTTGTCTTGAATCCAATATCCTTTGCTATGAAGTTGAAATTAACTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* * * *
1058611 AATTGGGAAATTATTTATTGGACAACCAGCGGT-CCTTCGTC
66 AATTGAGAAGTTGTTTGTT-GACAACCAGCGGTCCCTTCGTC
* * *
1058652 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTTGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1058717 AATTGAGAAGTTGTTTGTTGACAACCAGCGGT-CCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
1058757 GTGAAGTTGAACTTGCGTTG--TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
1058820 AATTGAGAAGTTGTTTGTTGACTACCAGCGGTCCCTTCGT-
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
1058860 -TGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTATCC-TCGTTGTAAAGTTGAAATTGGCTCTG-
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
1058922 GATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
1058963 GTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1059028 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ***
1059069 GTGAAGTTTGAACATGCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTG
1 GTGAAG-TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1059133 AAA-TG-GAAGTTG-TTGTTGACAACCAGCGGT-CCTTCGTC
65 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ** *
1059171 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCC-TCGTTGCGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
1059235 AATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* ** *
1059275 GTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTG-AATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
*
1059339 AATTGGGAAGTTG-TTGTTGACAACCAGCGGT-CCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
1059378 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1059443 AATTGAGAAGTTGTTT-TTGAC-ACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
1059482 GTGAAGTTG-ACATGCGTTG--TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1059544 AATTGAGAA--TGTTTG-TGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
* *
1059582 GTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
* *
1059647 AATCGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTC
66 AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
1059687 GTGAAGTTGAACTTGCGTTGTCTCGAGT
1 GTGAAGTTGAACTTGCGTTGTCTGGAGT
1059715 GGCACGATAC
Statistics
Matches: 994, Mismatches: 46, Indels: 47
0.91 0.04 0.04
Matches are distributed among these distances:
99 9 0.01
100 43 0.04
101 100 0.10
102 72 0.07
103 262 0.26
104 201 0.20
105 132 0.13
106 129 0.13
107 46 0.05
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
AATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC
Found at i:1059160 original size:311 final size:311
Alignment explanation
Indices: 1058551--1059707 Score: 1704
Period size: 311 Copynumber: 3.7 Consensus size: 311
1058541 TCTTTGTGAG
* * * **
1058551 GTTGAACTTGCGTTGTCTTGAATCCAATATCCT--TTGCTATGAAGTTGAAATTAACTCTGAAAT
1 GTTGAACATGCGTTGTCTGGAGTCCAATATCCTCGTTG-TA--AAGTTGAAATTGGCTCTGAAAT
* * * *
1058614 TGGGAAATTATTTATTGGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
63 TGAGAAGTTGTTTATT-GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGA
* * *
1058678 GTCCAATGTCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
127 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
1058743 AGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
192 AGCGGTCCTTCGTCGTGAAGTTGAACTTGCGTTGTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
1058808 AATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACTACCAGCGGTCCCTTCGT-TGAA
257 AATTGGCTCTGAAATTGAGAAGTTG-TTGTTGAC-ACCAGCGGTCCCTTCGTCTGAA
* * *
1058864 GTTGAACTTGCGTTGTCTGGAGTCCAGTATCCTCGTTGTAAAGTTGAAATTGGCTCTG-GATTGA
1 GTTGAACATGCGTTGTCTGGAGTCCAATATCCTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGA
1058928 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1058993 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
131 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
1059058 GTCCCTTCGTCGTGAAGTTTGAACATGCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGA
196 GT-CCTTCGTCGTGAAG-TTGAACTTGCGTTGT--GGAGTCCAATATCCTTCGTTGTGAAGTTGA
1059123 AA-TGGCTCTGAAA-TG-GAAGTTGTTGTTGACAACCAGCGGT-CCTTCGTCGTGAA
257 AATTGGCTCTGAAATTGAGAAGTTGTTGTTGAC-ACCAGCGGTCCCTTCGTC-TGAA
** ** *
1059176 GTTGAACATGCGTTGTCAAGAGTCCAATATCCTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGG
1 GTTGAACATGCGTTGTCTGGAGTCCAATATCCTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGA
* **
1059241 GAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
1059305 AATATCATTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
131 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
1059368 GTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
196 GTCCTTCGTCGTGAAGTTGAACTTGCGTTG--TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1059433 TTGGCTCTGAAATTGAGAAGTTGTTTTTGACACCAGCGGTCCCTTCGTCGTGAA
259 TTGGCTCTGAAATTGAGAAGTTGTTGTTGACACCAGCGGTCCCTTCGTC-TGAA
*
1059487 GTTG-ACATGCGTTG--TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
1 GTTGAACATGCGTTGTCTGGAGTCCAATATCC-TCGTTGTAAAGTTGAAATTGGCTCTGAAATTG
* * *
1059549 AGAA--TGTTT-GTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTC
65 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTC
* * *
1059611 CAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGC
130 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC
1059675 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
195 GGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGT
1059708 CTCGAGTGGC
Statistics
Matches: 776, Mismatches: 47, Indels: 48
0.89 0.05 0.06
Matches are distributed among these distances:
307 75 0.10
308 94 0.12
309 87 0.11
310 60 0.08
311 188 0.24
312 168 0.22
313 57 0.07
314 13 0.02
315 34 0.04
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (311 bp):
GTTGAACATGCGTTGTCTGGAGTCCAATATCCTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGA
GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCTTCGTCGTGAAGTTGAACTTGCGTTGTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAGTTGTTGTTGACACCAGCGGTCCCTTCGTCTGAA
Found at i:1060147 original size:209 final size:212
Alignment explanation
Indices: 1059785--1060610 Score: 1356
Period size: 209 Copynumber: 4.0 Consensus size: 212
1059775 CCTTGACTTG
* * * *
1059785 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1059850 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1059914 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
*
1059979 TGCGTTGTAAAGAGTCC
196 TGCGTTGTCAAGAGTCC
*
1059996 AATATCCTTCGTTGTGAAG-TGAAATTGGCTCTG-AATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
** *
1060058 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
1060123 ATTGGCTCTGAAATTGGGAAGTTG--TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
1060186 TGCGTTGTCAAGAGTCC
196 TGCGTTGTCAAGAGTCC
* *
1060203 AA-ATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
1060266 GTCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1060330 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
**
1060395 TGCGTTGTCTGGAGTCC
196 TGCGTTGTCAAGAGTCC
*
1060412 AATAT-CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
1060475 GTCCCTTCGTCGTGAAGTTGAACTTACG-TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* * * *
1060539 ATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAACT
131 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
1060602 TGCGTTGTC
196 TGCGTTGTC
1060611 TCGAGTGGCA
Statistics
Matches: 581, Mismatches: 26, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
206 15 0.03
207 160 0.28
208 129 0.22
209 240 0.41
210 19 0.03
211 18 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (212 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
TGCGTTGTCAAGAGTCC
Found at i:1060192 original size:104 final size:105
Alignment explanation
Indices: 1059785--1060616 Score: 1299
Period size: 104 Copynumber: 8.0 Consensus size: 105
1059775 CCTTGACTTG
* * * * *
1059785 AATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1059850 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1059891 -ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
***
1059955 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTAAAGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
1059996 AATATCCTTCGTTGTGAAG-TGAAATTGGCTCTG-AATTGGGAAGTTGTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
**
1060059 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1060099 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
**
1060163 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1060203 AA-ATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
1060267 TCCCTTCGTCGTGAAGTTGAAC-TGCGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
1060306 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1060371 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
1060412 AATAT-CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
* *
1060475 GTCCCTTCGTCGTGAAGTTGAACTTACG-TGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* * * *
1060515 AATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
* *
1060579 GT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
65 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGT
1060617 GGCACGATAC
Statistics
Matches: 692, Mismatches: 25, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
103 175 0.25
104 276 0.40
105 201 0.29
106 40 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (105 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
Found at i:1061191 original size:105 final size:105
Alignment explanation
Indices: 1060688--1062287 Score: 2401
Period size: 105 Copynumber: 15.5 Consensus size: 105
1060678 CTTGACTTGA
* *
1060688 AATATCCTTCG-TGTGAAGTTGAAATTGGCTCTG-GATTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
*
1060751 GTCCCTTCGTCGTGAAGTTGAACATGCG-TGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1060791 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-T-TTGTTGACAA-CAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
* ***
1060853 TCCCTTCGTCGTGAAGTTG-ACATGCGTTGTAAAGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1060892 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGGGAAGTTGTTGTTGACAACCAGC-G
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
* **
1060955 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG-CC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
1060994 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TGTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
* **
1061058 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
1061098 AATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
*
1061163 TCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1061203 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-T-TTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
*
1061266 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1061306 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
*
1061370 GTCCCTTCGTCGTGAAGTTGAAACTTACGTTGT-TGGAGTCC
65 GTCCCTTCGTCGTGAAGTTG-AACTTGCGTTGTCTGGAGTCC
* * *
1061411 AATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
1061475 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1061516 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AGTTGTTGTTGACAAGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
1061580 TCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
1061619 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
* *
1061681 TCCCTTCG-CGTGAAGTTGAACATACGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* * *
1061720 AATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC-ACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
1061784 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1061825 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
*
1061890 GTCCCTTCGTCGTGAAGTTGAACTTGTG-TGT-TGGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
1061929 AATATCCTTCGTTGTGAAGTTGAAATTGG--CTGAAATTGAGAAGTTGTT-TGTGACAACCAGTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGT-TGACAACCAGCG
*
1061991 GTCCC-T--TCGTGAAGTTGAACTTGTGTTGTCTGGAGGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA-GTCC
* * * * * *
1062030 ACTATCCTTCGCTGTGAAGTTGAAATTGACTC---AATTGGAAAAATTGTTTATTGACAACCAGC
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAGTTG-TTGTTGACAACCAGC
1062092 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
64 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1062134 AATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCG
* **
1062198 GTCCCTTCG-CGTGAAGTTGAACATGCGTTGTCAAGAGTCC
65 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
* *
1062238 AATATCCTTCGTTGTGAAG-TGAAATTGGCTCTAAAATTGGGAAGTTGTTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTG
1062288 AGGTGTAGCT
Statistics
Matches: 1396, Mismatches: 60, Indels: 82
0.91 0.04 0.05
Matches are distributed among these distances:
98 19 0.01
99 3 0.00
100 30 0.02
101 217 0.16
102 129 0.09
103 263 0.19
104 247 0.18
105 441 0.32
106 47 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (105 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
Found at i:1061279 original size:208 final size:209
Alignment explanation
Indices: 1060688--1062288 Score: 2449
Period size: 208 Copynumber: 7.8 Consensus size: 209
1060678 CTTGACTTGA
* *
1060688 AATATCCTTCG-TGTGAAGTTGAAATTGGCTCTG-GATTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
1060751 GTCCCTTCGTCGTGAAGTTGAACATGCG-TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1060815 ATTGGCTCTGAAATTGAGAAGTTTGTTGACAA-CAGCGGTCCCTTCGTCGTGAAGTTG-ACATGC
131 ATTGGCTCTGAAATTGAGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
***
1060878 GTTGTAAAGAGTCC
196 GTTGTCTGGAGTCC
*
1060892 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGGGAAGTTG-TTGTTGACAACCAGC-
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* ** *
1060954 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG-CCAATATCCTTCGTTGCGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
1061018 ATTGGCTCTGAAATTGGGAAGTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
131 ATTGGCTCTGAAATTGAGAAGT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
**
1061083 CGTTGTCAAGAGTCC
195 CGTTGTCTGGAGTCC
* *
1061098 AATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* *
1061162 GTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1061227 ATTGGCTCTGAAATTGAGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
131 ATTGGCTCTGAAATTGAGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
1061292 GTTGTCTGGAGTCC
196 GTTGTCTGGAGTCC
*
1061306 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
1061370 GTCCCTTCGTCGTGAAGTTGAAACTTACGTTGT-TGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 GTCCCTTCGTCGTGAAGTTG-AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * *
1061434 AATTGACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 AATTGGCTCTGAAATTGAG-AA-GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
1061499 TGCGTTGTCTGGAGTCC
193 TGCGTTGTCTGGAGTCC
*
1061516 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AGTTG-TTGTTGACAAGCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
*
1061579 GTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
1061643 ATTGGCTCTGAAATTGGGAAG-TTGTTGACAACCAGCGGTCCCTTCG-CGTGAAGTTGAACATAC
131 ATTGGCTCTGAAATTGAGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
1061706 GTTGTCTGGAGTCC
196 GTTGTCTGGAGTCC
* * *
1061720 AATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGAC-ACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1061784 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
1061849 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACT
131 ATTGGCTCTGAAATTGAGAA---GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACA
*
1061914 TGTG-TGT-TGGAGTCC
193 TGCGTTGTCTGGAGTCC
*
1061929 AATATCCTTCGTTGTGAAGTTGAAATTGG--CTGAAATTGAGAAGTTGTTTG-TGACAACCAGTG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* * *
1061991 GTCCC-T--TCGTGAAGTTGAACTTGTGTTGTCTGGAGGTCCACTATCCTTCGCTGTGAAGTTGA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA-GTCCAATATCCTTCGTTGTGAAGTTGA
* * *
1062053 AATTGACTC---AATTGGAAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
130 AATTGGCTCTGAAATT-G-AGAA--GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
1062115 CTTGCGTTGTCTGGAGTCC
191 CATGCGTTGTCTGGAGTCC
1062134 AATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
* **
1062198 GTCCCTTCG-CGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAG-TGAA
66 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
1062261 ATTGGCTCTAAAATTGGGAAG-TTGTTGA
131 ATTGGCTCTGAAATTGAGAAGTTTGTTGA
1062289 GGTGTAGCTT
Statistics
Matches: 1290, Mismatches: 69, Indels: 75
0.90 0.05 0.05
Matches are distributed among these distances:
202 4 0.00
203 120 0.09
204 161 0.12
205 167 0.13
206 156 0.12
207 97 0.08
208 285 0.22
209 152 0.12
210 133 0.10
211 15 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (209 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
ATTGGCTCTGAAATTGAGAAGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
GTTGTCTGGAGTCC
Found at i:1061813 original size:309 final size:312
Alignment explanation
Indices: 1060688--1062288 Score: 2409
Period size: 309 Copynumber: 5.2 Consensus size: 312
1060678 CTTGACTTGA
* *
1060688 AATATCCTTCG-TGTGAAGTTGAAATTGGCTCTG-GATTGAGAAGTTGTTTATTGACAACCAGCG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG----TTGACAACCAGCG
1060751 GTCCCTTCGTCGTGAAGTTGAACATGCG-TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
62 GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
1060815 ATTGGCTCTGAAATTGAGAA--GTTTGTTGACAA-CAGCGGTCCCTTCGTCGTGAAGTTG-ACAT
127 ATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*** *
1060876 GCGTTGTAAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGGGAAGTTGT
192 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGT
**
1060940 TGTTGACAACCAGC-GTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG-CC
257 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1060994 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTGTTGTTGACAACCAGCGGT
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA--GTTGTTGACAACCAGCGGT
** *
1061059 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCATTCGTTGTGAAGTTGAAAT
64 CCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
*
1061124 TGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAATTGAACTTG
129 TGGCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
*
1061188 CGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-T-TT
193 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
1061251 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
258 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1061306 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAA-G-TTGTTGACAACCAGCGG
* *
1061371 TCCCTTCGTCGTGAAGTTGAAACTTACGTTGT-TGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
63 TCCCTTCGTCGTGAAGTTG-AACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* * * *
1061435 ATTGACTCTGAAATCGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
127 ATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
1061500 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AGTTGT
192 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGT
* *
1061564 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCC
257 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1061619 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGACAACCAGCGGTCC
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGACAACCAGCGGTCC
* *
1061684 CTTCG-CGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTG
66 CTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
1061748 GCTCTGAAATTGGGAAGTTGTTTATTGAC-ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
131 GCTCTGAAATTGGGAA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCG
1061812 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTG
195 TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTG
* * *
1061877 TTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTG-TGT-TGGAGTCC
259 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
* *
1061929 AATATCCTTCGTTGTGAAGTTGAAATTGG--CTGAAATTGAGAAGTTGTTTGTGACAACCAGTGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG--T-TGACAACCAGCGG
* * * *
1061992 TCCC-T--TCGTGAAGTTGAACTTGTGTTGTCTGGAGGTCCACTATCCTTCGCTGTGAAGTTGAA
63 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGA-GTCCAATATCCTTCGTTGTGAAGTTGAA
* * *
1062054 ATTGACTC---AATTGGAAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
127 ATTGGCTCTGAAATTGG--GAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
1062116 TTGCGTTGTCTGGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
190 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
**
1062180 GTTTGTTGACAACCAGCGGTCCCTTCG-CGTGAAGTTGAACATGCGTTGTCAAGAGTCC
255 G-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
*
1062238 AATATCCTTCGTTGTGAAG-TGAAATTGGCTCTAAAATTGGGAAGTTGTTGA
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGA
1062289 GGTGTAGCTT
Statistics
Matches: 1199, Mismatches: 60, Indels: 71
0.90 0.05 0.05
Matches are distributed among these distances:
306 52 0.04
307 98 0.08
308 120 0.10
309 268 0.22
310 170 0.14
311 140 0.12
312 65 0.05
313 244 0.20
314 42 0.04
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (312 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGACAACCAGCGGTCC
CTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
GCTCTGAAATTGGGAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGT
TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTT
GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCC
Found at i:1066055 original size:16 final size:16
Alignment explanation
Indices: 1066028--1066076 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
1066018 TTATAGACTG
1066028 AAAGTT-AAATCTATA
1 AAAGTTGAAATCTATA
1066043 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
1066059 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
1066075 AA
1 AA
1066077 CATTAGTGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 6 0.18
16 27 0.82
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (16 bp):
AAAGTTGAAATCTATA
Done.